Tcaf2 (TRPM8 channel-associated factor 2)

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Gene: Tcaf2 (TRPM8 channel-associated factor 2) Rattus norvegicus

Analyze

Symbol:

Tcaf2

Name:

TRPM8 channel-associated factor 2

RGD ID:

6487302

Description:

Predicted to enable transmembrane transporter binding activity. Predicted to be involved in negative regulation of anion channel activity; positive regulation of cell migration; and positive regulation of protein targeting to membrane. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Predicted to be located in cell junction and plasma membrane. Orthologous to several human genes including TCAF2 (TRPM8 channel associated factor 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; gentamycin; paracetamol.

Type:

protein-coding

Previously known as:

LOC100912372; LOC100912416; protein FAM115C-like; TRPM8 channel-associated factor 2-like

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TCAF2 (TRPM8 channel associated factor 2)	RGD	RGD
Mus musculus (house mouse):	Tcaf2 (TRPM8 channel-associated factor 2)	RGD	RGD
Chinchilla lanigera (long-tailed chinchilla):	Tcaf2 (TRPM8 channel associated factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TCAF2 (TRPM8 channel associated factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TCAF2 (TRPM8 channel associated factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tcaf2 (TRPM8 channel associated factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LOC110257570 (TRPM8 channel-associated factor 2-like)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TCAF2 (TRPM8 channel associated factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Tcaf2 (TRPM8 channel-associated factor 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	TCAF2 (TRPM8 channel associated factor 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	si:ch211-210b2.2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	si:ch211-210b2.4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	zgc:162193	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	si:ch211-210b2.3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	TCAF2C (TRPM8 channel associated factor 2C)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

NCBI Annotation Information:

Genome Annotation Status: not in current annotation release

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	4	71,177,974 - 71,196,286 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	71,206,876 - 71,229,575 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	135,970,128 - 135,988,378 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Cytogenetic Map	4	q23	NCBI

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-catechin (ISO)

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP)

3,3',5,5'-tetrabromobisphenol A (ISO)

4,4'-sulfonyldiphenol (ISO)

aflatoxin B1 (ISO)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

butanal (ISO)

crocidolite asbestos (ISO)

decabromodiphenyl ether (ISO)

dextran sulfate (ISO)

disodium selenite (ISO)

gentamycin (EXP)

maleic acid (ISO)

N-Nitrosopyrrolidine (ISO)

paracetamol (EXP,ISO)

potassium chromate (ISO)

silicon dioxide (ISO)

sotorasib (ISO)

trametinib (ISO)

trichloroethene (EXP)

triptonide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

hematopoietic progenitor cell differentiation (ISO)

negative regulation of anion channel activity (ISO)

positive regulation of cell migration (ISO)

positive regulation of protein targeting to membrane (ISO)

Cellular Component

cell junction (ISO)

plasma membrane (ISO)

Molecular Function

transmembrane transporter binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:24029230	PMID:25559186

Genomics

Comparative Map Data

Tcaf2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	4	71,177,974 - 71,196,286 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	71,206,876 - 71,229,575 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	135,970,128 - 135,988,378 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Cytogenetic Map	4	q23	NCBI

TCAF2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	143,620,974 - 143,730,410 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	7	143,620,952 - 143,730,410 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	143,318,067 - 143,427,503 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	143,028,667 - 143,053,107 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	7	138,603,155 - 138,611,956 (-)	NCBI		Celera
Celera	7	138,126,412 - 138,132,830 (+)	NCBI		Celera
Cytogenetic Map	7	q35	NCBI
HuRef	7	137,646,274 - 137,676,224 (+)	NCBI		HuRef
CHM1_1	7	143,336,941 - 143,364,191 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	144,980,488 - 145,010,763 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	142,735,400 - 142,765,339 (+)	NCBI

Tcaf2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	42,599,950 - 42,622,134 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	42,599,950 - 42,622,188 (-)	Ensembl		GRCm39 Ensembl
GRCm38	6	42,623,043 - 42,645,041 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	42,623,016 - 42,645,254 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	42,573,042 - 42,595,040 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	42,552,650 - 42,574,648 (-)	NCBI		MGSCv36	mm8
Celera	6	42,568,956 - 42,590,991 (-)	NCBI		Celera
Cytogenetic Map	6	B2.1	NCBI

Tcaf2
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955491	149,111 - 167,578 (-)	NCBI	ChiLan1.0	ChiLan1.0

