Pds5b MGI Mouse Gene Detail - MGI:2140945 - PDS5 cohesin associated factor B

Symbol

Pds5b
Name

PDS5 cohesin associated factor B
Synonyms

Aprin, AS3, mKIAA0979

Feature Type

protein coding gene
IDs

MGI:2140945
NCBI Gene: 100710
Alliance

gene page
Transcription Start Sites

10 TSS

Sequence Map

Chr5:150597204-150734155 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 89.61 cM
Mapping Data

2 experiments

SNPs within 2kb

2485 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2140945	protein coding gene	Chr5:150597178-150734174 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0030413	protein coding gene	Chr5:156620749-156766959 (+)
A/J	MGP_AJ_G0030386	protein coding gene	Chr5:149908357-150059043 (+)
AKR/J	MGP_AKRJ_G0030313	protein coding gene	Chr5:154540398-154683856 (+)
BALB/cJ	MGP_BALBcJ_G0030395	protein coding gene	Chr5:151172079-151310308 (+)
C3H/HeJ	MGP_C3HHeJ_G0030109	protein coding gene	Chr5:155538191-155684184 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0030850	protein coding gene	Chr5:162330710-162481761 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028063	protein coding gene	Chr5:144234452-144369565 (+)
CAST/EiJ	MGP_CASTEiJ_G0029511	protein coding gene	Chr5:155203015-155349058 (+)
CBA/J	MGP_CBAJ_G0030087	protein coding gene	Chr5:169173572-169333548 (+)
DBA/2J	MGP_DBA2J_G0030231	protein coding gene	Chr5:149559326-149695073 (+)
FVB/NJ	MGP_FVBNJ_G0030185	protein coding gene	Chr5:148804274-148941568 (+)
LP/J	MGP_LPJ_G0030318	protein coding gene	Chr5:157278752-157419399 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030221	protein coding gene	Chr5:171232285-171380360 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030880	protein coding gene	Chr5:154497374-154641254 (+)
PWK/PhJ	MGP_PWKPhJ_G0029225	protein coding gene	Chr5:148728626-148867711 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0029061	protein coding gene	Chr5:151779600-151929212 (+)
WSB/EiJ	MGP_WSBEiJ_G0029588	protein coding gene	Chr5:155306723-155444563 (+)

Human Ortholog

PDS5B, PDS5 cohesin associated factor B

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PDS5B, PDS5 cohesin associated factor B
Synonyms

APRIN, AS3, CG008
Links

HGNC:20418

NCBI Gene ID: 23047

neXtProt AC: NX_Q9NTI5

UniProt: Q9NTI5
Chr Location

13q13.1; chr13:32586452-32778019 (+) GRCh38

MGI Vertebrate Homology

Pds5b stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PDS5B
Gene Tree

Pds5b

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Phenotype Summary

50 phenotypes from 2 alleles in 2 genetic backgrounds
21 phenotypes from multigenic genotypes
2 images
27 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

35
Endonuclease-mediated

2
Gene trapped

27
Targeted

5
Transgenic

1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

100 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit embryonic and neonatal lethality with cardiac defects, craniofacial abnormalities, axial skeletal defects, shortening of most of the long bones, abnormal enteric nervous system morphology, and decreased germ cells.

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All GO Annotations

17
GO References

7

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

924
Tissues

118
cDNA Data

17
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA PDS5B

Xenbase pds5b

ZFIN pds5b

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All Sequences

75
RefSeq

16
UniProt

2
CCDS

CCDS39412.1, CCDS85012.1

Ensembl

ENSMUSG00000034021 (Evidence)
NCBI Gene

100710

			Length	Strain/Species	Flank
genomic	ENSMUSG00000034021	Ensembl Gene Model \| MGI Sequence Detail	136952	C57BL/6J	± kb
transcript	ENSMUST00000038900	Ensembl \| MGI Sequence Detail	7315	Not Applicable
polypeptide	ENSMUSP00000038421	Ensembl \| MGI Sequence Detail	1449	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000012520 sister chromatid cohesion protein PDS5 homolog B

(term hierarchy)
InterPro Domains

IPR011989 Armadillo-like helical

IPR016024 Armadillo-type fold

IPR039776 Sister chromatid cohesion protein Pds5
GlyGen

Q4VA53 2 sites, 3 N-linked glycans (1 site), 1 O-linked glycan (1 site)

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All nucleic 24

Genomic 2

cDNA 17

Primer pair 3

Other 2

Microarray probesets 7

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MGI:2141177, MGI:3850476

Summaries

All 58

Developmental Gene Expression 4

Gene Ontology 7

Phenotypes 27
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:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Pds5b:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr49955	Chr5:150597217-150597282 (+)	46 bp
Tssr49956	Chr5:150597311-150597342 (+)	123 bp
Tssr49957	Chr5:150597349-150597402 (+)	172 bp
Tssr49958	Chr5:150607772-150607775 (+)	10,570 bp
Tssr49959	Chr5:150679760-150679785 (+)	82,569 bp
Tssr49960	Chr5:150680299-150680311 (+)	83,101 bp
Tssr49961	Chr5:150688284-150688291 (+)	91,084 bp
Tssr49962	Chr5:150688317-150688324 (+)	91,117 bp
Tssr49963	Chr5:150724163-150724184 (+)	126,970 bp
Tssr49964	Chr5:150724310-150724324 (+)	127,113 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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