Details for: TFCP2L1

Gene ID: 29842

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: TFCP2L1

Ensembl ID: ENSG00000115112

Description: transcription factor CP2 like 1

Cell Significance Landscape

Associated with

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • ionocyte CL0005006
    CSI 43.57
    rCSI 46.7%
    PRS 76.82
  • duct epithelial cell CL0000068
    CSI 35.25
    rCSI 51.58%
    PRS 80.88
  • pulmonary ionocyte CL0017000
    CSI 27.44
    rCSI 33.4%
    PRS 82.77
  • ciliated epithelial cell CL0000067
    CSI 16.97
    rCSI 14.92%
    PRS 64.53
  • secretory cell CL0000151
    CSI 14.65
    rCSI 15.29%
    PRS 75.51
  • renal alpha-intercalated cell CL0005011
    CSI 14.36
    rCSI 19.2%
    PRS 82.75
  • kidney connecting tubule epithelial cell CL1000768
    CSI 13.1
    rCSI 33.23%
    PRS 65.87
  • innate lymphoid cell CL0001065
    CSI 12.12
    rCSI 25.03%
    PRS 74.18
  • intestine goblet cell CL0019031
    CSI 12.1
    rCSI 10.74%
    PRS 73.84
  • helper T cell CL0000912
    CSI 10.9
    rCSI 15.41%
    PRS 76.36
  • enterocyte of epithelium of large intestine CL0002071
    CSI 9.75
    rCSI 51.21%
    PRS 82.7
  • nasal mucosa goblet cell CL0002480
    CSI 9.39
    rCSI 10.88%
    PRS 80.62
  • kidney loop of Henle thin descending limb epithelial cell CL1001111
    CSI 8.18
    rCSI 11.6%
    PRS 72.37
  • renal beta-intercalated cell CL0002201
    CSI 7.87
    rCSI 18.77%
    PRS 76.1
  • acinar cell CL0000622
    CSI 7.74
    rCSI 11.35%
    PRS 85.94
  • kidney loop of Henle thin ascending limb epithelial cell CL1001107
    CSI 7.5
    rCSI 19.39%
    PRS 70.95
  • goblet cell CL0000160
    CSI 7.46
    rCSI 7.05%
    PRS 75.02
  • epithelial cell of lower respiratory tract CL0002632
    CSI 6.72
    rCSI 5.21%
    PRS 79.41
  • colon epithelial cell CL0011108
    CSI 6.42
    rCSI 6.72%
    PRS 73.11
  • myoepithelial cell CL0000185
    CSI 6.14
    rCSI 15.53%
    PRS 81.58
  • CD8-positive, alpha-beta memory T cell, CD45RO-positive CL0001203
    CSI 6.09
    rCSI 7.38%
    PRS 57.73
  • kidney collecting duct principal cell CL1001431
    CSI 5.59
    rCSI 28.13%
    PRS 73.68
  • alveolar macrophage CL0000583
    CSI 5.11
    rCSI 8.42%
    PRS 80.5
  • transit amplifying cell of colon CL0009011
    CSI 4.97
    rCSI 5.84%
    PRS 77.83
  • choroid plexus epithelial cell CL0000706
    CSI 4.94
    rCSI 8.09%
    PRS 65.1
  • epithelial cell of proximal tubule CL0002306
    CSI 4.82
    rCSI 11.77%
    PRS 68.52
  • melanocyte of skin CL1000458
    CSI 4.66
    rCSI 6.36%
    PRS 43.02
  • chondrocyte CL0000138
    CSI 4.6
    rCSI 7.31%
    PRS 68.51
  • enterocyte CL0000584
    CSI 4.56
    rCSI 7.35%
    PRS 75.86
  • brush cell of tracheobronchial tree CL0002075
    CSI 4.53
    rCSI 13.45%
    PRS 84.87
  • kidney collecting duct intercalated cell CL1001432
    CSI 4.42
    rCSI 31.58%
    PRS 74.61
  • intestinal crypt stem cell of small intestine CL0009017
    CSI 4.39
    rCSI 11.84%
    PRS 81.47
  • multi-ciliated epithelial cell CL0005012
    CSI 4.39
    rCSI 4.38%
    PRS 69.61
  • mucus secreting cell CL0000319
    CSI 4.38
    rCSI 6.95%
    PRS 85.2
  • astrocyte of the cerebral cortex CL0002605
    CSI 4.23
    rCSI 9.49%
    PRS 58.02
  • renal interstitial pericyte CL1001318