TCAF2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1	7	32,475,446 - 32,509,061 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	135,609,379 - 135,639,928 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	148,101,028 - 148,128,916 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

TCAF2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	16	6,109,869 - 6,132,436 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	16	7,097,329 - 7,121,443 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	16	5,961,988 - 5,986,095 (+)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	16	5,909,927 - 5,934,145 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	16	5,760,372 - 5,784,463 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	16	5,836,684 - 5,860,797 (+)	NCBI		UU_Cfam_GSD_1.0

Tcaf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	11,880,117 - 11,901,589 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936527	1,001,197 - 1,022,232 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LOC110257570
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	18	6,632,982 - 6,719,077 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

TCAF2
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	21	112,519,588 - 112,547,673 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666072	9,286,663 - 9,315,585 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium
Low	3		26	10	19	10				30	27	11
Below cutoff		43	31	31		31	8	10	66	5	11		8

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_003749736	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000050392 ⟹ ENSRNOP00000050765

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	71,208,323 - 71,227,872 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000076650 ⟹ ENSRNOP00000068235

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	71,206,876 - 71,229,575 (-)	Ensembl

RefSeq Acc Id:

XM_003749736 ⟹ XP_003749784

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	4	71,177,974 - 71,196,286 (-)	NCBI
Rnor_5.0	4	135,970,128 - 135,988,378 (-)	NCBI

Sequence:

