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Gene: Ttc4 (tetratricopeptide repeat domain 4) Rattus norvegicus

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Symbol:

Ttc4

Name:

tetratricopeptide repeat domain 4

RGD ID:

1308529

Description:

Predicted to enable Hsp70 protein binding activity and Hsp90 protein binding activity. Predicted to be involved in defense response to virus; innate immune response; and protein folding. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human TTC4 (tetratricopeptide repeat domain 4); INTERACTS WITH 3,3',4,4',5-pentachlorobiphenyl; acrylamide; bisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC362556; tetratricopeptide repeat protein 4

RGD Orthologs

Alliance Orthologs

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):	TTC4 (tetratricopeptide repeat domain 4)	HGNC	Ensembl, Inparanoid, NCBI, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Ttc4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ttc4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TTC4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TTC4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ttc4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TTC4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TTC4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ttc4 (tetratricopeptide repeat domain 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	TTC4 (tetratricopeptide repeat domain 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ttc4 (tetratricopeptide repeat domain 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ttc4 (tetratricopeptide repeat domain 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	CNS1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	Dpit47	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	ttc-4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ttc4	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	126,673,535 - 126,691,203 (-)	NCBI		GRCr8
mRatBN7.2	5	121,444,712 - 121,462,381 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	121,445,740 - 121,462,287 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	124,063,423 - 124,081,060 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	125,786,475 - 125,804,112 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	125,837,736 - 125,855,373 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	126,264,758 - 126,282,431 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	126,264,105 - 126,282,385 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	130,109,141 - 130,127,441 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	127,746,728 - 127,756,081 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	127,751,976 - 127,761,307 (-)	NCBI
Celera	5	120,201,186 - 120,210,532 (-)	NCBI		Celera
Cytogenetic Map	5	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ttc4	Rat	17alpha-ethynylestradiol	affects expression	ISO	Ttc4 (Mus musculus)	6480464	Ethinyl Estradiol affects the expression of TTC4 mRNA	CTD	PMID:17555576
Ttc4	Rat	2,3,7,8-tetrachlorodibenzodioxine	affects expression	ISO	Ttc4 (Mus musculus)	6480464	Tetrachlorodibenzodioxin affects the expression of TTC4 mRNA	CTD	PMID:21570461
Ttc4	Rat	2-methylcholine	affects expression	ISO	TTC4 (Homo sapiens)	6480464	beta-methylcholine affects the expression of TTC4 mRNA	CTD	PMID:21179406
Ttc4	Rat	3,3',4,4',5-pentachlorobiphenyl	decreases expression	EXP		6480464	3 more ...	CTD	PMID:23196670
Ttc4	Rat	3,4-methylenedioxymethamphetamine	increases expression	ISO	Ttc4 (Mus musculus)	6480464	N-Methyl-3 and 4-methylenedioxyamphetamine results in increased expression of TTC4 mRNA	CTD	PMID:20188158
Ttc4	Rat	acrylamide	decreases expression	EXP		6480464	Acrylamide results in decreased expression of TTC4 mRNA	CTD	PMID:28959563
Ttc4	Rat	benzo[a]pyrene	multiple interactions	ISO	Ttc4 (Mus musculus)	6480464	Benzo(a)pyrene promotes the reaction [AHR protein binds to TTC4 promoter]	CTD	PMID:19654925
Ttc4	Rat	benzo[a]pyrene	affects methylation	ISO	TTC4 (Homo sapiens)	6480464	Benzo(a)pyrene affects the methylation of TTC4 promoter	CTD	PMID:27901495
