Scgb3a1 (secretoglobin, family 3A, member 1) - Rat Genome Database

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Gene: Scgb3a1 (secretoglobin, family 3A, member 1) Mus musculus
Analyze
Symbol: Scgb3a1
Name: secretoglobin, family 3A, member 1
RGD ID: 1331973
MGI Page MGI
Description: Predicted to enable cytokine activity. Acts upstream of or within positive regulation of myoblast fusion. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Is expressed in several structures, including gut; heart; mammary gland; respiratory system; and uterus. Orthologous to human SCGB3A1 (secretoglobin family 3A member 1).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: 1110030K16Rik; cytokine HIN-1; family 3A member 1 secretoglobin; high in normal 1; HIN; HIN-1; LuLe; LuLeu2; MGC107611; pneumo secretory protein 2; pnSP-2; Pnsp2; secretoglobin family 3A member 1; UGR; UGRP2; UGRP2A; uteroglobin related protein 2; uteroglobin-related protein 2; Utgrp2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391149,554,422 - 49,555,945 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1149,554,437 - 49,555,945 (+)EnsemblGRCm39 Ensembl
GRCm381149,663,595 - 49,665,118 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1149,663,610 - 49,665,118 (+)EnsemblGRCm38mm10GRCm38
MGSCv371149,477,112 - 49,478,620 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361149,507,033 - 49,508,541 (+)NCBIMGSCv36mm8
Celera1154,225,407 - 54,226,915 (+)NCBICelera
Cytogenetic Map11B1.2NCBI
cM Map1129.75NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11481438   PMID:11682631   PMID:12175512   PMID:12406855   PMID:12438750   PMID:12466851   PMID:12477932   PMID:14610273  
PMID:15811345   PMID:15937080   PMID:16141072   PMID:16141073   PMID:16237061   PMID:17198697   PMID:18194566   PMID:18374910   PMID:18978304   PMID:19135978   PMID:20562862   PMID:20852037  
PMID:21677750   PMID:21873635   PMID:22001906   PMID:22955271   PMID:23221970   PMID:23844157   PMID:24187664   PMID:30768367   PMID:35112129  


