Cct4 (chaperonin containing TCP1 subunit 4)

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Gene: Cct4 (chaperonin containing TCP1 subunit 4) Rattus norvegicus

Analyze

Symbol:

Cct4

Name:

chaperonin containing TCP1 subunit 4

RGD ID:

727937

Description:

Predicted to have protein folding chaperone. Predicted to be involved in several processes, including binding activity of sperm to zona pellucida; positive regulation of DNA biosynthetic process; and positive regulation of cellular protein localization. Predicted to localize to several cellular components, including chaperonin-containing T-complex; microtubule cytoskeleton; and zona pellucida receptor complex. Used to study hereditary sensory neuropathy. Orthologous to human CCT4 (chaperonin containing TCP1 subunit 4); INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol; 2,4-dibromophenyl 2,4,5-tribromophenyl ether.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

CCT-delta; chaperonin containing Tcp1, subunit 4 (delta); chaperonin subunit 4 (delta); T-complex protein 1 subunit delta; TCP-1-delta

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

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):	CCT4 (chaperonin containing TCP1 subunit 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Cct4 (chaperonin containing Tcp1, subunit 4 (delta))	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Cct4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCT4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCT4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cct4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCT4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CCT4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cct4 (chaperonin containing TCP1 subunit 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Cct4 (chaperonin containing Tcp1, subunit 4 (delta))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	CCT4 (chaperonin containing TCP1 subunit 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	cct4 (chaperonin containing TCP1, subunit 4 (delta))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Saccharomyces cerevisiae (baker's yeast):	CCT4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CCT4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	cct-4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	14	96,991,853 - 97,004,732 (+)	NCBI
Rnor_6.0 Ensembl	14	107,767,392 - 107,780,270 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	14	107,767,392 - 107,780,270 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	14	107,843,411 - 107,856,260 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	103,675,110 - 103,687,893 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	14	103,694,320 - 103,707,104 (+)	NCBI
Celera	14	95,973,133 - 95,985,983 (+)	NCBI		Celera
Cytogenetic Map	14	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

hereditary sensory neuropathy (IMP)

schizophrenia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane (EXP,ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP,ISO)

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

2,4-dibromophenyl 2,4,5-tribromophenyl ether (EXP)

2,6-dinitrotoluene (EXP)

3-chloropropane-1,2-diol (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

acrylamide (EXP)

aminoglutethimide (ISO)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

carbon nanotube (ISO)

casticin (ISO)

chromium(6+) (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dinophysistoxin 1 (ISO)

doxorubicin (ISO)

endosulfan (EXP)

enzyme inhibitor (ISO)

finasteride (EXP)

flutamide (EXP)

folic acid (ISO)

furan (EXP)

gentamycin (EXP)

hyaluronic acid (EXP)

hydrogen peroxide (EXP)

indometacin (ISO)

methapyrilene (ISO)

nefazodone (EXP)

nimesulide (EXP)

okadaic acid (ISO)

pentachlorophenol (ISO)

phenethyl isothiocyanate (EXP)

PhIP (EXP)

propiconazole (ISO)

Propiverine (EXP)

resveratrol (EXP)

sulindac (EXP)

tetrachloromethane (EXP,ISO)

titanium dioxide (ISO)

trimellitic anhydride (ISO)

valdecoxib (EXP)

valproic acid (ISO)

zinc sulfate (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

binding of sperm to zona pellucida (ISO)

positive regulation of establishment of protein localization to telomere (ISO)

positive regulation of protein localization to Cajal body (ISO)

positive regulation of telomerase activity (ISO)

positive regulation of telomerase RNA localization to Cajal body (ISO)

positive regulation of telomere maintenance via telomerase (ISO)

protein folding (IBA,ISO)

protein stabilization (ISO)

scaRNA localization to Cajal body (ISO)

toxin transport (ISO)

Cellular Component

cell body (ISO)

centrosome (ISO)

chaperonin-containing T-complex (IBA,ISO,ISS)

cilium (IEA)

cytosol (ISO)

melanosome (IEA)

microtubule (ISO)

nucleoplasm (IEA,ISO)

zona pellucida receptor complex (ISO)

Molecular Function

ATP binding (IEA)

ATPase (IEA)

protein binding (ISO)

protein folding chaperone (IEA,ISO)

unfolded protein binding (IBA)