Ttc4	Rat	benzo[a]pyrene diol epoxide I	decreases expression	ISO	TTC4 (Homo sapiens)	6480464	7 more ...	CTD	PMID:19150397
Ttc4	Rat	benzo[e]pyrene	decreases methylation	ISO	TTC4 (Homo sapiens)	6480464	benzo(e)pyrene results in decreased methylation of TTC4 intron	CTD	PMID:30157460
Ttc4	Rat	beta-lapachone	increases expression	ISO	TTC4 (Homo sapiens)	6480464	beta-lapachone results in increased expression of TTC4 mRNA	CTD	PMID:38218311
Ttc4	Rat	bisphenol A	multiple interactions	EXP		6480464	[bisphenol A co-treated with Testosterone] results in decreased expression of TTC4 mRNA	CTD	PMID:26496021
Ttc4	Rat	bisphenol A	increases expression	EXP		6480464	bisphenol A results in increased expression of TTC4 mRNA	CTD	PMID:25181051
Ttc4	Rat	cadmium dichloride	decreases expression	ISO	TTC4 (Homo sapiens)	6480464	Cadmium Chloride results in decreased expression of TTC4 mRNA	CTD	PMID:21457566
Ttc4	Rat	cadmium sulfate	multiple interactions	ISO	Ttc4 (Mus musculus)	6480464	cadmium sulfate affects the reaction [MTF1 affects the expression of TTC4 mRNA]	CTD	PMID:16221973
Ttc4	Rat	caffeine	decreases phosphorylation	ISO	TTC4 (Homo sapiens)	6480464	Caffeine results in decreased phosphorylation of TTC4 protein	CTD	PMID:35688186
Ttc4	Rat	CGP 52608	multiple interactions	ISO	TTC4 (Homo sapiens)	6480464	CGP 52608 promotes the reaction [RORA protein binds to TTC4 gene]	CTD	PMID:28238834
Ttc4	Rat	cyclosporin A	increases expression	ISO	TTC4 (Homo sapiens)	6480464	Cyclosporine results in increased expression of TTC4 mRNA	CTD	PMID:20106945
Ttc4	Rat	dibutyl phthalate	decreases expression	ISO	Ttc4 (Mus musculus)	6480464	Dibutyl Phthalate results in decreased expression of TTC4 mRNA	CTD	PMID:21266533
Ttc4	Rat	enzyme inhibitor	multiple interactions	ISO	TTC4 (Homo sapiens)	6480464	[Enzyme Inhibitors results in decreased activity of OGA protein] which results in increased O-linked glycosylation of TTC4 protein	CTD	PMID:23301498
Ttc4	Rat	gentamycin	increases expression	EXP		6480464	Gentamicins results in increased expression of TTC4 mRNA	CTD	PMID:33387578
Ttc4	Rat	lipopolysaccharide	multiple interactions	ISO	TTC4 (Homo sapiens)	6480464	[S-(1 and 2-dichlorovinyl)cysteine co-treated with Lipopolysaccharides] results in increased expression of TTC4 mRNA	CTD	PMID:35811015
Ttc4	Rat	methapyrilene	decreases methylation	ISO	TTC4 (Homo sapiens)	6480464	Methapyrilene results in decreased methylation of TTC4 intron	CTD	PMID:30157460
Ttc4	Rat	methylmercury chloride	decreases expression	ISO	Ttc4 (Mus musculus)	6480464	methylmercuric chloride results in decreased expression of TTC4 mRNA	CTD	PMID:19465457
Ttc4	Rat	ozone	multiple interactions	ISO	TTC4 (Homo sapiens)	6480464	[Air Pollutants results in increased abundance of Ozone] which affects the expression of TTC4 mRNA	CTD	PMID:35430440
Ttc4	Rat	paracetamol	affects expression	ISO	TTC4 (Homo sapiens)	6480464	Acetaminophen affects the expression of TTC4 mRNA	CTD	PMID:21420995
Ttc4	Rat	paracetamol	affects expression	ISO	Ttc4 (Mus musculus)	6480464	Acetaminophen affects the expression of TTC4 mRNA	CTD	PMID:17562736
Ttc4	Rat	phenobarbital	increases expression	ISO	Ttc4 (Mus musculus)	6480464	Phenobarbital results in increased expression of TTC4 mRNA	CTD	PMID:25270620
Ttc4	Rat	S-(1,2-dichlorovinyl)-L-cysteine	multiple interactions	ISO	TTC4 (Homo sapiens)	6480464	[S-(1 and 2-dichlorovinyl)cysteine co-treated with Lipopolysaccharides] results in increased expression of TTC4 mRNA	CTD	PMID:35811015
Ttc4	Rat	testosterone	multiple interactions	EXP		6480464	[bisphenol A co-treated with Testosterone] results in decreased expression of TTC4 mRNA	CTD	PMID:26496021
Ttc4	Rat	titanium dioxide	decreases methylation	ISO	Ttc4 (Mus musculus)	6480464	titanium dioxide results in decreased methylation of TTC4 gene	CTD	PMID:35295148
Ttc4	Rat	triptonide	decreases expression	ISO	Ttc4 (Mus musculus)	6480464	triptonide results in decreased expression of TTC4 mRNA	CTD	PMID:33045310
Ttc4	Rat	valproic acid	increases methylation	ISO	TTC4 (Homo sapiens)	6480464	Valproic Acid results in increased methylation of TTC4 gene	CTD	PMID:29154799

