Tmco1 (transmembrane and coiled-coil domains 1)

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Gene: Tmco1 (transmembrane and coiled-coil domains 1) Rattus norvegicus

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Symbol:

Tmco1

Name:

transmembrane and coiled-coil domains 1

RGD ID:

1359178

Description:

Predicted to enable calcium channel activity and ribosome binding activity. Predicted to be involved in several processes, including ER overload response; endoplasmic reticulum calcium ion homeostasis; and multi-pass transmembrane protein insertion into ER membrane. Predicted to be located in endoplasmic reticulum membrane and mitochondrion. Predicted to be part of multi-pass translocon complex. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in craniofacial dysmorphism, skeletal anomalies, and impaired intellectual development syndrome 1. Orthologous to human TMCO1 (transmembrane and coiled-coil domains 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

calcium load-activated calcium channel; CLAC channel; GEL complex subunit TMCO1; meg-2-like protein; MGC109554; putative membrane protein; transmembrane and coiled-coil domain-containing protein 1; transmembrane and coiled-coil domains protein 1

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):	TMCO1 (transmembrane and coiled-coil domains 1)	HGNC	Ensembl, HomoloGene, Inparanoid, OMA, OrthoDB, Panther, PhylomeDB
Mus musculus (house mouse):	Tmco1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Tmco1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TMCO1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TMCO1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tmco1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TMCO1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TMCO1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tmco1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Tmco1 (transmembrane and coiled-coil domains 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Tmco1 (transmembrane and coiled-coil domains 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	TMCO1 (transmembrane and coiled-coil domains 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	tmco1 (transmembrane and coiled-coil domains 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG10470	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	F22B5.10	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	tmco1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	tmco1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Allele / Splice:

Tmco1^{Tn(sb-T2/Bart3)2.135Mcwi}

Genetic Models:

F344-Tmco1^{Tn(sb-T2/Bart3)2.135Mcwi}

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	13	81,993,172 - 82,016,496 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	13	81,993,097 - 82,017,201 (+)	Ensembl				GRCr8
mRatBN7.2	13	79,460,229 - 79,483,557 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	79,460,135 - 79,483,555 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	13	82,090,094 - 82,113,433 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	83,397,495 - 83,421,009 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	80,635,353 - 80,659,124 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	85,465,015 - 85,559,113 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	85,465,792 - 85,559,087 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	13	90,201,608 - 90,202,246 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
Rnor_5.0	13	90,108,152 - 90,131,984 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	13	82,971,926 - 82,995,262 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	13	79,165,552 - 79,188,922 (+)	NCBI		Celera
RGSC_v3.1	13	82,986,113 - 83,009,449 (+)	NCBI
Cytogenetic Map	13	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

bone development disease (ISO)

combined T cell and B cell immunodeficiency (ISO)

Craniofacial Abnormalities (ISO)

craniofacial dysmorphism, skeletal anomalies, and impaired intellectual development syndrome 1 (ISO)

craniofacial dysmorphism, skeletal anomalies, and mental retardation syndrome (ISO,ISS)

genetic disease (ISO)

intellectual disability (ISO)

Musculoskeletal Abnormalities (ISO)

open-angle glaucoma (ISO)

Tooth Abnormalities (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

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

4,4'-sulfonyldiphenol (ISO)

5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole (EXP)

6-propyl-2-thiouracil (EXP)

amiodarone (EXP)

arsane (ISO)

arsenic atom (ISO)

atrazine (ISO)

benzbromarone (EXP)

beta-lapachone (ISO)

bisphenol A (EXP)

Bisphenol B (ISO)

cadmium dichloride (ISO)

carbamazepine (ISO)

CGP 52608 (ISO)

chloropicrin (ISO)

chromium(6+) (ISO)

clofibrate (EXP)

copper atom (ISO)

copper(0) (ISO)

Dibutyl phosphate (ISO)

dibutyl phthalate (EXP)

dicrotophos (ISO)

doxorubicin (ISO)

fenthion (ISO)

fipronil (EXP)

flutamide (EXP)

FR900359 (ISO)

hydralazine (ISO)

inulin (ISO)

