Sdk1 MGI Mouse Gene Detail - MGI:2444413 - sidekick cell adhesion molecule 1

Symbol

Sdk1
Name

sidekick cell adhesion molecule 1
Synonyms

6720466O15Rik

Feature Type

protein coding gene
IDs

MGI:2444413
NCBI Gene: 330222
Alliance

gene page
Transcription Start Sites

7 TSS

Sequence Map

Chr5:141227245-142201341 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 79.81 cM
Mapping Data

2 experiments

SNPs within 2kb

26665 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2444413	protein coding gene	Chr5:141227245-142201377 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0030309	protein coding gene	Chr5:146397367-147423184 (+)
A/J	MGP_AJ_G0030278	protein coding gene	Chr5:140140484-141122344 (+)
AKR/J	MGP_AKRJ_G0030210	protein coding gene	Chr5:144521489-145531393 (+)
BALB/cJ	MGP_BALBcJ_G0030295	protein coding gene	Chr5:141383755-142349112 (+)
C3H/HeJ	MGP_C3HHeJ_G0030006	protein coding gene	Chr5:145332007-146344437 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0030740	protein coding gene	Chr5:151807975-152830209 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027958	protein coding gene	Chr5:133964194-134932813 (+)
CAST/EiJ	MGP_CASTEiJ_G0029411	protein coding gene	Chr5:144765141-145779636 (+)
CBA/J	MGP_CBAJ_G0029976	protein coding gene	Chr5:157983792-159051765 (+)
DBA/2J	MGP_DBA2J_G0030126	protein coding gene	Chr5:139937178-140902691 (+)
FVB/NJ	MGP_FVBNJ_G0030081	protein coding gene	Chr5:139111663-140083169 (+)
LP/J	MGP_LPJ_G0030212	protein coding gene	Chr5:147010372-148048829 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030112	protein coding gene	Chr5:160573734-161602567 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030780	protein coding gene	Chr5:144362532-145373882 (+)
PWK/PhJ	MGP_PWKPhJ_G0029126	protein coding gene	Chr5:138976547-139953325 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0028962	protein coding gene	Chr5:142069280-143131415 (+)
WSB/EiJ	MGP_WSBEiJ_G0029485	protein coding gene	Chr5:145149853-146166043 (+)

Human Ortholog

SDK1, sidekick cell adhesion molecule 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SDK1, sidekick cell adhesion molecule 1
Links

HGNC:19307

NCBI Gene ID: 221935

UniProt: Q7Z5N4
Chr Location

7p22.2; chr7:3301252-4269000 (+) GRCh38

MGI Vertebrate Homology

Sdk1 stringent orthology
1 human;1 mouse;2 zebrafish
HCOP

vertebrate homology predictions: SDK1
Gene Tree

Sdk1

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Phenotype Summary

2 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

8
Endonuclease-mediated

4
Gene trapped

1
Targeted

3
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

112 strains or lines available
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

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All GO Annotations

5
GO References

2

Molecular Function

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

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

786
Tissues

31
cDNA Data

10
Literature Summary

6

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA SDK1

ZFIN sdk1a, sdk1b

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All Sequences

45
RefSeq

4
UniProt

3
CCDS

CCDS39360.2

Ensembl

ENSMUSG00000039683 (Evidence)
NCBI Gene

330222

			Length	Strain/Species	Flank
genomic	ENSMUSG00000039683	Ensembl Gene Model \| MGI Sequence Detail	974097	C57BL/6J	± kb
transcript	ENSMUST00000085774	Ensembl \| MGI Sequence Detail	10352	Not Applicable
polypeptide	ENSMUSP00000082928	Ensembl \| MGI Sequence Detail	2193	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000014567 protein sidekick-1

(term hierarchy)
PDB

5K6U, 5K6V, 5K6W, 5K6Z, 5XWX
InterPro Domains

IPR003961 Fibronectin type III

IPR036116 Fibronectin type III superfamily

IPR013098 Immunoglobulin I-set

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR003598 Immunoglobulin subtype 2

IPR050964 Striated Muscle Structural and Regulatory Protein
GlyGen

Q3UH53 18 sites, 8 N-linked glycans (7 sites), 1 O-linked glycan (1 site)

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All nucleic 14

cDNA 10

Primer pair 2

Other 2

Microarray probesets 3

Summaries

All 36

Developmental Gene Expression 6

Gene Ontology 2

Phenotypes 11
Earliest

J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
Latest

J:326541 Cyagen Biosciences Inc., Cyagen Biosciences Website. 2022;

TSS for Sdk1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr49565	Chr5:141227279-141227297 (+)	43 bp
Tssr49566	Chr5:141227309-141227324 (+)	72 bp
Tssr49567	Chr5:141227348-141227360 (+)	109 bp
Tssr49568	Chr5:141227384-141227398 (+)	146 bp
Tssr49569	Chr5:141833775-141833778 (+)	606,532 bp
Tssr49570	Chr5:141842447-141842466 (+)	615,212 bp
Tssr49571	Chr5:141853305-141853306 (+)	626,061 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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