Tmco5a (transmembrane and coiled-coil domains 5A)

Gene: Tmco5a (transmembrane and coiled-coil domains 5A) Chinchilla lanigera

Analyze

Symbol:

Tmco5a

Name:

transmembrane and coiled-coil domains 5A

RGD ID:

8803469

Description:

ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog); genetic disease (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

transmembrane and coiled-coil domain-containing protein 5A

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955416	5,030,657 - 5,045,691 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955416	5,030,720 - 5,045,420 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Bloom syndrome (ISO)

colorectal cancer (ISO)

genetic disease (ISO)

prostate cancer (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Genomics

Comparative Map Data

Tmco5a
(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_004955416	5,030,657 - 5,045,691 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955416	5,030,720 - 5,045,420 (+)	NCBI	ChiLan1.0	ChiLan1.0

TMCO5A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	15	37,934,640 - 38,040,865 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	15	37,921,939 - 37,967,724 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	15	38,226,841 - 38,287,237 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	15	36,014,749 - 36,030,915 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	15	14,993,884 - 15,010,043 (+)	NCBI		Celera
Cytogenetic Map	15	q14	NCBI
HuRef	15	15,072,742 - 15,088,901 (+)	NCBI		HuRef
CHM1_1	15	38,346,745 - 38,362,904 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	15	35,739,894 - 35,846,092 (+)	NCBI		T2T-CHM13v2.0

Tmco5
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	116,709,174 - 116,722,987 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	116,709,172 - 116,722,975 (+)	Ensembl		GRCm39 Ensembl
GRCm38	2	116,878,693 - 116,892,506 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	116,878,691 - 116,892,494 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	116,704,427 - 116,718,236 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	116,570,149 - 116,583,935 (+)	NCBI		MGSCv36	mm8
Celera	2	118,003,393 - 118,017,200 (+)	NCBI		Celera
Cytogenetic Map	2	E5	NCBI
cM Map	2	59.03	NCBI

Tmco5a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	124,187,005 - 124,200,308 (+)	NCBI		GRCr8
mRatBN7.2	3	103,732,936 - 103,746,242 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	103,732,945 - 103,746,249 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	3	108,544,922 - 108,559,448 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	108,544,931 - 108,559,476 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	115,103,210 - 115,117,723 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	102,926,118 - 102,938,803 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	3	102,669,952 - 102,683,312 (+)	NCBI		Celera
Cytogenetic Map	3	q35	NCBI

TMCO5A
(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	16	27,161,654 - 27,224,228 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	15	31,315,343 - 31,375,532 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	15	16,864,593 - 16,897,708 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	15	35,119,191 - 35,152,283 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

TMCO5A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	30	5,332,366 - 5,352,069 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	30	5,333,057 - 5,347,513 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	30	5,384,608 - 5,404,305 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	30	5,453,031 - 5,472,729 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	30	5,453,135 - 5,473,403 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	30	5,379,065 - 5,398,761 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	30	5,477,065 - 5,496,757 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	30	5,613,028 - 5,632,721 (+)	NCBI		UU_Cfam_GSD_1.0

Tmco5a
(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_024408640	83,853,531 - 83,867,951 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936471	1,702,243 - 1,715,822 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936471	1,702,243 - 1,715,822 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMCO5A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	133,285,037 - 133,302,309 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	133,291,660 - 133,383,696 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	148,817,053 - 148,833,338 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TMCO5A
(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	26	45,001,265 - 45,040,160 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	26	45,023,323 - 45,038,035 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	95,890,731 - 95,919,689 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tmco5a
(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_004624804	5,243,444 - 5,257,568 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005381195	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_005381196	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01016901	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDF01001662	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000009559 ⟹ ENSCLAP00000009430

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955416	5,030,657 - 5,045,691 (+)	Ensembl

RefSeq Acc Id:

ENSCLAT00000009560 ⟹ ENSCLAP00000009431

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955416	5,030,657 - 5,045,691 (+)	Ensembl

RefSeq Acc Id:

XM_005381195 ⟹ XP_005381252

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955416	5,030,733 - 5,045,420 (+)	NCBI