L-ethionine (EXP)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

methidathion (ISO)

nefazodone (EXP)

omeprazole (EXP)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

pirinixic acid (EXP)

potassium dichromate (ISO)

rotenone (ISO)

sodium arsenite (ISO)

sodium fluoride (ISO)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (EXP)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

calcium ion transmembrane transport (IEA,ISO,ISS)

calcium ion transport (IEA)

endoplasmic reticulum calcium ion homeostasis (IBA,IEA,ISO,ISS)

ER overload response (IEA,ISO,ISS)

monoatomic ion transmembrane transport (IEA)

monoatomic ion transport (IEA)

multi-pass transmembrane protein insertion into ER membrane (IEA,ISO,ISS)

ossification (IEA,ISO,ISS)

Cellular Component

cytoplasm (IBA)

endoplasmic reticulum (IBA,IEA,ISO)

endoplasmic reticulum membrane (IEA,ISO,ISS)

Golgi membrane (IEA)

membrane (IEA)

mitochondrial membrane (IEA)

mitochondrion (ISO)

multi-pass translocon complex (IEA,ISO,ISS)

Molecular Function

calcium channel activity (IBA,IEA,ISO,ISS)

protein binding (ISO)

ribosome binding (IEA,ISO,ISS)

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.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
3.	GOA pipeline	RGD automated data pipeline
4.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	Comprehensive gene review and curation	RGD comprehensive gene curation
7.	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.

Additional References at PubMed

PMID:15489334	PMID:27212239

Genomics

Comparative Map Data

Tmco1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	13	81,993,172 - 82,016,496 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	13	81,993,097 - 82,017,201 (+)	Ensembl				GRCr8
mRatBN7.2	13	79,460,229 - 79,483,557 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	79,460,135 - 79,483,555 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	13	82,090,094 - 82,113,433 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	83,397,495 - 83,421,009 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	80,635,353 - 80,659,124 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	85,465,015 - 85,559,113 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	85,465,792 - 85,559,087 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	13	90,201,608 - 90,202,246 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
Rnor_5.0	13	90,108,152 - 90,131,984 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	13	82,971,926 - 82,995,262 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	13	79,165,552 - 79,188,922 (+)	NCBI		Celera
RGSC_v3.1	13	82,986,113 - 83,009,449 (+)	NCBI
Cytogenetic Map	13	q24	NCBI

TMCO1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	165,724,291 - 165,768,922 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	165,724,293 - 165,827,755 (-)	Ensembl			hg38	GRCh38
GRCh37	1	165,693,528 - 165,738,159 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	163,963,131 - 164,004,712 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Celera	1	138,798,944 - 138,843,546 (-)	NCBI		Celera
Cytogenetic Map	1	q24.1	NCBI
HuRef	1	136,941,021 - 136,985,634 (-)	NCBI		HuRef
CHM1_1	1	167,116,121 - 167,160,446 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	165,070,667 - 165,115,003 (-)	NCBI		T2T-CHM13v2.0

Tmco1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	167,136,239 - 167,161,547 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	167,135,947 - 167,161,547 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	1	167,308,670 - 167,333,978 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	167,308,378 - 167,333,978 (+)	Ensembl			mm10	GRCm38
MGSCv37	1	169,238,801 - 169,264,109 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	1	169,145,345 - 169,170,653 (+)	NCBI		MGSCv36	mm8
Celera	1	169,726,087 - 169,751,228 (+)	NCBI		Celera
Cytogenetic Map	1	H2.3	NCBI
cM Map	1	74.69	NCBI

Tmco1
(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_004955462	10,925,383 - 10,973,814 (+)	Ensembl
ChiLan1.0	NW_004955462	10,925,383 - 10,973,814 (+)	NCBI	ChiLan1.0	ChiLan1.0

TMCO1
(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	83,996,652 - 84,038,263 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	83,662,962 - 83,706,945 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	141,159,657 - 141,201,018 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	144,948,169 - 144,989,880 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	144,944,105 - 144,989,794 (-)	Ensembl			panPan2	panpan1.1