Biological Process

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ttc4	Rat	defense response to virus	involved_in	ISO	TTC4 (Homo sapiens)	1624291	PMID:29251827	RGD	PMID:29251827
Ttc4	Rat	innate immune response	involved_in	ISO	TTC4 (Homo sapiens)	1624291	PMID:29251827	RGD	PMID:29251827
Ttc4	Rat	protein folding	involved_in	IBA	PANTHER:PTN002340063 and SGD:S000000359	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033

Cellular Component

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ttc4	Rat	cytoplasm	located_in	ISO	TTC4 (Homo sapiens)	1624291	PMID:29251827	RGD	PMID:29251827
Ttc4	Rat	cytoplasm	located_in	ISO	Ttc4 (Mus musculus)	1624291	PMID:19390865	RGD	PMID:19390865
Ttc4	Rat	nucleus	located_in	ISO	TTC4 (Homo sapiens)	1624291	PMID:18320024 and PMID:29251827	RGD	PMID:18320024 and PMID:29251827
Ttc4	Rat	nucleus	is_active_in	IBA	FB:FBgn0266518 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Ttc4	Rat	nucleus	located_in	ISO	Ttc4 (Mus musculus)	1624291	PMID:17335777 and PMID:19390865	RGD	PMID:17335777 and PMID:19390865

Molecular Function

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ttc4	Rat	Hsp70 protein binding	enables	IBA	FB:FBgn0266518 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Ttc4	Rat	Hsp90 protein binding	enables	IEA	InterPro:IPR044059	1600115	GO_REF:0000002	InterPro	GO_REF:0000002
Ttc4	Rat	Hsp90 protein binding	enables	IBA	FB:FBgn0266518 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Ttc4	Rat	protein binding	enables	ISO	Ttc4 (Mus musculus)	1624291	UniProtKB:Q6PDM1 and PMID:17335777	RGD	PMID:17335777
Ttc4	Rat	protein binding	enables	ISO	TTC4 (Homo sapiens)	1624291	UniProtKB:P08238 more ...	RGD	PMID:18320024 more ...

#	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.	GOA pipeline	RGD automated data pipeline
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
4.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

PMID:17335777	PMID:18320024	PMID:19390865	PMID:29251827

Ttc4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	126,673,535 - 126,691,203 (-)	NCBI		GRCr8
mRatBN7.2	5	121,444,712 - 121,462,381 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	121,445,740 - 121,462,287 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	124,063,423 - 124,081,060 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	125,786,475 - 125,804,112 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	125,837,736 - 125,855,373 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	126,264,758 - 126,282,431 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	126,264,105 - 126,282,385 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	130,109,141 - 130,127,441 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	127,746,728 - 127,756,081 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	127,751,976 - 127,761,307 (-)	NCBI
Celera	5	120,201,186 - 120,210,532 (-)	NCBI		Celera
Cytogenetic Map	5	q34	NCBI

TTC4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	54,715,861 - 54,742,657 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	54,715,861 - 54,742,657 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	55,181,534 - 55,208,330 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	54,954,117 - 54,980,569 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	1	54,893,576 - 54,920,001	NCBI
Celera	1	53,469,087 - 53,495,920 (+)	NCBI		Celera
Cytogenetic Map	1	p32.3	NCBI
HuRef	1	53,295,157 - 53,322,784 (+)	NCBI		HuRef
CHM1_1	1	55,296,858 - 55,323,691 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	54,596,115 - 54,622,890 (+)	NCBI		T2T-CHM13v2.0

Ttc4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	106,514,952 - 106,536,188 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	106,519,453 - 106,536,141 (-)	Ensembl		GRCm39 Ensembl
GRCm38	4	106,656,806 - 106,679,002 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	106,662,256 - 106,678,944 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	106,334,413 - 106,351,549 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	106,160,188 - 106,176,814 (-)	NCBI		MGSCv36	mm8
Celera	4	105,024,628 - 105,041,763 (-)	NCBI		Celera
Cytogenetic Map	4	C7	NCBI
cM Map	4	49.68	NCBI

Ttc4
(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 Ensembl	NW_004955464	4,629,932 - 4,669,333 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955464	4,629,061 - 4,669,054 (-)	NCBI	ChiLan1.0	ChiLan1.0

TTC4
(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-v2	1	172,092,298 - 172,118,317 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	171,233,183 - 171,259,181 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	53,992,074 - 54,018,030 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	55,581,396 - 55,607,646 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	55,581,396 - 55,607,646 (+)	Ensembl	panpan1.1		panPan2