Genomics

Comparative Map Data
Scgb3a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391149,554,422 - 49,555,945 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1149,554,437 - 49,555,945 (+)EnsemblGRCm39 Ensembl
GRCm381149,663,595 - 49,665,118 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1149,663,610 - 49,665,118 (+)EnsemblGRCm38mm10GRCm38
MGSCv371149,477,112 - 49,478,620 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361149,507,033 - 49,508,541 (+)NCBIMGSCv36mm8
Celera1154,225,407 - 54,226,915 (+)NCBICelera
Cytogenetic Map11B1.2NCBI
cM Map1129.75NCBI
SCGB3A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385180,590,105 - 180,591,499 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5180,590,105 - 180,591,499 (-)EnsemblGRCh38hg38GRCh38
GRCh375180,017,105 - 180,018,499 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365179,949,711 - 179,951,093 (-)NCBINCBI36Build 36hg18NCBI36
Build 345179,949,711 - 179,951,093NCBI
Celera5175,639,688 - 175,641,070 (-)NCBICelera
Cytogenetic Map5q35.3NCBI
HuRef5174,741,080 - 174,742,462 (-)NCBIHuRef
CHM1_15179,449,540 - 179,450,922 (-)NCBICHM1_1
T2T-CHM13v2.05181,145,993 - 181,147,387 (-)NCBIT2T-CHM13v2.0
Scgb3a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81034,469,166 - 34,470,473 (+)NCBIGRCr8
mRatBN7.21033,968,059 - 33,969,366 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1033,968,059 - 33,969,476 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1038,643,651 - 38,644,958 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0107,182,054 - 7,183,361 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01033,637,313 - 33,638,620 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01035,133,561 - 35,134,868 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1035,133,252 - 35,135,466 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01034,905,080 - 34,906,387 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41035,125,569 - 35,126,876 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11035,127,288 - 35,128,035 (+)NCBI
Celera1033,324,580 - 33,325,887 (+)NCBICelera
Cytogenetic Map10q21NCBI
Scgb3a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955408147,777 - 149,227 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955408147,777 - 149,227 (+)NCBIChiLan1.0ChiLan1.0
SCGB3A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24175,612,543 - 175,614,602 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15173,776,623 - 173,778,685 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05175,792,429 - 175,797,122 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
Scgb3a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213119,092,049 - 119,093,637 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936739301,760 - 303,416 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936739300,579 - 303,414 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCGB3A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl278,125,825 - 78,127,793 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1278,125,874 - 78,127,791 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2279,514,776 - 79,560,816 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SCGB3A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12382,315,106 - 82,317,600 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607513,735,739 - 13,737,333 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Scgb3a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473343,195,143 - 43,196,568 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473343,195,131 - 43,196,655 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Scgb3a1
41 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:340
Count of miRNA genes:160
Interacting mature miRNAs:161
Transcripts:ENSMUST00000043873, ENSMUST00000076006
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
27226738Metcl11_mmetatarsal-calcaneal length 11, 10 week (mouse)11885000061390826Mouse
26884401Huml4_mhumerus length 4, 10 week (mouse)111155000068490826Mouse
27226762Feml21_mfemur length 21, 16 week (mouse)111175000065990826Mouse
1357640Orq2_movulation rate QTL 2 (mouse)Not determined111226863768500330Mouse
4141127W3q4_mweight 3 weeks QTL 4 (mouse)Not determined1226863768500330Mouse
4141470Egq4_mearly growth QTL 4 (mouse)Not determined1226863768500330Mouse
4142109W10q2_mweight 10 weeks QTL 2 (mouse)Not determined1226863768500330Mouse
4141582Lgaq1_mlate growth adjusted QTL 1 (mouse)Not determined1226863768500330Mouse
4142308W6q3_mweight 6 weeks QTL 3 (mouse)Not determined111226863768500330Mouse
4142216Lgq1_mlate growth QTL 1 (mouse)Not determined1226863768500330Mouse
4141966Tailq1_mtail length QTL 1 (mouse)Not determined1226863768500330Mouse
1357851Scfq3_msubcutaneous fat pad weight QTL 3 (mouse)Not determined111226863768500330Mouse
1357720Kidpq1_mkidney weight percentage QTL 1 (mouse)Not determined111226863768500330Mouse
1357437Epfq4_mepididymal fat pad weight QTL 4 (mouse)Not determined111226863768500330Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
1558945Orgwq8_morgan weight QTL 8 (mouse)Not determined111705617567078411Mouse
10053687Eae6_msusceptibility to experimental allergic encephalomyelitis 6 (mouse)Not determined111778196668500330Mouse
12801459Leuf1_mleukocyte filtration 1 (mouse)111857861652578716Mouse
12801460Intim2_mintima modifier 2 (mouse)111857861652578716Mouse
12801457Intmrm2_mintima/media ratio modifier 2 (mouse)111857861652578716Mouse
1300938Bulb3_mbulb size 3 (mouse)Not determined111857861652578716Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
1300579Thypr1_mthymocyte proliferative response 1 (mouse)Not determined111928257753282715Mouse
14746971Manh70_mmandible shape 70 (mouse)111990589053905890Mouse
4141398Tgq22_mtriglyceride QTL 22 (mouse)Not determined2116340655163406Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
10044006Hbnr13_mHeligmosomoides bakeri nematode resistance 13 (mouse)Not determined112577262659772741Mouse
12910801Pwbwq14_mpost-weaning body weight QTL 14 (mouse)112719805750636094Mouse
12910804Pwbwq16_mpost-weaning body weight QTL 16 (mouse)112719805750636094Mouse
12910806Pwbwq15_mpost-weaning body weight QTL 15 (mouse)112719805750636094Mouse
12910817Pwgrq20_mpost-weaning growth rate QTL 20 (mouse)112719805750636094Mouse
12910818Ogrq5_moverall growth rate QTL 5 (mouse)112719805750636094Mouse
1357844Si5lq5_mserum IGFBP-5 level QTL 5 (mouse)Not determined112816587362165976Mouse
13524848Ppiq7_mprepulse inhibition QTL 7 (mouse)112856914762569147Mouse
1301426Desp2_mdespair 2 (mouse)Not determined112870858162708700Mouse
11522752Cocia18_mcocaine-induced activity, QTL 18 (mouse)113100820965008209Mouse
11059563Lmr31_mleishmaniasis resistance 31 (mouse)113210057766100694Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
4142475Ity2a_mimmunity to S. typhimurium 2a (mouse)Not determined113776858060402716Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
10053675Eae44b_mexperimental allergic encephalomyelitis susceptibility 44b (mouse)Not determined113995072854094448Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
1300713Vmbic10_mventral midbrain iron content 10 (mouse)Not determined114277262654081064Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
13452402Hipmt3_mhippocampal morphometry trait 3 (mouse)114797732550277325Mouse

