Safb MGI Mouse Gene Detail - MGI:2146974 - scaffold attachment factor B

Symbol

Safb
Name

scaffold attachment factor B
Synonyms

3110021E02Rik, 5330423C17Rik, SAFB1

Feature Type

protein coding gene
IDs

MGI:2146974
NCBI Gene: 224903
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr17:56891982-56913294 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 17, 29.40 cM
Mapping Data

2 experiments

SNPs within 2kb

416 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2146974	protein coding gene	Chr17:56891825-56913294 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0023929	protein coding gene	Chr17:58288078-58309424 (+)
A/J	MGP_AJ_G0023887	protein coding gene	Chr17:56695581-56717317 (+)
AKR/J	MGP_AKRJ_G0023856	protein coding gene	Chr17:57394857-57415926 (+)
BALB/cJ	MGP_BALBcJ_G0023888	protein coding gene	Chr17:56513004-56535391 (+)
C3H/HeJ	MGP_C3HHeJ_G0023652	protein coding gene	Chr17:58127211-58149380 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0024334	protein coding gene	Chr17:60546140-60567686 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0021780	protein coding gene	Chr17:53170183-53191935 (+)
CAST/EiJ	MGP_CASTEiJ_G0023134	protein coding gene	Chr17:58406012-58427785 (+)
CBA/J	MGP_CBAJ_G0023628	protein coding gene	Chr17:62918949-62941733 (+)
DBA/2J	MGP_DBA2J_G0023756	protein coding gene	Chr17:55396190-55417820 (+)
FVB/NJ	MGP_FVBNJ_G0023722	protein coding gene	Chr17:54934699-54955746 (+)
LP/J	MGP_LPJ_G0023838	protein coding gene	Chr17:58974701-58997508 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0023750	protein coding gene	Chr17:62407165-62432906 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0024378	protein coding gene	Chr17:57756258-57780207 (+)
PWK/PhJ	MGP_PWKPhJ_G0022880	protein coding gene	Chr17:54753902-54778334 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0022691	protein coding gene	Chr17:54526231-54547280 (+)
WSB/EiJ	MGP_WSBEiJ_G0023200	protein coding gene	Chr17:58362332-58391175 (+)

Human Ortholog

SAFB, scaffold attachment factor B

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SAFB, scaffold attachment factor B
Synonyms

HAP, HET, SAB-B1, SAF-B, SAF-B1, SAFB1
Links

HGNC:10520

NCBI Gene ID: 6294

neXtProt AC: NX_Q15424

UniProt: Q15424
Chr Location

19p13.3; chr19:5623035-5668478 (+) GRCh38

MGI Vertebrate Homology

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

vertebrate homology predictions: SAFB
Gene Tree

Safb

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Phenotype Summary

39 phenotypes from 1 allele in 1 genetic background
9 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

38
Endonuclease-mediated

1
Gene trapped

36
Targeted

1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

43 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous null mice display partial embryonic and neonatal lethality, neonatal cyanosis, impaired embryonic hematopoiesis, male sterility, azoospermia, reduced female fertility, impaired transport of embryos through the oviduct, reduced embryonic growth, testicular degeneration and ovarian atrophy.

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All GO Annotations

22
GO References

8

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

764
Tissues

39
cDNA Data

121
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase safb

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All Sequences

54
RefSeq

7
UniProt

4
CCDS

CCDS50152.1

Ensembl

ENSMUSG00000071054 (Evidence)
NCBI Gene

224903

			Length	Strain/Species	Flank
genomic	224903	NCBI Gene Model \| MGI Sequence Detail	21313	C57BL/6J	± kb
transcript	NM_001374619	RefSeq \| MGI Sequence Detail	3189	C57BL/6
polypeptide	D3YXK2	UniProt \| EBI \| MGI Sequence Detail	937	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000014432 scaffold attachment factor B1

(term hierarchy)
InterPro Domains

IPR012677 Nucleotide-binding alpha-beta plait domain superfamily

IPR035979 RNA-binding domain superfamily

IPR000504 RNA recognition motif domain

IPR003034 SAP domain

IPR036361 SAP domain superfamily

IPR051738 Scaffold Attachment Factor and Modulators

IPR034781 Scaffold attachment factor B1/2, RNA binding domain
GlyGen

D3YXK2 1 site, 1 O-linked glycan (1 site)

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All nucleic 128

cDNA 121

Primer pair 6

Other 1

Microarray probesets 4

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MGI:1920397, MGI:1925522, MGI:2147152

Summaries

All 42

Developmental Gene Expression 4

Gene Ontology 8

Phenotypes 9
Earliest

J:60984 Ko MS, et al., Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Development. 2000 Apr;127(8):1737-49
Latest

J:261596 Schilders K, et al., Generation of a biotinylatable Sox2 mouse model to identify Sox2 complexes in vivo. Transgenic Res. 2018 Feb;27(1):75-85

TSS for Safb:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr145307	Chr17:56891822-56891827 (+)	-157 bp
Tssr145308	Chr17:56891923-56891932 (+)	-54 bp
Tssr145309	Chr17:56891948-56891959 (+)	-28 bp
Tssr145310	Chr17:56891961-56891968 (+)	-17 bp
Tssr145311	Chr17:56891973-56892031 (+)	20 bp
Tssr145312	Chr17:56900947-56900961 (+)	8,972 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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