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Gene: COL25A1 (collagen type XXV alpha 1 chain) Pan paniscus

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Symbol:

COL25A1

Name:

collagen type XXV alpha 1 chain

RGD ID:

11887795

Description:

ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN axonogenesis involved in innervation (inferred); ASSOCIATED WITH arthrogryposis multiplex congenita (ortholog); congenital fibrosis of the extraocular muscles 5 (ortholog); genetic disease (ortholog); FOUND IN endoplasmic reticulum lumen (inferred); extracellular region (inferred); extracellular space (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

collagen alpha-1(XXV) chain

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly

Position:

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	3	106,903,996 - 107,403,679 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	4	107,199,882 - 107,697,183 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	4	101,311,291 - 101,808,618 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	4	111,885,022 - 112,378,687 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	111,886,313 - 112,378,062 (-)	Ensembl	panpan1.1		panPan2

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
COL25A1	Bonobo	arthrogryposis multiplex congenita		ISO	RGD:1603375	8554872	ClinVar Annotator: match by term: Arthrogryposis	ClinVar	PMID:25741868
COL25A1	Bonobo	congenital fibrosis of the extraocular muscles 5		ISO	RGD:1603375	8554872	ClinVar Annotator: match by term: COL25A1-related condition \| ClinVar Annotator: match by term: Fibrosis of more ...	ClinVar	PMID:25500261\|PMID:25741868\|PMID:28492532\|PMID:31875546
COL25A1	Bonobo	genetic disease		ISO	RGD:1603375	8554872	ClinVar Annotator: match by term: Inborn genetic diseases	ClinVar

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
COL25A1	Bonobo	congenital fibrosis of the extraocular muscles 5		ISO	RGD:1603375	7240710		OMIM

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)
COL25A1	Bonobo	axonogenesis involved in innervation	acts_upstream_of_or_within	IEA	UniProtKB:Q99MQ5\|ensembl:ENSMUSP00000079210	150520179		Ensembl	GO_REF:0000107

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)
COL25A1	Bonobo	endoplasmic reticulum lumen	located_in	IEA	ARBA:ARBA00028691	150520179		UniProt	GO_REF:0000117
COL25A1	Bonobo	extracellular region	located_in	IEA	UniProtKB:Q9BXS0\|ensembl:ENSP00000382083	150520179		Ensembl	GO_REF:0000107
COL25A1	Bonobo	extracellular space	located_in	IEA	UniProtKB:Q9BXS0\|ensembl:ENSP00000382083	150520179		Ensembl	GO_REF:0000107
COL25A1	Bonobo	membrane	located_in	IEA	UniProtKB-KW:KW-0472	150520179		UniProt	GO_REF:0000043
COL25A1	Bonobo	plasma membrane	located_in	IEA	UniProtKB:Q9BXS0\|ensembl:ENSP00000382083	150520179		Ensembl	GO_REF:0000107

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)
COL25A1	Bonobo	amyloid-beta binding	enables	IEA	UniProtKB:Q9BXS0\|ensembl:ENSP00000382083	150520179		Ensembl	GO_REF:0000107
COL25A1	Bonobo	heparin binding	enables	IEA	UniProtKB:Q9BXS0\|ensembl:ENSP00000382083	150520179		Ensembl	GO_REF:0000107
COL25A1	Bonobo	identical protein binding	enables	ISO	UniProtKB:Q9BXS0-3	9068941	PMID:15522881	IntAct	PMID:15522881
COL25A1	Bonobo	protein binding	enables	ISO	UniProtKB:A8K2U6\|UniProtKB:O14901\|UniProtKB:P05067\|UniProtKB:P17612\|UniProtKB:P37173\|UniProtKB:P50454\|UniProtKB:P56539\|UniProtKB:P63151\|UniProtKB:Q9BVL2\|UniProtKB:Q9UGJ0\|UniProtKB:Q9UJY5-4\|UniProtKB:Q9UNE7	9068941	PMID:32814053	IntAct	PMID:32814053

COL25A1
(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	3	106,903,996 - 107,403,679 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	4	107,199,882 - 107,697,183 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	4	101,311,291 - 101,808,618 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	4	111,885,022 - 112,378,687 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	111,886,313 - 112,378,062 (-)	Ensembl	panpan1.1		panPan2

COL25A1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	4	108,808,725 - 109,302,658 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	4	108,808,725 - 109,302,752 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	4	109,729,881 - 110,223,814 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	109,954,421 - 110,443,248 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	4	107,029,732 - 107,518,680 (-)	NCBI		Celera
Cytogenetic Map	4	q25	NCBI
HuRef	4	105,464,237 - 105,956,593 (-)	NCBI		HuRef
CHM1_1	4	109,708,453 - 110,200,435 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	4	112,110,611 - 112,604,870 (-)	NCBI		T2T-CHM13v2.0

Col25a1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	129,973,992 - 130,393,533 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	129,925,150 - 130,393,526 (+)	Ensembl		GRCm39 Ensembl
GRCm38	3	130,180,358 - 130,599,884 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	130,131,501 - 130,599,877 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	129,883,796 - 130,299,335 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	3	130,170,033 - 130,585,572 (+)	NCBI		MGSCv36	mm8
Celera	3	136,700,003 - 137,111,818 (+)	NCBI		Celera
Cytogenetic Map	3	G3	NCBI
cM Map	3	59.99	NCBI

Col25a1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	221,429,378 - 221,828,536 (+)	NCBI		GRCr8
mRatBN7.2	2	218,755,152 - 219,154,348 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	218,755,691 - 219,153,501 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	2	235,515,364 - 235,705,448 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	235,596,123 - 235,715,057 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	254,067,074 - 254,256,966 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	2	211,033,464 - 211,420,527 (+)	NCBI		Celera
Cytogenetic Map	2	q43	NCBI