Sequence:

show sequence

TTCTTCAGAAGCCAGTTGACTAGGGCCGGACTGGAAGACAATCCACAGCAGAAGATACATCTCT
GCTGGCAATTTAGAGGATCTACAATGGAAGACCAAAAGGAAGATCAGCAAGATTACAAGTCAGA
GAAGATGGAAATTTTAAGGTTGGCCCAATCAAAGAGGAACATTATCAGTTTGAACACAGACCTT
GAAAAGGACATGCAGAAAATAGATGAGGCAAATCAGGAGCTGCTTCTCAAAATCCAAGAGAAAG
AACATGAGATTCAGAAGTTAGAAAGTGAGCTCACTCAGATGGAAGACTCAGCAAAAGATGAGGA
ATTGGAGAAGGAAAACTTTATTGTACTGGAAAAGGAAAGAGTCTTGCGGCAGCTGGACGAAAAC
ACAGCCAAACTTGAAAGGAAGAACGAGACTCTGGTCCATAGTATAACAGAACTGCAGAGAAAGC
TTGCAAGGAAATCACACAAGATAACCAAGAATGAACAATGCGATCTGGACAGCACCCCAGAAGA
GTTACAGGTGAAGTTACAGCTGCTGGAAGCTTCCTGTGCAGACCAAGAGCAGAAACTAGTGAAG
GTAATAGAAGACCATACCTTTGTAGTCCAGCTCTGTGCAGACCAAGCTCTCTGCATAAAGAAGT
ACCAGGAAACCTTGAAGAAAATAGAAAAAGAGCTAGAGACTCGATTCCTTGAGAAAGAAGTGTC
AAAAGTCTTGAGCATGGACTCTGCGAAGAGAAAGTGTGAAGGCCAAAATAGCAAGTGTGTTTCT
GTCCCCAAAATGGCAACATGTTTGGGTAAAAGAATTTGTTGCTGTCTCTTTTTCATCATCCTAT
TTTTGGCGAGACTGCTGGGATTCATGCTCTTGCACATAACATTTATAAATCCAGATCTCCTTGT
CAACACCCTGCCAAAGATACTGAGCAGGAGCAATTTGTGGAAGCTGAGATGTTTCCTTTTTCCC
TCTCTCACGCTTGAGACAGAGGACCTGTTACCTCATTGATCCCAAGAAGTATTCTTGCGCAACA
GAAGGCAAGTTGGACTAAGGCCGTGGATAAGAACTCGTGGAACTTGTGGAATGAAGAGATTTCC
TCGCTTTCTTCTCCAAGCTTTGCCTACGTGATGACTTCCTCTTCTGAAACAGTTGTCCAAGACT
AACCTTGCCCAGTAAAGAGCTCTGTCAATAGCT

hide sequence

RefSeq Acc Id:

XM_005381196 ⟹ XP_005381253

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955416	5,030,720 - 5,045,420 (+)	NCBI

Sequence:

show sequence

GGAAAAGATTAGATTCTTCAGAAGCCAGTTGACTAGGGCCGGACTGGAAGACAATCCACAGCAG
AAGGATACATCTCTGCTGGCAATTTAGAGGATCTACAATGGAAGACCAAAAGGAAGATCAGCAA
GATTACAAGTCAGAGAAGATGGAAATTTTAAGGTTGGCCCAATCAAAGAGGAACATTATCAGTT
TGAACACAGACCTTGAAAAGGACATGCAGAAAATAGATGAGGCAAATCAGGAGCTGCTTCTCAA
AATCCAAGAGAAAGAACATGAGATTCAGAAGTTAGAAAGTGAGCTCACTCAGATGGAAGACTCA
GCAAAAGATGAGGAATTGGAGAAGGAAAACTTTATTGTACTGGAAAAGGAAAGAGTCTTGCGGC
AGCTGGACGAAAACACAGCCAAACTTGTAAGTGCGAAGCTTGCAAGGAAATCACACAAGATAAC
CAAGAATGAACAATGCGATCTGGACAGCACCCCAGAAGAGTTACAGGTGAAGTTACAGCTGCTG
GAAGCTTCCTGTGCAGACCAAGAGCAGAAACTAGTGAAGGTAATAGAAGACCATACCTTTGTAG
TCCAGCTCTGTGCAGACCAAGCTCTCTGCATAAAGAAGTACCAGGAAACCTTGAAGAAAATAGA
AAAAGAGCTAGAGACTCGATTCCTTGAGAAAGAAGTGTCAAAAGTCTTGAGCATGGACTCTGCG
AAGAGAAAGTGTGAAGGCCAAAATAGCAAGTGTGTTTCTGTCCCCAAAATGGCAACATGTTTGG
GTAAAAGAATTTGTTGCTGTCTCTTTTTCATCATCCTATTTTTGGCGAGACTGCTGGGATTCAT
GCTCTTGCACATAACATTTATAAATCCAGATCTCCTTGTCAACACCCTGCCAAAGATACTGAGC
AGGAGCAATTTGTGGAAGCTGAGATGTTTCCTTTTTCCCTCTCTCACGCTTGAGACAGAGGACC
TGTTACCTCATTGATCCCAAGAAGTATTCTTGCGCAACAGAAGGCAAGTTGGACTAAGGCCGTG
GATAAGAACTCGTGGAACTTGTGGAATGAAGAGATTTCCTCGCTTTCTTCTCCAAGCTTTGCCT
ACGTGATGACTTCCTCTTCTGAAACAGTTGTCCAAGACTAACCTTGCCCAGTAAAGAGCTCTGT
CAATAGCT