    CSI 4.11
    rCSI 11.32%
    PRS 70.79
  • fallopian tube secretory epithelial cell CL4030006
    CSI 3.99
    rCSI 3.84%
    PRS 75.26
  • tuft cell of colon CL0009041
    CSI 3.9
    rCSI 9.1%
    PRS 83.01
  • pulmonary alveolar type 2 cell CL0002063
    CSI 3.83
    rCSI 5.95%
    PRS 80.71
  • macula densa epithelial cell CL1000850
    CSI 3.64
    rCSI 52.21%
    PRS 81.37
  • lung secretory cell CL1000272
    CSI 3.57
    rCSI 8.83%
    PRS 75.24
  • basal cell of epidermis CL0002187
    CSI 3.54
    rCSI 6.27%
    PRS 45.82
  • squamous epithelial cell CL0000076
    CSI 3.34
    rCSI 7.93%
    PRS 77.01
  • kidney interstitial alternatively activated macrophage CL1000695
    CSI 3.34
    rCSI 8.71%
    PRS 76.53
  • respiratory basal cell CL0002633
    CSI 3.28
    rCSI 3.39%
    PRS 80.65
  • cytotoxic T cell CL0000910
    CSI 3.05
    rCSI 17.49%
    PRS 81.27
  • ciliated cell CL0000064
    CSI 2.98
    rCSI 4.83%
    PRS 71.26
  • conjunctival epithelial cell CL1000432
    CSI 2.76
    rCSI 4.22%
    PRS 76.22
  • placental villous trophoblast CL2000060
    CSI 2.75
    rCSI 4.25%
    PRS 75.03
  • intestinal tuft cell CL0019032
    CSI 2.64
    rCSI 4.03%
    PRS 80.02
  • foveolar cell of stomach CL0002179
    CSI 2.6
    rCSI 5.53%
    PRS 83.34
  • BEST4+ enteroycte CL4030026
    CSI 2.59
    rCSI 3.22%
    PRS 77.18
  • club cell CL0000158
    CSI 2.53
    rCSI 3.71%
    PRS 70.62
  • Kupffer cell CL0000091
    CSI 2.53
    rCSI 5.78%
    PRS 76.71
  • tracheal goblet cell CL1000329
    CSI 2.43
    rCSI 5.3%
    PRS 84.25
  • luminal epithelial cell of mammary gland CL0002326
    CSI 2.41
    rCSI 4.39%
    PRS 87.11
  • kidney distal convoluted tubule epithelial cell CL1000849
    CSI 2.08
    rCSI 22.07%
    PRS 72.55
  • acinar cell of salivary gland CL0002623
    CSI 2.07
    rCSI 48.25%
    PRS 89.24
  • parietal epithelial cell CL1000452
    CSI 2.02
    rCSI 5.4%
    PRS 66.96
  • suprabasal keratinocyte CL4033013
    CSI 2.02
    rCSI 3.3%
    PRS 42.81
  • kidney loop of Henle thick ascending limb epithelial cell CL1001106
    CSI 1.98
    rCSI 17.09%
    PRS 71.1
  • serous secreting cell CL0000313
    CSI 1.94
    rCSI 9.8%
    PRS 91.49
  • mucous neck cell CL0000651
    CSI 1.89
    rCSI 2.73%
    PRS 83.89
  • small intestine goblet cell CL1000495
    CSI 1.88
    rCSI 4.11%
    PRS 82.02
  • kidney connecting tubule principal cell CL4030018
    CSI 1.82
    rCSI 13.17%
    PRS 84.94
  • renal principal cell CL0005009
    CSI 1.55
    rCSI 4.04%
    PRS 77.45
  • colon goblet cell CL0009039
    CSI 1.5
    rCSI 3.56%
    PRS 82.53
  • transit amplifying cell CL0009010
    CSI 1.46
    rCSI 2.23%
    PRS 85.48
  • intestinal crypt stem cell of colon CL0009043
    CSI 1.41
    rCSI 10.59%
    PRS 87.18
  • respiratory suprabasal cell CL4033048
    CSI 1.26
    rCSI 1.61%
    PRS 79.56
  • serous secreting cell of bronchus submucosal gland CL4033005
    CSI 1.23
    rCSI 6.98%
    PRS 86.94
  • glandular epithelial cell CL0000150
    CSI 1.18
    rCSI 3.11%
    PRS 89.02
  • podocyte CL0000653
    CSI 1.07
    rCSI 4.74%
    PRS 76.23
  • tracheobronchial serous cell CL0019001
    CSI 0.68
    rCSI 2.94%
    PRS 84.21
  • kidney loop of Henle epithelial cell CL1000909
    CSI 0.39
    rCSI 8.27%
    PRS 92.84