TMCO1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	38	17,579,540 - 17,630,701 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	38	17,579,607 - 17,630,283 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	38	17,636,060 - 17,687,125 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	38	17,634,996 - 17,686,216 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	38	17,635,061 - 17,687,020 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	38	17,633,018 - 17,684,148 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	38	17,983,898 - 18,035,013 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	38	18,278,071 - 18,329,208 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Tmco1
(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_024409344	101,740,129 - 101,762,289 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936481	19,586,870 - 19,611,933 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936481	19,586,870 - 19,609,043 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMCO1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	84,961,819 - 85,017,820 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	4	84,961,912 - 85,011,139 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	92,618,554 - 92,667,781 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TMCO1
(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	25	63,110,626 - 63,150,602 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	25	63,110,772 - 63,150,017 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666055	64,870,612 - 64,911,995 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tmco1
(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 1.0	NW_004624826	4,064,126 - 4,118,176 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Tmco1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	10	46,624,672 - 46,648,369 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Tmco1
187 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	76
Count of miRNA genes:	67
Interacting mature miRNAs:	67
Transcripts:	ENSRNOT00000005277
Prediction methods:	Microtar, 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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1298066	Bp159	Blood pressure QTL 159		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	48639634	93639634	Rat
10755495	Bp387	Blood pressure QTL 387	3.78		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	37216241	90057603	Rat
1354655	Bp241	Blood pressure QTL 241	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	38975045	103588154	Rat
8655951	Rf63	Renal function QTL 63	12.2		blood urea nitrogen amount (VT:0005265)	plasma urea nitrogen level (CMO:0000586)	13	71610804	109350286	Rat
70220	Bp55	Blood pressure QTL 55	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	39924693	84924693	Rat
8655945	Rf61	Renal function QTL 61	3.6		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	13	71610804	89333251	Rat
71119	Thym2	Thymus enlargement QTL 2	3.8		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	13	48749814	87285480	Rat
4889861	Pur29	Proteinuria QTL 29	13.8	0.005	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	39968211	83286298	Rat
1331783	Bp221	Blood pressure QTL 221	3.72886		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	71610804	89333251	Rat
8655959	Pur32	Proteinuria QTL 32	8.4		urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	72984506	99745408	Rat
1300166	Kidm6	Kidney mass QTL 6	3.93		kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	13	71610804	89333251	Rat
2293687	Bss26	Bone structure and strength QTL 26	4.6	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	13	67635937	109350286	Rat
619615	Bp80	Blood pressure QTL 80		0.0354	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	7421791	87286911	Rat
61340	Bp25	Blood pressure QTL 25	4.2	0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	37087983	82087983	Rat
1581573	Uae36	Urinary albumin excretion QTL 36			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	6002008	88706694	Rat
1549897	Stresp12	Stress response QTL 12	3.35		stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	13	40983585	85983585	Rat
724564	Uae11	Urinary albumin excretion QTL 11	5.7		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	13	47354258	94285672	Rat
738027	Lnnr6	Liver neoplastic nodule remodeling QTL 6	3.3		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	65613454	109350286	Rat
7207885	Glom27	Glomerulus QTL 27	3.9		kidney glomerulus integrity trait (VT:0010546)	kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)	13	21120177	109350286	Rat
7387280	Uae43	Urinary albumin excretion QTL 43	5.69	0.4174	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	68983334	109350286	Rat
738026	Lnnr5	Liver neoplastic nodule remodeling QTL 5	3.29		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	62424592	88113509	Rat
2293702	Bss34	Bone structure and strength QTL 34	4.61	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	13	67635937	109350286	Rat
61349	Bp31	Blood pressure QTL 31	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	39924693	84924693	Rat
1576318	Schws5	Schwannoma susceptibility QTL 5		0.0351	nervous system integrity trait (VT:0010566)	post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)	13	64497900	109350286	Rat
1354621	Rf47	Renal function QTL 47	3.7		kidney renin amount (VT:0010559)	kidney renin level (CMO:0002166)	13	11081740	103588154	Rat
1581554	Pur11	Proteinuria QTL 11			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	6002008	88706694	Rat
12879477	Bp401	Blood pressure QTL 401			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	39814726	84814726	Rat
1331750	Bp220	Blood pressure QTL 220	2.98		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	39968211	84968211	Rat
12879475	Bp400	Blood pressure QTL 400			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	64375743	109350286	Rat
11530006	Niddm72	Non-insulin dependent diabetes mellitus QTL 72		0.001	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	38286298	83286298	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	1	103588154	Rat
2293341	Glom15	Glomerulus QTL 15	9.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	13	67635937	109350286	Rat