References

References - curated


1.	Bonaldo MF, etal., Genome Res 1996 Sep;6(9):791-806.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	Lee MJ, etal., Hum Mol Genet 2003 Aug 1;12(15):1917-25.
4.	MGD data from the GO Consortium
5.	NCBI rat LocusLink and RefSeq merged data October 15, 2003
6.	RGD automated data pipeline
7.	RGD automated import pipeline for gene-chemical interactions
8.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:7828721	PMID:7953530	PMID:15193290	PMID:15489334	PMID:16854843	PMID:20080638	PMID:20193073	PMID:20458337	PMID:21525035	PMID:21880732	PMID:22658674	PMID:23011926
PMID:23376485	PMID:23533145	PMID:23716698	PMID:24625528	PMID:25124038	PMID:25467444	PMID:26316108	PMID:29476059

Genomics

Comparative Map Data

Cct4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	14	96,991,853 - 97,004,732 (+)	NCBI
Rnor_6.0 Ensembl	14	107,767,392 - 107,780,270 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	14	107,767,392 - 107,780,270 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	14	107,843,411 - 107,856,260 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	103,675,110 - 103,687,893 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	14	103,694,320 - 103,707,104 (+)	NCBI
Celera	14	95,973,133 - 95,985,983 (+)	NCBI		Celera
Cytogenetic Map	14	q22	NCBI

CCT4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	2	61,868,085 - 61,888,671 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	2	61,868,085 - 61,888,671 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	2	62,095,220 - 62,115,806 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	61,948,766 - 61,969,295 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	2	62,006,913 - 62,027,442	NCBI
Celera	2	61,940,173 - 61,960,736 (-)	NCBI
Cytogenetic Map	2	p15	NCBI
HuRef	2	61,835,217 - 61,855,722 (-)	NCBI		HuRef
CHM1_1	2	62,025,224 - 62,045,751 (-)	NCBI		CHM1_1

Cct4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	22,940,593 - 22,953,336 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	11	22,940,519 - 22,953,780 (+)	Ensembl
GRCm38	11	22,990,593 - 23,003,336 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	22,990,519 - 23,003,780 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	22,890,593 - 22,903,336 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	22,890,593 - 22,903,336 (+)	NCBI			mm8
Celera	11	25,126,226 - 25,138,969 (+)	NCBI		Celera
Cytogenetic Map	11	A3.2	NCBI
cM Map	11	14.25	NCBI

Cct4
(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_004955424	22,088,949 - 22,108,514 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955424	22,088,949 - 22,108,514 (+)	NCBI	ChiLan1.0	ChiLan1.0

CCT4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	2A	63,084,090 - 63,104,530 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	63,084,090 - 63,105,216 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	2A	61,950,477 - 61,970,783 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CCT4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	10	61,859,245 - 61,874,389 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	10	61,859,148 - 61,874,030 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cct4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936491	7,224,989 - 7,241,348 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCT4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	79,924,507 - 79,946,236 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	79,924,338 - 79,941,926 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	83,760,065 - 83,777,463 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCT4
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	45,086,932 - 45,106,922 (+)	NCBI
ChlSab1.1 Ensembl	14	45,086,920 - 45,111,271 (+)	Ensembl

Cct4
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624833	46,071 - 62,665 (+)	NCBI

Position Markers

BE118339

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	14	107,776,910 - 107,777,094	NCBI	Rnor6.0
Rnor_5.0	14	107,852,903 - 107,853,087	UniSTS	Rnor5.0
RGSC_v3.4	14	103,684,664 - 103,684,848	UniSTS	RGSC3.4
Celera	14	95,982,642 - 95,982,826	UniSTS
RH 3.4 Map	14	766.5	UniSTS
Cytogenetic Map	14	q22	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631523	Pia13	Pristane induced arthritis QTL 13	3.3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	14	42442731	108833671	Rat
634328	Hc5	Hypercalciuria QTL 5	2.3		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	14	63548095	108548095	Rat
2300197	Scl59	Serum cholesterol level QTL 59			blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	78446303	110402569	Rat
1582259	Gluco23	Glucose level QTL 23	3.1	0.0008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	80049285	115493446	Rat
1641900	Alcrsp11	Alcohol response QTL 11			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	14	80049285	115493446	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	28
Count of miRNA genes:	25
Interacting mature miRNAs:	26
Transcripts:	ENSRNOT00000012847
Prediction methods:	Miranda, Rnahybrid
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.