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

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Comma-separated if multiple.
Legend:
  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary [TFCP2L1](/details-gene/29842) (transcription factor CP2 like 1) is a protein-coding gene located on chromosome 2q14.2. It encodes a DNA-binding transcription factor known to play a crucial role in regulating gene expression by binding to specific DNA sequences. Functional annotations suggest its involvement in both positive and negative regulation of transcription by RNA polymerase II ([GO:0045944](https://www.ebi.ac.uk/QuickGO/term/GO:0045944), [GO:0000122](https://www.ebi.ac.uk/QuickGO/term/GO:0000122)), and it has been implicated in processes such as epithelial cell maturation ([GO:0002070](https://www.ebi.ac.uk/QuickGO/term/GO:0002070)) and the maintenance of pluripotency ([Link](https://doi.org/10.1016/j.cell.2014.08.029)). Expression data highlights its significant role in highly specialized epithelial cells, particularly [ionocytes](/details-cell/CL0005006) and [duct epithelial cells](/details-cell/CL0000068), suggesting it is a key regulator of their unique cellular functions. ## Cellular Roles and Expression Landscape The expression profile of [TFCP2L1](/details-gene/29842) indicates a highly specialized function, predominantly within epithelial lineages responsible for transport and secretion. **Overall**, the gene shows the highest significance in [ionocytes](/details-cell/CL0005006) (CSI: 43.57), a cell type critical for ion and water transport across epithelial barriers. This pattern is reinforced by its high significance in related cell types such as [pulmonary ionocytes](/details-cell/CL0017000) (CSI: 27.44) and renal epithelial cells, including [renal alpha-intercalated cells](/details-cell/CL0005011) (CSI: 14.36) and [kidney connecting tubule epithelial cells](/details-cell/CL1000768) (CSI: 13.10). A second prominent theme is its role in secretory and ductal epithelial cells. [TFCP2L1](/details-gene/29842) is a significant marker for [duct epithelial cells](/details-cell/CL0000068) (CSI: 35.25), [ciliated epithelial cells](/details-cell/CL0000067) (CSI: 16.97), and various secretory cells including [intestine goblet cells](/details-cell/CL0019031) (CSI: 12.10) and [acinar cells](/details-cell/CL0000622) (CSI: 7.74). This suggests its involvement in governing the transcriptional programs essential for mucin production, fluid secretion, and the maintenance of ductal integrity in glands and mucosal surfaces. While its primary role appears to be in epithelial biology, a moderate signal in some immune populations, such as [innate lymphoid cells](/details-cell/CL0001065) (CSI: 12.12) and [helper T cells](/details-cell/CL0000912) (CSI: 10.90), may suggest a secondary, context-dependent function within the immune system, possibly at mucosal interfaces. ## Pathways and Molecular Function Functionally, [TFCP2L1](/details-gene/29842) operates as a DNA-binding transcription factor. Its molecular activities are well-defined by its annotations, including sequence-specific DNA binding ([GO:1990837](https://www.ebi.ac.uk/QuickGO/term/GO:1990837)) and DNA-binding transcription activator activity ([GO:0001228](https://www.ebi.ac.uk/QuickGO/term/GO:0001228)). The protein localizes to the [nucleus](/details-cell/GO:0005634) and [chromatin](/details-cell/GO:0000785), consistent with its role in transcriptional regulation. The biological processes associated with [TFCP2L1](/details-gene/29842) align closely with its cellular expression profile. Its documented role in 'epithelial cell maturation' ([GO:0002070](https://www.ebi.ac.uk/QuickGO/term/GO:0002070)) and 'salivary gland development' ([GO:0007431](https://www.ebi.ac.uk/QuickGO/term/GO:0007431)) provides a direct molecular basis for its high significance in the various ductal and secretory epithelial cells. Furthermore, research has identified [TFCP2L1](/details-gene/29842) as a factor capable of resetting human cells towards ground-state pluripotency, highlighting its potent ability to control cell fate and differentiation programs ([Link](https://doi.org/10.1016/j.cell.2014.08.029), [Link](https://doi.org/10.1007/s12010-016-2021-z)). This pluripotency-related function may be co-opted in adult tissues to maintain the identity and functional capacity of highly specialized, terminally differentiated cells like [ionocytes](/details-cell/CL0005006). ## Research Directions The specific and high-level expression of [TFCP2L1](/details-gene/29842) in specialized epithelial cells, combined with its known function as a transcriptional regulator, opens several avenues for future investigation. **Testable Hypotheses:** 1. **[TFCP2L1](/details-gene/29842) is a master regulator of ion transport machinery in ionocytes and intercalated cells.** Given its top ranking in these cell types, it is plausible that [TFCP2L1](/details-gene/29842) directly controls the expression of a suite of genes encoding ion channels, pumps, and transporters (e.g., CFTR, V-ATPases) that are fundamental to their physiological function in maintaining pH and electrolyte balance. 2. **[TFCP2L1](/details-gene/29842) is essential for the terminal differentiation and functional maintenance of secretory epithelial lineages.** Its high expression in [goblet cells](/details-cell/CL0019031), [acinar cells](/details-cell/CL0000622), and [duct epithelial cells](/details-cell/CL0000068), coupled with its known role in pluripotency, suggests it may orchestrate the final stages of differentiation from progenitor cells and subsequently maintain the secretory phenotype in mature cells. **Key Experimental Approach:** To test the hypothesis that [TFCP2L1](/details-gene/29842) is a master regulator in [ionocytes](/details-cell/CL0005006), a loss-of-function study could be performed. Using CRISPR-Cas9 to knock out [TFCP2L1](/details-gene/29842) in primary human bronchial epithelial cells differentiated at an air-liquid interface, which generates a mixed epithelial culture including [ionocytes](/details-cell/CL0005006), would be a robust model. Subsequent single-cell RNA sequencing (scRNA-seq) would reveal the impact on [ionocyte](/details-cell/CL0005006) abundance and identify downstream transcriptional targets. Functional validation could be achieved through electrophysiological measurements, such as using an Ussing chamber to assess changes in ion transport currents across the epithelial monolayer. **Therapeutic Potential:** As an intracellular transcription factor, [TFCP2L1](/details-gene/29842) is a challenging direct drug target. However, its high specificity for certain epithelial cell types makes it an interesting candidate for indirect therapeutic strategies. If dysregulation of [TFCP2L1](/details-gene/29842) is linked to diseases of epithelial dysfunction, such as cystic fibrosis (related to [ionocytes](/details-cell/CL0005006)) or certain forms of adenocarcinoma (arising from secretory cells), modulating its activity could be beneficial. Future therapeutic modalities like targeted protein degradation (e.g., PROTACs) or gene therapies aimed at either inhibiting its activity in a hyperproliferative setting or reactivating it to promote regeneration could be envisioned. Its role in pluripotency also suggests potential applications in regenerative medicine for generating specific epithelial tissues *in vitro*.