TTC4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	54,406,216 - 54,431,742 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	54,407,287 - 54,431,687 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	54,475,489 - 54,500,962 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	54,594,550 - 54,619,793 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	54,590,047 - 54,619,822 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	54,590,989 - 54,616,219 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	54,481,088 - 54,506,291 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	54,870,103 - 54,895,370 (-)	NCBI		UU_Cfam_GSD_1.0

Ttc4
(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_024405058	68,857,176 - 68,884,945 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936522	6,529,122 - 6,559,292 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936522	6,525,887 - 6,559,147 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TTC4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	157,616,502 - 157,651,655 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	157,616,499 - 157,651,676 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	145,680,005 - 145,715,186 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TTC4
(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	20	78,193,416 - 78,222,430 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	78,190,147 - 78,222,349 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666033	39,060,341 - 39,088,741 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ttc4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624862	5,097,343 - 5,126,537 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624862	5,097,233 - 5,126,555 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants in Ttc4
73 total Variants

Predicted Target Of

	Summary Value
Count of predictions:	219
Count of miRNA genes:	145
Interacting mature miRNAs:	181
Transcripts:	ENSRNOT00000010229
Prediction methods:	Miranda, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1331796	Thshl2	Thyroid stimulating hormone level QTL 2	2.3		blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	5	97059760	147465714	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40128307	148607290	Rat
8552960	Pigfal15	Plasma insulin-like growth factor 1 level QTL 15			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	111416838	156416838	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	131345958	Rat
1298070	Scl18	Serum cholesterol level QTL 18	3.7		blood LDL cholesterol amount (VT:0000181)	calculated plasma low density lipoprotein cholesterol level (CMO:0001245)	5	79584860	124584860	Rat
7794739	Bp372	Blood pressure QTL 372		0.0058	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	117913688	125222967	Rat
61452	Ciaa5	CIA Autoantibody QTL 5	3.5		blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	5	94858972	143070159	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	43726656	129132602	Rat
1582230	Bw78	Body weight QTL 78	3.2	0.0016	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	5	119085612	128034027	Rat
7411582	Foco3	Food consumption QTL 3	7.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	5	87468046	132468046	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	60293434	161481680	Rat
1598859	Cm66	Cardiac mass QTL 66	2		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	79584860	124584860	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	106906205	151906205	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	106906205	151906205	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	82394392	166664054	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	46711509	161317411	Rat
1549838	Bss4	Bone structure and strength QTL 4	9.2		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	5	106906205	151906205	Rat
2317753	Glom24	Glomerulus QTL 24	3.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	5	97570330	136479578	Rat
7411564	Bw135	Body weight QTL 135		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	87468046	132468046	Rat
8657050	Bw146	Body weight QTL 146	19.84	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	108938288	153938288	Rat
1581510	Cm54	Cardiac mass QTL 54	3.4	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	120740824	143608494	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	50328551	141643988	Rat
7411601	Foco12	Food consumption QTL 12	19.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	5	87468046	132468046	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	35189153	141643988	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	105999803	150999803	Rat
1598846	Bp293	Blood pressure QTL 293	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	79584860	124584860	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	108845856	153845856	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	120740824	151018848	Rat
1358909	Kidm25	Kidney mass QTL 25	1.87		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	90067849	128034027	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	103689353	148689353	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55805606	132207589	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	106906205	151906205	Rat
8694441	Bw169	Body weight QTL 169	17.61	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	5	111416838	156416838	Rat
631527	Tls1	T-lymphoma susceptibility QTL 1	0	0.001	thymus integrity trait (VT:0010555)	post-insult time to onset of T-cell lymphoma (CMO:0001907)	5	90450144	135450144	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	106906205	151906205	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	111416838	156416838	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	31663789	131345958	Rat
61426	Scl2	Serum cholesterol level QTL 2	7.3	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	59793399	143070159	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	69540295	151018848	Rat
8694198	Abfw3	Abdominal fat weight QTL 3	16.13	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	5	111416838	156416838	Rat
1298086	Bp156	Blood pressure QTL 156			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	84132602	129132602	Rat
2306971	Anxrr21	Anxiety related response QTL 21	9.47		fear/anxiety-related behavior trait (VT:1000241)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	5	66174080	124160948	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	108845856	153845856	Rat
1358895	Bp254	Blood pressure QTL 254	3.6	0.0003	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	5	58829236	128034027	Rat
6903316	Bw113	Body weight QTL 113	2	0.0103	body mass (VT:0001259)	body weight (CMO:0000012)	5	87765973	132765973	Rat
1358889	Bp261	Blood pressure QTL 261	2.86		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	5	90067849	128034027	Rat
1358187	Emca1	Estrogen-induced mammary cancer QTL 1	4.4		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	5	99216724	148607142	Rat