Col25a1
(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_004955496	839,561 - 1,250,614 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955496	839,474 - 1,255,107 (+)	NCBI	ChiLan1.0	ChiLan1.0

COL25A1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	32	29,119,875 - 29,567,994 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	32	29,124,996 - 29,567,481 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	32	12,454,708 - 12,899,162 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	32	29,350,282 - 29,794,748 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	32	29,350,312 - 29,794,242 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	32	29,344,713 - 29,789,307 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	32	29,089,004 - 29,534,144 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	32	10,322,491 - 10,767,078 (+)	NCBI		UU_Cfam_GSD_1.0

Col25a1
(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_024405301	11,393,313 - 11,849,115 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936563	105,551 - 557,682 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

COL25A1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	8	112,867,664 - 113,334,097 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	8	112,866,597 - 113,335,765 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	121,286,327 - 121,453,787 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

COL25A1
(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	7	56,730,456 - 57,229,587 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666037	35,356,307 - 35,872,306 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Col25a1
(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_004624830	440,429 - 838,818 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624830	440,028 - 842,635 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

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


RefSeq Transcripts	XM_034958984	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958985	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958987	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958989	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958990	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958991	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034958992	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055111699	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055111700	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055111701	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055111702	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055111703	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063603863	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000003	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSPPAT00000030805 ⟹ ENSPPAP00000008170

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	4	111,886,313 - 112,378,062 (-)	Ensembl

Ensembl Acc Id:

ENSPPAT00000030807 ⟹ ENSPPAP00000008172

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	4	111,886,313 - 112,016,419 (-)	Ensembl

Ensembl Acc Id:

ENSPPAT00000030809 ⟹ ENSPPAP00000008174

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	4	111,896,495 - 112,378,062 (-)	Ensembl

Ensembl Acc Id:

ENSPPAT00000030817 ⟹ ENSPPAP00000008182

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	4	111,899,587 - 112,012,799 (-)	Ensembl

RefSeq Acc Id:

XM_055111699 ⟹ XP_054967674

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	3	106,903,996 - 107,403,679 (-)	NCBI
NHGRI_mPanPan1	4	107,199,882 - 107,697,183 (-)	NCBI

RefSeq Acc Id:

XM_055111700 ⟹ XP_054967675

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	3	106,903,996 - 107,403,679 (-)	NCBI
NHGRI_mPanPan1	4	107,199,882 - 107,697,183 (-)	NCBI

RefSeq Acc Id:

XM_055111701 ⟹ XP_054967676

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	3	106,903,996 - 107,403,679 (-)	NCBI
NHGRI_mPanPan1	4	107,199,882 - 107,697,183 (-)	NCBI

RefSeq Acc Id:

XM_055111702 ⟹ XP_054967677

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	3	106,903,996 - 107,311,973 (-)	NCBI
NHGRI_mPanPan1	4	107,199,882 - 107,605,491 (-)	NCBI

RefSeq Acc Id:

XM_055111703 ⟹ XP_054967678

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	3	106,903,996 - 107,311,973 (-)	NCBI
NHGRI_mPanPan1	4	107,199,882 - 107,605,491 (-)	NCBI

RefSeq Acc Id:

XM_063603863 ⟹ XP_063459933

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	3	106,903,996 - 107,403,679 (-)	NCBI


Protein RefSeqs	XP_054967674	(Get FASTA)	NCBI Sequence Viewer
	XP_054967675	(Get FASTA)	NCBI Sequence Viewer
	XP_054967676	(Get FASTA)	NCBI Sequence Viewer
	XP_054967677	(Get FASTA)	NCBI Sequence Viewer
	XP_054967678	(Get FASTA)	NCBI Sequence Viewer
	XP_063459933	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSPPAP00000008170.1
	ENSPPAP00000008172.1
	ENSPPAP00000008174.1
	ENSPPAP00000008182.1

Ensembl Acc Id:

ENSPPAP00000008182 ⟸ ENSPPAT00000030817

Ensembl Acc Id:

ENSPPAP00000008170 ⟸ ENSPPAT00000030805

Ensembl Acc Id:

ENSPPAP00000008174 ⟸ ENSPPAT00000030809

Ensembl Acc Id:

ENSPPAP00000008172 ⟸ ENSPPAT00000030807

RefSeq Acc Id:	XP_054967674 ⟸ XM_055111699
- Peptide Label:	isoform X1

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000027300	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000030805.1	UniProtKB/TrEMBL
	ENSPPAT00000030807.1	UniProtKB/TrEMBL
	ENSPPAT00000030809.1	UniProtKB/TrEMBL
	ENSPPAT00000030817.1	UniProtKB/TrEMBL
InterPro	Collagen	UniProtKB/TrEMBL
	Collagen_Structural_Proteins	UniProtKB/TrEMBL
NCBI Gene	COL25A1	ENTREZGENE
PANTHER	COLLAGEN ALPHA-1(XXV) CHAIN	UniProtKB/TrEMBL
	SI:CH211-266K2.1	UniProtKB/TrEMBL
Pfam	Collagen	UniProtKB/TrEMBL
UniProt	A0A2R8ZT81_PANPA	UniProtKB/TrEMBL
	A0A2R8ZUD8_PANPA	UniProtKB/TrEMBL
	A0A2R8ZYY9_PANPA	UniProtKB/TrEMBL
	A0A2R8ZYZ8_PANPA	UniProtKB/TrEMBL

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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