Genular Protein ID: 2546170293

Symbol: TF2L1_HUMAN

Name: Transcription factor CP2-like protein 1

UniProtKB Accession Codes:

Q9NZI6 Q4ZG43

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 4 Ensembl 1 GO 16 Gene3D 1 GeneCards 1 GeneTree 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MIM 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PRO 1 PROSITE 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 RNAct 1 RefSeq 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 10644752

Title: Cloning of factors related to HIV-inducible LBP proteins that regulate steroidogenic factor-1-independent human placental transcription of the cholesterol side-chain cleavage enzyme, P450scc.

PubMed ID: 10644752

DOI: 10.1074/jbc.275.4.2852

PubMed ID: 15815621

Title: Generation and annotation of the DNA sequences of human chromosomes 2 and 4.

PubMed ID: 15815621

DOI: 10.1038/nature03466

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 25215486

Title: Resetting transcription factor control circuitry toward ground-state pluripotency in human.

PubMed ID: 25215486

DOI: 10.1016/j.cell.2014.08.029

PubMed ID: 26906118

Title: Functional analysis of CP2-like domain and SAM-like domain in TFCP2L1, novel pluripotency factor of embryonic stem cells.

PubMed ID: 26906118

DOI: 10.1007/s12010-016-2021-z

Sequence Information:

  • Length: 479
  • Mass: 54627
  • Checksum: C2D0B56D0705AE75
  • Sequence:
    • MLFWHTQPEH YNQHNSGSYL RDVLALPIFK QEEPQLSPEN EARLPPLQYV LCAATSPAVK 
LHEETLTYLN QGQSYEIRLL ENRKLGDFQD LNTKYVKSII RVVFHDRRLQ YTEHQQLEGW 
RWSRPGDRIL DIDIPLSVGI LDPRASPTQL NAVEFLWDPA KRASAFIQVH CISTEFTPRK 
HGGEKGVPFR VQIDTFKQNE NGEYTEHLHS ASCQIKVFKP KGADRKQKTD REKMEKRTAQ 
EKEKYQPSYE TTILTECSPW PDVAYQVNSA PSPSYNGSPN SFGLGEGNAS PTHPVEALPV 
GSDHLLPSAS IQDAQQWLHR NRFSQFCRLF ASFSGADLLK MSRDDLVQIC GPADGIRLFN 
AIKGRNVRPK MTIYVCQELE QNRVPLQQKR DGSGDSNLSV YHAIFLEELT TLELIEKIAN 
LYSISPQHIH RVYRQGPTGI HVVVSNEMVQ NFQDESCFVL STIKAESNDG YHIILKCGL