show sequence

GCTTTCATAATAGCCCCGCCCTCCTCAGCTCCGCTCCTGGAGGCCCCGCCCCAGGAAGACCCTT
ATTCAAACAGCGCTCCGCTCCTCGGCAGATACGGTCTGCCAGCAGCAACCACAAAAGTCTGGTC
CCTGTTTCTCCCAGTGTAGGGCTGGGTGTCCGAGCACTTGGGCCACGTGGGGAGGAAACCCTTA
AAGTTCCAGAAGGCTACTGGACGCCATTCCGGACAGTCAGTGAATCTTCTCGCAGCAATTGGCA
GAACCATGGCAACAACTCCTGATGCTGCTTTTGAGGCCCTCATGAATGGAGTGACCAGCTGGGA
TCTCCCTAAAGAATTCACTCCCAGTGAACTCCTTCTTATTGGAGAGGCAGCCTTCCCAGTGATG
GTGAACGACAAGGGCCAGGTGCTCATTGCTGCCTCTTTCTATGGCCAAGGCCGCCTGGTGGTCC
TATCCCATGAGGGCTACCTGCTGCATGCTGGCTTGGCTCCATTTCTTCTCAATGCAGTGAGCTG
GCTCTGCCCCTCCCCGGAGGCTCCCATTGCAGTGCATTCTTCCTTGGCATCCTTAGTTAACATC
CTCAGGGACTCTGGGGTAAACGCACTGGTTCAGCCTGAGCCTGGAGAGGCTCTGGGAGTTTTTT
GCATTGATGCCTACAATGACACCTTGACCGAGAAGCTAGTTCAGTTTGTGAAGCATGGTGGGGG
CTTGCTCATTGGAGGCCAGGCCTGCAATTGGGCCAGTCAACAGGGGAGTGACAAAGTGCTGTTC
AGTTTCCCTGGGAACCAGGTGACAAGTGTGGCTGGAGTGTACTTCACTGATGTCTATGGGGGTA
TAAACCGGTTCAAGGTCTCTAAGAAGGTACCCAAGATCCCCCTCCATATCAGGTGTTGGGAGGA
GCTCAGGCGTGACCAGGAGCAGCTTCTGGATGGGATCTCTATGTTGGACATCAGGACTGGGGGT
GTCCCCTCACAGCTGTTGGTACATGGGTCCCTGGCCTTCCCTGTGGGCCTTGATAACTCCTTCC
TTAGCTGCTTCCTAGCAGCTGCCCGCTATGGTTGTGGTCGGGTGGTGTTGGCTGCACACGAGGC
CATGCTCTGTGCTCCTAAAATGGAACCCTTTTTGCTCAATGCTATACGTTGGTTGTCCAGAGAC
CAGGGAAAGACTATTGGGGTGAACAAAAGTCTCAAGAATCTGAATTCCCTATTGTTGAAGCATG
GAGTGAAGTGCAGCCTGGAGTCCCATTTGACCAGTGATATGGGTGTCTACTGCTGTGTAGCTTA
TAGTGACCAGGATGCCAAGAAAATACAGGAGTTTGTAGCAGAGGGTGGGGGGTTGCTCATTGGT
GGTCAGTCCTGGTGGTGGGCTTCCCAGAACCAAGGCAGCTCTGCATTGCGTAGTTTCCCTGGGA
ATGTCGTCCTCAATCCCTTTGGCCTCAGCATTTTGCCTCAGACCATCAGCCCAGGCTGTTTCCC
TGTCCTTCCTATAGACATAAGGAACTACCATTTTCGAAGGGCTCTTTCTGAGTTCCAGGCTATG
GTGAACCACAAGGGTGGGAACTTGGAAAAGAAGTATTTTGGAAAATTGGGAGTAGATGGAGCAG
GCTTTCTTCAGATTCCTGCAAAGGGAGTTCCTGCTTATATATCTGTGCACCGGATCCTGAGGAA
GATGCTACGTCAGGCAGGCCTCCCTGCTGTGAGCAAGAATAACCCGGTGTCCAGTCAGTCCTGT
GAGGCTGCACTGCTCTGTCTAGCCACAGAGCTGGCACATTCTGGGACTGATTGCTCCCAGATAG
CTCATAACCATGGCACTCAGACCTGCTCCTCTGATCTCTGCTCCTCAGAACATCCCATTACAGT
GGAGATCAATGGAACCAACACAGGTGACAGTGATGTCTGGATGAGTACTGGGCTCTACCTCCTG
GAAGGACAAAGCACAGAGATTTCTCTCTCTGAACCTGCTGCCTCGGCTGGCCTGAAGGTAAGGC
AAGATATCCAGAACTAGCACCTTCCCAAGCACAGCCAAGACTCTTCCCCAAACCACACAGATGT
TCCTATCTCTCCTACTGAGTTTGTTCAGCAGGAGCTCAGGGGAAGGTTATTCTGCCCCTCTTGT
AGATGGAACAGCAGAAAGTTCAAGCTACTAGTGACCCAATCTCGTTCCGTGTGTGACAATCTTA
ACTACGTAGATGGATAAGGAAGAGCAGTGACCTTATATTACAGCATTCACCTGTTTTCCTGGTT
GCAGAGACTTGAAGTTTACGTCTTCGCCTTCTCAGTTCTGAGTATCATTTCCTACTACAATTAG
GATTTCTTTTTGGAGACAGGGTTTCTCTGTGTAGCCCTAGGTGTTGTGCTGGGATTAAAGGCAT
GTGCCAACATCACTAGCTTATTAGGGGCATTCTCTGATTTATTACTTCAATCAAAGGCAAAAAG
GAAATCCATGCCTCTAGAGAAAGTAAGTAGGGTTGAGCTGGGCAGAGGAGAGAGAACGAGTTCT
CTGCTTCCTAGCCTAATGCTGGAATATCTGGATGGACCTATATCTGTTCACAGAGGGTAGAGTG
GGACGCCATGCCCCACTTAAACCATCAGAGCCACCTAATGTTTAAGTCTCATGTAAGAGTGCAA
GATTCTGCCTGGTAATGAGACTGGGCAAGTCCCTCATCAGTGACCTGGTGACCAAGCCACTCAC
ACATACCAAATGGAAGTCCATTGTTGGACTGTTTTATATCCCCCCAAATTTCTAACATCCTGTG
AATTTCAGAAGACTTCGGAGTGCTCCAGTTTAGTACATTGTATGCATCCTTCACAGAAAAGAGA
ATTTGGGCTTTCATATATAATCACCACCCTCTGCAAGCCCCTAACGAAATCCTGCATGCTTCCT
GAATGATTTCCTTCCC

hide sequence

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:6487302	AgrOrtholog
Ensembl Genes	ENSRNOG00000030222	Ensembl
NCBI Gene	Tcaf2	ENTREZGENE
PhenoGen	Tcaf2	PhenoGen

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-07-16	Tcaf2	TRPM8 channel-associated factor 2	LOC100912416	protein FAM115C-like	Data Merged	737654	APPROVED
2015-06-30	Tcaf2	TRPM8 channel-associated factor 2	LOC100912372	protein FAM115C-like	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-05	LOC100912372	protein FAM115C-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2012-07-05	LOC100912416	protein FAM115C-like			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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