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	11	49	113	91	90	59	25	59	6	218	97	93	45	60	31


RefSeq Transcripts	NM_001395043	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039110294	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC117905	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC083794	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000010229 ⟹ ENSRNOP00000010229

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	121,445,740 - 121,462,287 (-)	Ensembl
Rnor_6.0 Ensembl	5	126,264,105 - 126,282,385 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000109803 ⟹ ENSRNOP00000077786

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	121,445,740 - 121,462,287 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000115972 ⟹ ENSRNOP00000079215

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	121,445,740 - 121,462,287 (-)	Ensembl

RefSeq Acc Id:

NM_001395043 ⟹ NP_001381972

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	126,673,535 - 126,691,140 (-)	NCBI
mRatBN7.2	5	121,444,712 - 121,462,317 (-)	NCBI

RefSeq Acc Id:

XM_039110294 ⟹ XP_038966222

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	126,673,537 - 126,691,203 (-)	NCBI
mRatBN7.2	5	121,444,714 - 121,462,381 (-)	NCBI


Protein RefSeqs	NP_001381972	(Get FASTA)	NCBI Sequence Viewer
	XP_038966222	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH83794	(Get FASTA)	NCBI Sequence Viewer
	EDL90466	(Get FASTA)	NCBI Sequence Viewer
	EDL90467	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000010229
	ENSRNOP00000010229.5
	ENSRNOP00000077786.1
	ENSRNOP00000079215.1
	ENSRNOP00000102727

Ensembl Acc Id:

ENSRNOP00000010229 ⟸ ENSRNOT00000010229

RefSeq Acc Id:	XP_038966222 ⟸ XM_039110294
- Peptide Label:	isoform X1
- UniProtKB:	A6JYN7 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000079215 ⟸ ENSRNOT00000115972

Ensembl Acc Id:

ENSRNOP00000077786 ⟸ ENSRNOT00000109803

RefSeq Acc Id:	NP_001381972 ⟸ NM_001395043
- UniProtKB:	A0A140UHY1 (UniProtKB/TrEMBL), A0A8I5ZKD6 (UniProtKB/TrEMBL)

Protein Domains

Cns1/TTC4 wheel

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-A0A140UHY1-F1-model_v2	AlphaFold	A0A140UHY1	1-386	view protein structure

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

RGD ID:

13693898

Promoter ID:

EPDNEW_R4408

Type:

multiple initiation site

Name:

Ttc4_1

Description:

tetratricopeptide repeat domain 4

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	126,282,346 - 126,282,406	EPDNEW

Database	Acc Id	Source(s)
BioCyc Gene	G2FUF-40442	BioCyc
Ensembl Genes	ENSRNOG00000042467	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000010229	ENTREZGENE
	ENSRNOT00000010229.7	UniProtKB/TrEMBL
	ENSRNOT00000109803.1	UniProtKB/TrEMBL
	ENSRNOT00000115972.1	UniProtKB/TrEMBL
	ENSRNOT00000143239	ENTREZGENE
Gene3D-CATH	1.25.40.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7106983	IMAGE-MGC_LOAD
InterPro	Csn1/TTC4_wheel	UniProtKB/TrEMBL
	TPR-like_helical	UniProtKB/TrEMBL
	TPR_repeat	UniProtKB/TrEMBL
MGC_CLONE	MGC:94792	IMAGE-MGC_LOAD
NCBI Gene	362556	ENTREZGENE
PANTHER	TETRATRICOPEPTIDE REPEAT PROTEIN 4	UniProtKB/TrEMBL
	TETRATRICOPEPTIDE REPEAT PROTEIN 4	UniProtKB/TrEMBL
Pfam	Wheel	UniProtKB/TrEMBL
PhenoGen	Ttc4	PhenoGen
RatGTEx	ENSRNOG00000042467	RatGTEx
SMART	TPR	UniProtKB/TrEMBL
Superfamily-SCOP	SSF48452	UniProtKB/TrEMBL
UniProt	A0A140UHY1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I5ZKD6	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I5ZMJ3_RAT	UniProtKB/TrEMBL
	A6JYN6_RAT	UniProtKB/TrEMBL
	A6JYN7	ENTREZGENE, UniProtKB/TrEMBL
	Q5XI93_RAT	UniProtKB/TrEMBL
UniProt Secondary	F1MAD1	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-12-06	Ttc4	tetratricopeptide repeat domain 4	Ttc4_predicted	tetratricopeptide repeat domain 4 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Ttc4_predicted	tetratricopeptide repeat domain 4 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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


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


Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
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MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable

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