Psd MGI Mouse Gene Detail - MGI:1920978 - pleckstrin and Sec7 domain containing

Symbol

Psd
Name

pleckstrin and Sec7 domain containing
Synonyms

1110007H17Rik, Efa6, Efa6a, Psdl

Feature Type

protein coding gene
IDs

MGI:1920978
NCBI Gene: 73728
Alliance

gene page
Transcription Start Sites

16 TSS

Sequence Map

Chr19:46300526-46315595 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 38.80 cM
Mapping Data

3 experiments

SNPs within 2kb

267 from dbSNP Build 142
Strain Annotations

18
PCR

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1920978	protein coding gene	Chr19:46300524-46316566 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0025204	protein coding gene	Chr19:45993046-46008122 (-)
A/J	MGP_AJ_G0025180	protein coding gene	Chr19:43728823-43743896 (-)
AKR/J	MGP_AKRJ_G0025149	protein coding gene	Chr19:45145713-45160807 (-)
BALB/cJ	MGP_BALBcJ_G0025175	protein coding gene	Chr19:43787728-43802795 (-)
C3H/HeJ	MGP_C3HHeJ_G0024935	protein coding gene	Chr19:45313389-45328465 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0025618	protein coding gene	Chr19:47143301-47159908 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023032	protein coding gene	Chr19:42967528-42982603 (-)
CAST/EiJ	MGP_CASTEiJ_G0024400	protein coding gene	Chr19:45110713-45128575 (-)
CBA/J	MGP_CBAJ_G0024915	protein coding gene	Chr19:49499733-49514830 (-)
DBA/2J	MGP_DBA2J_G0025047	protein coding gene	Chr19:43552216-43567358 (-)
FVB/NJ	MGP_FVBNJ_G0025008	protein coding gene	Chr19:43329233-43344314 (-)
LP/J	MGP_LPJ_G0025133	protein coding gene	Chr19:45903756-45918835 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025039	protein coding gene	Chr19:48842146-48857223 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025676	protein coding gene	Chr19:45253470-45268557 (-)
PWK/PhJ	MGP_PWKPhJ_G0024149	protein coding gene	Chr19:43498591-43513775 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023953	protein coding gene	Chr19:43906186-43921268 (-)
WSB/EiJ	MGP_WSBEiJ_G0024470	protein coding gene	Chr19:45395091-45410160 (-)

Human Ortholog

PSD, pleckstrin and Sec7 domain containing

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PSD, pleckstrin and Sec7 domain containing
Synonyms

EFA6, EFA6A, PSD1, TYL
Links

HGNC:9507

NCBI Gene ID: 5662

neXtProt AC: NX_A5PKW4

UniProt: A5PKW4
Chr Location

10q24.32; chr10:102402617-102421539 (-) GRCh38

MGI Vertebrate Homology

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

vertebrate homology predictions: PSD
Gene Tree

Psd

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Phenotype Summary

3 phenotypes from 1 allele in 1 genetic background
8 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

5
Endonuclease-mediated

2
Gene trapped

1
Targeted

2
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

52 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

16
GO References

5

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

933
Tissues

57
cDNA Data

15
Literature Summary

8

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase psd

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All Sequences

100
RefSeq

38
UniProt

6
CCDS

CCDS29875.1, CCDS84449.1

Ensembl

ENSMUSG00000037126 (Evidence)
NCBI Gene

73728

			Length	Strain/Species	Flank
genomic	ENSMUSG00000037126	Ensembl Gene Model \| MGI Sequence Detail	15070	C57BL/6J	± kb
transcript	ENSMUST00000225323	Ensembl \| MGI Sequence Detail	3398	Not Applicable
polypeptide	ENSMUSP00000152942	Ensembl \| MGI Sequence Detail	1025	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000013341 PH and SEC7 domain-containing protein 1

(term hierarchy)
InterPro Domains

IPR011993 PH-like domain superfamily

IPR001849 Pleckstrin homology domain

IPR041681 Pleckstrin homology domain 9

IPR001605 Pleckstrin homology domain, spectrin-type

IPR023394 Sec7, C-terminal domain superfamily

IPR000904 Sec7 domain

IPR035999 Sec7 domain superfamily

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All nucleic 31

Genomic 12

cDNA 15

Primer pair 3

Other 1

Microarray probesets 4

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MGI:1195274

Summaries

All 44

Developmental Gene Expression 8

Gene Ontology 5

Phenotypes 8
Earliest

J:44719 Perletti L, et al., Identification of a novel gene, PSD, adjacent to NFKB2/lyt-10, which contains Sec7 and pleckstrin-homology domains. Genomics. 1997 Dec 1;46(2):251-9
Latest

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

TSS for Psd:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr159635	Chr19:46316871-46316891 (-)	-1,286 bp
Tssr159634	Chr19:46315603-46315612 (-)	-13 bp
Tssr159633	Chr19:46315560-46315593 (-)	18 bp
Tssr159632	Chr19:46315545-46315553 (-)	46 bp
Tssr159631	Chr19:46315491-46315496 (-)	101 bp
Tssr159630	Chr19:46314982-46315037 (-)	585 bp
Tssr159629	Chr19:46314659-46314716 (-)	907 bp
Tssr159628	Chr19:46314628-46314650 (-)	956 bp
Tssr159627	Chr19:46313268-46313284 (-)	2,319 bp
Tssr159626	Chr19:46313136-46313167 (-)	2,443 bp
Tssr159625	Chr19:46306562-46306586 (-)	9,021 bp
Tssr159624	Chr19:46306505-46306516 (-)	9,084 bp
Tssr159623	Chr19:46306421-46306501 (-)	9,134 bp
Tssr159622	Chr19:46306401-46306404 (-)	9,192 bp
Tssr159621	Chr19:46306396-46306399 (-)	9,197 bp
Tssr159620	Chr19:46300808-46300824 (-)	14,779 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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