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	3	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_182814	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC109547	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY223861	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC079283	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BQ200856	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CA340557	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB612673	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473996	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000254	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000012847 ⟹ ENSRNOP00000012847

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	14	107,767,392 - 107,780,270 (+)	Ensembl

RefSeq Acc Id:

NM_182814 ⟹ NP_877966

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	96,991,853 - 97,004,732 (+)	NCBI
Rnor_6.0	14	107,767,392 - 107,780,270 (+)	NCBI
Rnor_5.0	14	107,843,411 - 107,856,260 (+)	NCBI
RGSC_v3.4	14	103,675,110 - 103,687,893 (+)	RGD
Celera	14	95,973,133 - 95,985,983 (+)	RGD

Sequence:

show sequence

TTCCGCCTTCTCTCCCGGCGTCGCTTTCTGGAAGGTTCGTGGAGGCGGCGGCCAGGGAGACCGT
TACTCCACAGCAGGCCGGAATCCGTGTCCATCGGTCCTCCTGAACCCGCGCAGACGCCATCAAA
GTCGCCATGCCGGAGAACGTAGCTTCCCGAAGCGGGCCGCCCGCAGCGGGGCCGGGCAACCGCG
GGAAAGGCGCCTACCAGGACCGCGACAAACCGGCCCAGATCCGCTTCAGCAACATTTCCGCGGC
CAAAGCGGTTGCCGATGCCATTAGAACAAGCCTTGGACCTAAAGGAATGGACAAAATGATTCAA
GACGGAAAAGGCGATGTGACCATTACCAATGATGGTGCCACCATTCTGAAACAAATGCAAGTAT
TACACCCAGCAGCCAGAATGCTGGTGGAACTGTCCAAAGCTCAAGACATAGAAGCAGGGGATGG
CACCACGTCGGTCGTCATCATTGCTGGCTCTCTCTTAGACTCCTGTACCAAGCTTCTGCAGAAA
GGTATACATCCAACCATCATTTCCGAGTCATTCCAGAAAGCTTTGGAAAAGGGTCTTGAAATCC
TTACCGACATGTCTCGGCCTGTGCAACTGAGCGACAGAGAAACCTTGTTAAATAGTGCAACCAC
TTCATTGAACTCAAAGGTTGTCTCTCAGTATTCAAGTCTGCTCTCTCCAATGAGTGTCAATGCA
GTGATGAAAGTGATCGATCCAGCCACGGCTACCAGTGTCGATCTTAGAGATATTAAAATAGTTA
AGAAGCTTGGTGGGACGATAGATGACTGTGAGCTGGTGGAAGGCCTTGTTCTCACACAGAAAGT
GGCAAATTCTGGCATAACGAGAGTTGAGAAGGCTAAGATTGGGCTTATTCAGTTTTGCTTATCT
GCTCCTAAAACAGATATGGATAATCAGATAGTAGTATCTGACTACGCCCAGATGGATCGAGTGC
TTCGAGAAGAAAGAGCCTATATTTTAAATTTGGTGAAGCAAATTAAGAAAACAGGATGTAATGT
CCTTCTCATACAGAAGTCTATTCTAAGAGATGCACTTAGTGATCTTGCGTTACATTTTCTGAAT
AAAATGAAGATTATGGTGGTTAAGGACATTGAAAGAGAAGACATTGAATTCATCTGTAAGACAA
TTGGAACCAAACCAGTGGCTCACATTGACCAGTTCACTCCTGACATGCTGGGTTCTGCTGAGTT
AGCAGAGGAAGTCAGTTTGAATGGTTCTGGAAAACTGTTCAAGATTACAGGCTGTACAAGCCCA
GGCAAAACAGTGACAATTGTCGTCCGAGGCTCTAACAAACTGGTGATTGAGGAAGCTGAGCGCT
CCATTCACGATGCTCTCTGTGTTATCCGATGCTTGGTGAAGAAGAGAGCTCTTATTGCAGGAGG
TGGTGCTCCAGAAATAGAGCTGGCCCTCAGACTGACGGAGTACTCCCGGACACTGAGTGGCATG
GAGTCCTACTGTGTTCGAGCTTTTGCAGATGCCATGGAAGTCATTCCATCTACACTGGCTGAAA
ATGCTGGCCTGAATCCCATCTCTACTGTAACAGAGCTAAGAAACCGCCATGCCCAAGGAGAAAA
AACTACAGGCATTAATGTCCGAAAGGGTGGGATCTCCAACATTCTGGAGGAAATGGTTGTCCAG
CCTCTGTTGGTGTCAGTCAGTGCGTTGACCCTAGCAACTGAAACTGTGCGGAGCATTCTGAAAA
TTGATGATGTGGTAAATACTCGATAATCTGGATGAGGCTGGCTGACTGGCACGAGTATGGAGAG
AAGTATTGTGGCTAGAGTGGAAGATGATGGCCTTGTTCCTTGTCTGGGAGCTTGCTTCTTCAGA
GTTTTTGGACATTGTCTTGCAGTTGGCATTTGTTGGGAATTGTATTGAAACAATTTAATGAAAA
TATTAAATACTTGGTTTTAAACTCCATATTTGTCATTCCAAAGCTATATTGTTTTTAATACTTT
GGGGGAAATGCCTATAGGTAAACTACAGCCCTCAAAATTTAACATTTACCTATTGATCTAACCC
CTTAGTCCTGTGTATTCTTGGTTGGTTCATCTGTGGTTGTATTTGTTTGTTGAGACATTCTA

