Lcn6 MGI Mouse Gene Detail - MGI:3045364

Symbol

Lcn6
Name

lipocalin 6
Synonyms

9230101D24Rik

Feature Type

protein coding gene
IDs

MGI:3045364
NCBI Gene: 620709
Alliance

gene page
Transcription Start Sites

1 TSS

Sequence Map

Chr2:25566798-25571620 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 17.73 cM
Mapping Data

1 experiment

SNPs within 2kb

263 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3045364	protein coding gene	Chr2:25566650-25571620 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0025464	protein coding gene	Chr2:23590061-23594883 (+)
A/J	MGP_AJ_G0025441	protein coding gene	Chr2:22670915-22675737 (+)
AKR/J	MGP_AKRJ_G0025411	protein coding gene	Chr2:23429368-23434190 (+)
BALB/cJ	MGP_BALBcJ_G0025437	protein coding gene	Chr2:22786197-22791019 (+)
C3H/HeJ	MGP_C3HHeJ_G0025198	protein coding gene	Chr2:23365084-23369906 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0025881	protein coding gene	Chr2:24345378-24350200 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023292	protein coding gene	Chr2:21577340-21582564 (+)
CAST/EiJ	MGP_CASTEiJ_G0024661	protein coding gene	Chr2:23232612-23237433 (+)
CBA/J	MGP_CBAJ_G0025176	protein coding gene	Chr2:25175960-25180782 (+)
DBA/2J	MGP_DBA2J_G0025309	protein coding gene	Chr2:22515539-22520361 (+)
FVB/NJ	MGP_FVBNJ_G0025271	protein coding gene	Chr2:22258157-22262979 (+)
LP/J	MGP_LPJ_G0025395	protein coding gene	Chr2:23524432-23529254 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025302	protein coding gene	Chr2:25353576-25358398 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025940	protein coding gene	Chr2:23387893-23392723 (+)
PWK/PhJ	MGP_PWKPhJ_G0024409	protein coding gene	Chr2:22324341-22329164 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0024209	protein coding gene	Chr2:23522054-23527086 (+)
WSB/EiJ	MGP_WSBEiJ_G0024730	protein coding gene	Chr2:23450368-23455198 (+)

Human Ortholog

LCN6, lipocalin 6

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LCN6, lipocalin 6
Synonyms

hLcn5, LCN5, UNQ643
Links

HGNC:17337

NCBI Gene ID: 158062

neXtProt AC: NX_P62502

UniProt: P62502
Chr Location

9q34.3

MGI Vertebrate Homology

Lcn6 stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: LCN6
Gene Tree

Lcn6

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Phenotype Summary

4 phenotypes from 1 allele in 1 genetic background
7 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
Endonuclease-mediated

3
Targeted

4
Genomic Mutations

2 involving Lcn6
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

21 strains or lines available

Mice with loss of expression in the testes show premature acrosome reaction and elevated intracellular calcium levels in sperm.

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Molecular Function

No experimental evidence to support Molecular Function annotation, following literature review. See J:73796.

Biological Process

No experimental evidence to support Biological Process annotation, following literature review. See J:73796.

Cellular Component

No experimental evidence to support Cellular Component annotation, following literature review. See J:73796.

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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

706
cDNA Data

2

Tissue x Stage Matrix

Other Mouse Links

GEO

Expression Atlas

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All Sequences

50
RefSeq

14
UniProt

5
CCDS

CCDS50535.1

Ensembl

ENSMUSG00000045684 (Evidence)
NCBI Gene

620709

			Length	Strain/Species	Flank
genomic	ENSMUSG00000045684	Ensembl Gene Model \| MGI Sequence Detail	4823	C57BL/6J	± kb
transcript	ENSMUST00000114199	Ensembl \| MGI Sequence Detail	729	Not Applicable
polypeptide	ENSMUSP00000109837	Ensembl \| MGI Sequence Detail	181	Not Applicable

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UniProt

5 Sequences
InterPro Domains

IPR012674 Calycin

IPR002345 Lipocalin

IPR000566 Lipocalin/cytosolic fatty-acid binding domain

IPR022272 Lipocalin family conserved site

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All nucleic 2

cDNA 2

Microarray probesets 1

Summaries

All 18

Phenotypes 7
Earliest

J:161922 Tang T, et al., A mouse knockout library for secreted and transmembrane proteins. Nat Biotechnol. 2010 Jul;28(7):749-55
Latest

J:340906 Sakurai N, et al., CRISPR/Cas9-mediated disruption of lipocalins, Ly6g5b, and Ly6g5c causes male subfertility in mice. Andrology. 2022 Nov 25;

TSS for Lcn6:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr16751	Chr2:25566797-25566809 (+)	5 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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