hide sequence

Protein Sequences


Protein RefSeqs	XP_005381252	(Get FASTA)	NCBI Sequence Viewer
	XP_005381253	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000009430.1
	ENSCLAP00000009431
	ENSCLAP00000009431.1

RefSeq Acc Id:

XP_005381253 ⟸ XM_005381196

- Peptide Label:

isoform X2

- Sequence:

show sequence

MEDQKEDQQDYKSEKMEILRLAQSKRNIISLNTDLEKDMQKIDEANQELLLKIQEKEHEIQKLE
SELTQMEDSAKDEELEKENFIVLEKERVLRQLDENTAKLVSAKLARKSHKITKNEQCDLDSTPE
ELQVKLQLLEASCADQEQKLVKVIEDHTFVVQLCADQALCIKKYQETLKKIEKELETRFLEKEV
SKVLSMDSAKRKCEGQNSKCVSVPKMATCLGKRICCCLFFIILFLARLLGFMLLHITFINPDLL
VNTLPKILSRSNLWKLRCFLFPSLTLETEDLLPH

hide sequence

RefSeq Acc Id:	XP_005381252 ⟸ XM_005381195
- Peptide Label:	isoform X1
- UniProtKB:	A0A8C2V2S9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEDQKEDQQDYKSEKMEILRLAQSKRNIISLNTDLEKDMQKIDEANQELLLKIQEKEHEIQKLE SELTQMEDSAKDEELEKENFIVLEKERVLRQLDENTAKLERKNETLVHSITELQRKLARKSHKI TKNEQCDLDSTPEELQVKLQLLEASCADQEQKLVKVIEDHTFVVQLCADQALCIKKYQETLKKI EKELETRFLEKEVSKVLSMDSAKRKCEGQNSKCVSVPKMATCLGKRICCCLFFIILFLARLLGF MLLHITFINPDLLVNTLPKILSRSNLWKLRCFLFPSLTLETEDLLPH hide sequence

RefSeq Acc Id:

ENSCLAP00000009431 ⟸ ENSCLAT00000009560

RefSeq Acc Id:

ENSCLAP00000009430 ⟸ ENSCLAT00000009559

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000006544	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000009559.1	UniProtKB/TrEMBL
	ENSCLAT00000009560	ENTREZGENE
	ENSCLAT00000009560.1	UniProtKB/TrEMBL
InterPro	SMCO2/5	UniProtKB/TrEMBL
NCBI Gene	Tmco5a	ENTREZGENE
PANTHER	PTHR22422	UniProtKB/TrEMBL
	TRANSMEMBRANE AND COILED-COIL DOMAIN-CONTAINING PROTEIN 5A	UniProtKB/TrEMBL
Pfam	TMCO5	UniProtKB/TrEMBL
UniProt	A0A8C2V2S9	ENTREZGENE, UniProtKB/TrEMBL

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 - ClinVar