hide sequence

Protein Sequences


Protein RefSeqs	NP_877966	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH79283	(Get FASTA)	NCBI Sequence Viewer
	AAP46161	(Get FASTA)	NCBI Sequence Viewer
	EDL97980	(Get FASTA)	NCBI Sequence Viewer
	Q7TPB1	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_877966 ⟸ NM_182814

- UniProtKB:

Q7TPB1 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MPENVASRSGPPAAGPGNRGKGAYQDRDKPAQIRFSNISAAKAVADAIRTSLGPKGMDKMIQDG
KGDVTITNDGATILKQMQVLHPAARMLVELSKAQDIEAGDGTTSVVIIAGSLLDSCTKLLQKGI
HPTIISESFQKALEKGLEILTDMSRPVQLSDRETLLNSATTSLNSKVVSQYSSLLSPMSVNAVM
KVIDPATATSVDLRDIKIVKKLGGTIDDCELVEGLVLTQKVANSGITRVEKAKIGLIQFCLSAP
KTDMDNQIVVSDYAQMDRVLREERAYILNLVKQIKKTGCNVLLIQKSILRDALSDLALHFLNKM
KIMVVKDIEREDIEFICKTIGTKPVAHIDQFTPDMLGSAELAEEVSLNGSGKLFKITGCTSPGK
TVTIVVRGSNKLVIEEAERSIHDALCVIRCLVKKRALIAGGGAPEIELALRLTEYSRTLSGMES
YCVRAFADAMEVIPSTLAENAGLNPISTVTELRNRHAQGEKTTGINVRKGGISNILEEMVVQPL
LVSVSALTLATETVRSILKIDDVVNTR

hide sequence

RefSeq Acc Id:

ENSRNOP00000012847 ⟸ ENSRNOT00000012847

Transcriptome

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

Promoters

RGD ID:

13699519

Promoter ID:

EPDNEW_R10043

Type:

initiation region

Name:

Cct4_1

Description:

chaperonin containing TCP1 subunit 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	14	107,767,398 - 107,767,458	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:727937	AgrOrtholog
Ensembl Genes	ENSRNOG00000009642	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000012847	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000012847	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.560.10	UniProtKB/Swiss-Prot
	3.50.7.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7134210	IMAGE-MGC_LOAD
InterPro	Chap_CCT_delta	UniProtKB/Swiss-Prot
	Chaperone_TCP-1	UniProtKB/Swiss-Prot
	Chaperonin_TCP-1_CS	UniProtKB/Swiss-Prot
	Cpn60/TCP-1	UniProtKB/Swiss-Prot
	GroEL-like_apical_dom_sf	UniProtKB/Swiss-Prot
	GROEL-like_equatorial_sf	UniProtKB/Swiss-Prot
	TCP-1-like_intermed_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:29374	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:94410	IMAGE-MGC_LOAD
NCBI Gene	29374	ENTREZGENE
Pfam	Cpn60_TCP1	UniProtKB/Swiss-Prot
PhenoGen	Cct4	PhenoGen
PRINTS	TCOMPLEXTCP1	UniProtKB/Swiss-Prot
PROSITE	TCP1_1	UniProtKB/Swiss-Prot
	TCP1_2	UniProtKB/Swiss-Prot
	TCP1_3	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF48592	UniProtKB/Swiss-Prot
	SSF52029	UniProtKB/Swiss-Prot
	SSF54849	UniProtKB/Swiss-Prot
TIGRFAMs	chap_CCT_delta	UniProtKB/Swiss-Prot
UniProt	Q7TPB1	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-01-13	Cct4	chaperonin containing TCP1 subunit 4	Cct4	chaperonin containing Tcp1, subunit 4 (delta)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-29	Cct4	chaperonin containing Tcp1, subunit 4 (delta)	Cct4	chaperonin subunit 4 (delta)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-12-14	Cct4	chaperonin subunit 4 (delta)			Symbol and Name status set to approved	1299863	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_mutations_overexpression	1349G>A mutation causes hereditary sensory neuropathy	1299607

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)

Imported Disease Annotations - ClinVar