Markers in Region
Scgb3a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381149,664,106 - 49,664,991UniSTSGRCm38
MGSCv371149,477,608 - 49,478,493UniSTSGRCm37
Celera1154,225,903 - 54,226,788UniSTS
Cytogenetic Map11B1.2UniSTS
cM Map1125.0UniSTS
Scgb3a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381149,663,646 - 49,664,566UniSTSGRCm38
MGSCv371149,477,148 - 49,478,068UniSTSGRCm37
Celera1154,225,443 - 54,226,363UniSTS
Cytogenetic Map11B1.2UniSTS
cM Map1125.0UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000043873   ⟹   ENSMUSP00000043325
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1149,554,437 - 49,555,945 (+)Ensembl
GRCm38.p6 Ensembl1149,663,610 - 49,665,118 (+)Ensembl
RefSeq Acc Id: ENSMUST00000076006   ⟹   ENSMUSP00000075387
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1149,554,437 - 49,555,945 (+)Ensembl
GRCm38.p6 Ensembl1149,663,610 - 49,665,118 (+)Ensembl
RefSeq Acc Id: NM_054037   ⟹   NP_473378
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391149,554,422 - 49,555,945 (+)NCBI
GRCm381149,663,595 - 49,665,118 (+)NCBI
MGSCv371149,477,112 - 49,478,620 (+)RGD
Celera1154,225,392 - 54,226,915 (+)NCBI
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_170727   ⟹   NP_733923
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391149,554,422 - 49,555,945 (+)NCBI
GRCm381149,663,595 - 49,665,118 (+)NCBI
MGSCv371149,477,112 - 49,478,620 (+)RGD
Celera1154,225,392 - 54,226,915 (+)NCBI
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_733923   ⟸   NM_170727
- Peptide Label: isoform b
- UniProtKB: Q8CJC6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_473378   ⟸   NM_054037
- Peptide Label: isoform a precursor
- UniProtKB: Q920D7 (UniProtKB/Swiss-Prot),   Q5NCL1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000075387   ⟸   ENSMUST00000076006
RefSeq Acc Id: ENSMUSP00000043325   ⟸   ENSMUST00000043873

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q920D7-F1-model_v2 AlphaFold Q920D7 1-104 view protein structure

Promoters
RGD ID:6822030
Promoter ID:MM_KWN:7198
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney,   MEF_B6
Transcripts:NM_054037,   NM_170727
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361149,477,114 - 49,477,614 (+)MPROMDB
RGD ID:8674478
Promoter ID:EPDNEW_M15269
Type:initiation region
Name:Scgb3a1_1
Description:Mus musculus secretoglobin, family 3A, member 1 , transcriptvariant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381149,663,613 - 49,663,673EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1915912 AgrOrtholog
Ensembl Genes ENSMUSG00000064057 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000043873 ENTREZGENE
  ENSMUST00000043873.10 UniProtKB/Swiss-Prot
  ENSMUST00000076006 ENTREZGENE
  ENSMUST00000076006.5 UniProtKB/TrEMBL
InterPro Secretoglobin_3A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:68662 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1915912 ENTREZGENE
NCBI Gene 68662 ENTREZGENE
PANTHER PTHR34829 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SECRETOGLOBIN FAMILY 3A MEMBER 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SCGB3A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Scgb3a1 PhenoGen
UniProt Q5NCL1 ENTREZGENE, UniProtKB/TrEMBL
  Q8CJC6 ENTREZGENE, UniProtKB/TrEMBL
  Q920D7 ENTREZGENE, UniProtKB/Swiss-Prot