Markers in Region

RH133298

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	79,483,096 - 79,483,291 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	85,488,760 - 85,488,954	NCBI	Rnor6.0
Rnor_6.0	13	85,558,653 - 85,558,847	NCBI	Rnor6.0
Rnor_5.0	13	90,201,786 - 90,201,980	UniSTS	Rnor5.0
Rnor_5.0	13	90,131,893 - 90,132,087	UniSTS	Rnor5.0
RGSC_v3.4	13	82,994,802 - 82,994,996	UniSTS	RGSC3.4
Celera	13	79,188,462 - 79,188,656	UniSTS
RH 3.4 Map	13	522.8	UniSTS
Cytogenetic Map	13	q23	UniSTS

AA109065

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	13	81,993,228 - 81,993,791 (+)	Marker Load Pipeline
mRatBN7.2	13	79,460,285 - 79,460,848 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	85,465,941 - 85,466,503	NCBI	Rnor6.0
Rnor_5.0	13	90,109,074 - 90,109,636	UniSTS	Rnor5.0
RGSC_v3.4	13	82,971,983 - 82,972,545	UniSTS	RGSC3.4
Celera	13	79,165,609 - 79,166,171	UniSTS
Cytogenetic Map	13	q23	UniSTS

Genetic Models

This gene Tmco1 is modified in the following models/strains:

F344-Tmco1^{Tn(sb-T2/Bart3)2.135Mcwi}

Expression

RNA-SEQ Expression

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

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	165	91	90	59	92	59	6	356	192	11	144	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001009631	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598708	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF531432	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC088319	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473958	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000013	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000005277 ⟹ ENSRNOP00000005277

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	13	81,993,097 - 82,010,487 (+)	Ensembl
mRatBN7.2 Ensembl	13	79,460,135 - 79,477,544 (+)	Ensembl
Rnor_6.0 Ensembl	13	85,465,933 - 85,488,680 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000082991 ⟹ ENSRNOP00000074404

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	13	81,993,097 - 82,017,201 (+)	Ensembl
mRatBN7.2 Ensembl	13	79,466,088 - 79,483,555 (+)	Ensembl
Rnor_6.0 Ensembl	13	85,465,792 - 85,559,087 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000094502 ⟹ ENSRNOP00000078430

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	79,460,135 - 79,476,742 (+)	Ensembl

RefSeq Acc Id:

NM_001009631 ⟹ NP_001009631

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	81,993,172 - 82,016,496 (+)	NCBI
mRatBN7.2	13	79,460,229 - 79,483,557 (+)	NCBI
Rnor_6.0	13	85,465,884 - 85,559,113 (+)	NCBI
Rnor_5.0	13	90,201,608 - 90,202,246 (+)	NCBI
RGSC_v3.4	13	82,971,926 - 82,995,262 (+)	RGD
Celera	13	79,165,552 - 79,188,922 (+)	RGD

Sequence:

show sequence

TTGAGTGCTTCCCCCGTGAAGGGTGGGAGCGCAGGGACGGACGAGCGAGATGAGCACCATGTTT
GCAGACACGCTGCTCATCGTTTTTATCTCCGTGTGCACCGCGCTGCTCGCCGAGGGCATAACCT
GGGTCCTGGTTTACAGGACAGACAAATACAAGAGATTGAAGGCGGAAGTGGAAAAACAAAGTAA
AAAGTTAGAGAAGAAGAAGGAAACTATAACAGAGTCAGCTGGTCGACAACAAAAAAAGAAGATA
GAGCGACAAGAAGAGAAACTAAAGAACAACAATAGAGACCTGTCAATGGTGCGGATGAAATCCA
TGTTTGCGATTGGCTTTTGTTTTACTGCCTTAATGGGAATGTTTAATTCCATATTTGATGGTAG
AGTGGTGGCAAAGCTCCCCTTCACTCCTCTCTCTTACATCCAAGGACTGTCTCACCGAAACCTG
CTGGGCGATGACACCACAGACTGCTCCTTCATCTTCCTGTATATTCTCTGTACTATGTCCATTC
GACAAAACATCCAGAAGATTCTTGGCCTTGCCCCTTCACGAGCTGCCACCAAGCAGGCTGGTGG
ATTTCTTGGCCCCCCACCTCCTTCTGGAAAGTTTTCCTGAGAGAAAGCAGAATTCTGAATTTCC
GATCATTCTTTCAGACATTCAGACTTAACAAGGCACCTGGCCACATTCTCGGTTTGAGCTATTT
CTCGGCTGTGGATATGAACAAATGAGAACACTGCTTAACTAATGGGATAGTGCTTATGATCATG
ATGATTCTTTGTAAGTGCACTCACTGGTTCCATTTGGGTGATCTATGTAACCACAGCATCATCT
TTCTTGTCTCAGTATTTCAGTGTATGTGCCGTGTACACAGGAGCAGATTGTCCATGAACATTAG
CAACTAGGAGAAAACAGTTTACGTAACAACTTCATTGGCATTATTTGTCCTGTTTTTTAAAAAG
CCAAATATGTCACTTTGTGTTTGACAATGAGCCAAATTTTTAGGTGTTTGATTTAGAGAGAGAG
AGAGAGAGAGAGAGAGAGAGAGAGAGAGATGTTTGATTTTTTTGCATATTAAAAAAATATTTTC
TGTAATCTGAACACAAGGATAAGCATTGGTCTAAAAGAGCTAAAATAAAGTTTTATCATGTTCT
TTTAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001009631	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH88319	(Get FASTA)	NCBI Sequence Viewer
	AAQ09812	(Get FASTA)	NCBI Sequence Viewer
	EDM09284	(Get FASTA)	NCBI Sequence Viewer
	EDM09285	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000074404
GenBank Protein	Q5I0H4	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001009631 ⟸ NM_001009631
- UniProtKB:	Q71DI0 (UniProtKB/Swiss-Prot), Q5I0H4 (UniProtKB/Swiss-Prot), A6IDL2 (UniProtKB/TrEMBL), A0A8L2Q2R5 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSTMFADTLLIVFISVCTALLAEGITWVLVYRTDKYKRLKAEVEKQSKKLEKKKETITESAGRQ QKKKIERQEEKLKNNNRDLSMVRMKSMFAIGFCFTALMGMFNSIFDGRVVAKLPFTPLSYIQGL SHRNLLGDDTTDCSFIFLYILCTMSIRQNIQKILGLAPSRAATKQAGGFLGPPPPSGKFS hide sequence

Ensembl Acc Id:

ENSRNOP00000074404 ⟸ ENSRNOT00000082991

Ensembl Acc Id:

ENSRNOP00000005277 ⟸ ENSRNOT00000005277

Ensembl Acc Id:

ENSRNOP00000078430 ⟸ ENSRNOT00000094502

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5I0H4-F1-model_v2	AlphaFold	Q5I0H4	1-188	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698972

Promoter ID:

EPDNEW_R9497

Type:

initiation region

Name:

Tmco1_1

Description:

transmembrane and coiled-coil domains 1

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	13	85,465,804 - 85,465,864	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1359178	AgrOrtholog
BioCyc Gene	G2FUF-17523	BioCyc
Ensembl Genes	ENSRNOG00000003928	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000082991	ENTREZGENE
IMAGE_CLONE	IMAGE:7325542	IMAGE-MGC_LOAD
InterPro	EMC3/TMCO1	UniProtKB/Swiss-Prot
	TMCO1	UniProtKB/Swiss-Prot
KEGG Report	rno:289196	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:109554	IMAGE-MGC_LOAD
NCBI Gene	289196	ENTREZGENE
PANTHER	CALCIUM LOAD-ACTIVATED CALCIUM CHANNEL	UniProtKB/Swiss-Prot
	PTHR20917	UniProtKB/Swiss-Prot
Pfam	EMC3_TMCO1	UniProtKB/Swiss-Prot
PhenoGen	Tmco1	PhenoGen
PIRSF	DUF841_euk	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000003928	RatGTEx
SMART	DUF106	UniProtKB/Swiss-Prot
UniProt	A0A8L2Q2R5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8L2R8R9_RAT	UniProtKB/TrEMBL
	A6IDL2	ENTREZGENE, UniProtKB/TrEMBL
	A6IDL3_RAT	UniProtKB/TrEMBL
	Q5I0H4	ENTREZGENE
	Q71DI0	ENTREZGENE
	TMCO1_RAT	UniProtKB/Swiss-Prot
UniProt Secondary	Q71DI0	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2006-03-30	Tmco1	transmembrane and coiled-coil domains 1	MGC109554	putative membrane protein	Symbol and Name updated	1299863	APPROVED
2005-07-29	MGC109554	putative membrane protein			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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Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

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