Col16a1 MGI Mouse Gene Detail - MGI:1095396 - collagen, type XVI, alpha 1

Symbol

Col16a1
Name

collagen, type XVI, alpha 1
Synonyms

2700007F12Rik, [a]1 (XVI) collagen, A530052M23Rik

Feature Type

protein coding gene
IDs

MGI:1095396
NCBI Gene: 107581
Alliance

gene page
Transcription Start Sites

14 TSS

Sequence Map

Chr4:129941638-129993070 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 4, 63.43 cM
Mapping Data

3 experiments

SNPs within 2kb

1114 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1095396	protein coding gene	Chr4:129941633-129993076 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0028842	protein coding gene	Chr4:132028939-132084135 (+)
A/J	MGP_AJ_G0028801	protein coding gene	Chr4:126736133-126788845 (+)
AKR/J	MGP_AKRJ_G0028754	protein coding gene	Chr4:130284509-130340238 (+)
BALB/cJ	MGP_BALBcJ_G0028824	protein coding gene	Chr4:127347725-127401319 (+)
C3H/HeJ	MGP_C3HHeJ_G0028538	protein coding gene	Chr4:130339959-130393592 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0029266	protein coding gene	Chr4:136982515-137038662 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0026538	protein coding gene	Chr4:119860511-119911996 (+)
CAST/EiJ	MGP_CASTEiJ_G0027970	protein coding gene	Chr4:128541982-128604248 (+)
CBA/J	MGP_CBAJ_G0028504	protein coding gene	Chr4:140452495-140512903 (+)
DBA/2J	MGP_DBA2J_G0028653	protein coding gene	Chr4:127170778-127224173 (+)
FVB/NJ	MGP_FVBNJ_G0028620	protein coding gene	Chr4:125957461-126010860 (+)
LP/J	MGP_LPJ_G0028754	protein coding gene	Chr4:132351905-132409121 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0028646	protein coding gene	Chr4:145166055-145224211 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0029304	protein coding gene	Chr4:130650270-130704499 (+)
PWK/PhJ	MGP_PWKPhJ_G0027692	protein coding gene	Chr4:123783109-123841058 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0027518	protein coding gene	Chr4:126533180-126586698 (+)
WSB/EiJ	MGP_WSBEiJ_G0028051	protein coding gene	Chr4:130794261-130853361 (+)

Human Ortholog

COL16A1, collagen type XVI alpha 1 chain

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

COL16A1, collagen type XVI alpha 1 chain
Synonyms

447AA, FP1572
Links

HGNC:2193

NCBI Gene ID: 1307

UniProt: Q07092
Chr Location

1p35.2; chr1:31652263-31704319 (-) GRCh38

MGI Vertebrate Homology

Col16a1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: COL16A1
Gene Tree

Col16a1

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Phenotype Summary

4 phenotypes from 1 allele in 1 genetic background
11 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

7
Chemically induced (other)

2
Endonuclease-mediated

3
Radiation induced

1
Targeted

1
Genomic Mutations

4 involving Col16a1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

59 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

8
GO References

3

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

784
Tissues

49
cDNA Data

65
Literature Summary

11

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase col16a1

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All Sequences

79
RefSeq

23
UniProt

8
CCDS

CCDS38889.1

Ensembl

ENSMUSG00000040690 (Evidence)
NCBI Gene

107581

			Length	Strain/Species	Flank
genomic	107581	NCBI Gene Model \| MGI Sequence Detail	51433	C57BL/6J	± kb
transcript	NM_001404352	RefSeq \| MGI Sequence Detail	5225	C57BL/6
polypeptide	Q8BLX7	UniProt \| EBI \| MGI Sequence Detail	1580	Not Applicable

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UniProt

8 Sequences
Protein Ontology

PR:000005700 collagen alpha-1(XVI) chain

(term hierarchy)
InterPro Domains

IPR050149 Collagen superfamily

IPR008160 Collagen triple helix repeat

IPR013320 Concanavalin A-like lectin/glucanase domain superfamily

IPR048287 Thrombospondin-like, N-terminal domain
GlyGen

Q8BLX7 5 sites, 1 N-linked glycan (1 site)

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All nucleic 69

cDNA 67

Other 2

Microarray probesets 3

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MGI:1919771, MGI:2140369, MGI:2447869

Summaries

All 46

Developmental Gene Expression 11

Gene Ontology 3

Phenotypes 11
Earliest

J:34846 Lai CH, et al., Tissue distribution and developmental expression of type XVI collagen in the mouse. Tissue Cell. 1996 Apr;28(2):155-64
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Col16a1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr39217	Chr4:129941153-129941182 (+)	-470 bp
Tssr1308	Chr4:129941339-129941392 (+)	-272 bp
Tssr39218	Chr4:129941649-129941694 (+)	34 bp
Tssr39219	Chr4:129941707-129941722 (+)	77 bp
Tssr39220	Chr4:129944503-129944527 (+)	2,877 bp
Tssr39221	Chr4:129944534-129944542 (+)	2,900 bp
Tssr39222	Chr4:129948816-129948840 (+)	7,190 bp
Tssr39223	Chr4:129948883-129948894 (+)	7,251 bp
Tssr39224	Chr4:129949072-129949077 (+)	7,437 bp
Tssr1309	Chr4:129949144-129949172 (+)	7,520 bp
Tssr39225	Chr4:129949966-129950011 (+)	8,351 bp
Tssr39226	Chr4:129950559-129950569 (+)	8,926 bp
Tssr39227	Chr4:129954937-129954957 (+)	13,309 bp
Tssr39228	Chr4:129954959-129954979 (+)	13,331 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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