SCGB2A2 (secretoglobin family 2A member 2) - Rat Genome Database

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Gene: SCGB2A2 (secretoglobin family 2A member 2) Homo sapiens
Analyze
Symbol: SCGB2A2
Name: secretoglobin family 2A member 2
RGD ID: 1345224
HGNC Page HGNC:7050
Description: Predicted to be involved in androgen receptor signaling pathway. Predicted to be located in extracellular region. Predicted to be active in extracellular space.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: mammaglobin 1; mammaglobin A; mammaglobin-1; mammaglobin-A; MGB1; MGC71974; prostatic steroid binding protein 1; PSBP1; secretoglobin, family 2A, member 2; UGB2
RGD Orthologs
Bonobo
Dog
Squirrel
Pig
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381162,270,158 - 62,273,160 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1162,270,158 - 62,273,160 (+)EnsemblGRCh38hg38GRCh38
GRCh371162,037,630 - 62,040,632 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361161,794,206 - 61,797,204 (+)NCBINCBI36Build 36hg18NCBI36
Build 341161,794,205 - 61,797,204NCBI
Celera1159,367,094 - 59,370,099 (+)NCBICelera
Cytogenetic Map11q12.3NCBI
HuRef1158,366,037 - 58,369,049 (+)NCBIHuRef
CHM1_11161,920,508 - 61,923,505 (+)NCBICHM1_1
T2T-CHM13v2.01162,259,408 - 62,262,421 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction 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

Human Phenotype
References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8631025   PMID:9419211   PMID:9488047   PMID:9754584   PMID:10737800   PMID:11329013   PMID:12022875   PMID:12477932   PMID:12539042   PMID:14696125   PMID:15151203   PMID:15447988  
PMID:15489334   PMID:15609337   PMID:16110760   PMID:16203799   PMID:16760290   PMID:16761620   PMID:16925986   PMID:17071045   PMID:17192791   PMID:17653857   PMID:18251583   PMID:18289390  
PMID:18303409   PMID:18416968   PMID:18451221   PMID:18630503   PMID:18841443   PMID:18846421   PMID:19217055   PMID:19690758   PMID:20092039   PMID:20306663   PMID:20586026   PMID:20920982  
PMID:21411781   PMID:21473729   PMID:21623075   PMID:21744998   PMID:21873635   PMID:21939647   PMID:21976532   PMID:22074997   PMID:22155607   PMID:22897908   PMID:22963676   PMID:22994369  
PMID:23212340   PMID:23773480   PMID:23958549   PMID:24328556   PMID:24603286   PMID:24823311   PMID:25416956   PMID:25640309   PMID:25798074   PMID:25906123   PMID:26207726   PMID:26276775  
PMID:27477018   PMID:27563000   PMID:28038704   PMID:28514442   PMID:29340880   PMID:31400353   PMID:32747636   PMID:33961781   PMID:35945910  


Genomics

Comparative Map Data
SCGB2A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381162,270,158 - 62,273,160 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1162,270,158 - 62,273,160 (+)EnsemblGRCh38hg38GRCh38
GRCh371162,037,630 - 62,040,632 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361161,794,206 - 61,797,204 (+)NCBINCBI36Build 36hg18NCBI36
Build 341161,794,205 - 61,797,204NCBI
Celera1159,367,094 - 59,370,099 (+)NCBICelera
Cytogenetic Map11q12.3NCBI
HuRef1158,366,037 - 58,369,049 (+)NCBIHuRef
CHM1_11161,920,508 - 61,923,505 (+)NCBICHM1_1
T2T-CHM13v2.01162,259,408 - 62,262,421 (+)NCBIT2T-CHM13v2.0
SCGB2A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2963,504,649 - 63,507,651 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11164,547,428 - 64,550,433 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01157,635,056 - 57,638,047 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11160,991,797 - 60,994,782 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1160,991,797 - 60,994,777 (+)Ensemblpanpan1.1panPan2
SCGB2A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11854,313,503 - 54,316,375 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1852,885,756 - 52,886,900 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01855,333,824 - 55,370,003 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11854,430,734 - 54,431,802 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01854,003,906 - 54,004,890 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01854,800,393 - 54,801,434 (-)NCBIUU_Cfam_GSD_1.0
UU_Cfam_GSD_1.01854,868,805 - 54,869,473 (-)NCBIUU_Cfam_GSD_1.0
Scgb2a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494710,789,324 - 10,792,427 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936581903,141 - 967,239 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936581903,152 - 906,087 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PHEROC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl29,375,864 - 9,381,800 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.129,376,019 - 9,379,433 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.228,697,812 - 8,701,226 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in SCGB2A2
4 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11q12.3(chr11:62249520-62946093)x3 copy number gain See cases [RCV000138411] Chr11:62249520..62946093 [GRCh38]
Chr11:62016992..62713565 [GRCh37]
Chr11:61773568..62470141 [NCBI36]
Chr11:11q12.3		 pathogenic
GRCh37/hg19 11p13-q25(chr11:32799481-134938470)x3 copy number gain MISSED ABORTION [RCV002282973] Chr11:32799481..134938470 [GRCh37]
Chr11:11p13-q25		 pathogenic
GRCh37/hg19 11q12.3(chr11:62039313-62063841)x3 copy number gain See cases [RCV000447153] Chr11:62039313..62063841 [GRCh37]
Chr11:11q12.3		 likely benign
GRCh37/hg19 11q12.3(chr11:61840997-62987330)x1 copy number loss See cases [RCV000448355] Chr11:61840997..62987330 [GRCh37]
Chr11:11q12.3		 likely pathogenic
GRCh37/hg19 11p15.5-q25(chr11:230616-134938470) copy number gain See cases [RCV000511729] Chr11:230616..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:230616-134938470)x3 copy number gain See cases [RCV000510881] Chr11:230616..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11q12.1-12.3(chr11:58935215-62177656)x3 copy number gain not provided [RCV000683362] Chr11:58935215..62177656 [GRCh37]
Chr11:11q12.1-12.3		 likely pathogenic
GRCh37/hg19 11p15.5-q25(chr11:198510-134934063)x3 copy number gain not provided [RCV000737348] Chr11:198510..134934063 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:70864-134938470)x3 copy number gain not provided [RCV000749874] Chr11:70864..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11q12.2-12.3(chr11:60385382-62456278)x3 copy number gain not provided [RCV001006412] Chr11:60385382..62456278 [GRCh37]
Chr11:11q12.2-12.3		 uncertain significance
GRCh37/hg19 11q12.3(chr11:62010938-62116409)x1 copy number loss not provided [RCV001260129] Chr11:62010938..62116409 [GRCh37]
Chr11:11q12.3		 uncertain significance
GRCh37/hg19 11q12.3(chr11:61874941-62236378)x3 copy number gain not provided [RCV001260130] Chr11:61874941..62236378 [GRCh37]
Chr11:11q12.3		 uncertain significance
NC_000011.9:g.(?_59596957)_(68707199_?)dup duplication Familial temporal lobe epilepsy 8 [RCV001372442] Chr11:59596957..68707199 [GRCh37]
Chr11:11q12.1-13.3		 uncertain significance
Single allele deletion Intellectual disability [RCV001293382] Chr11:118359328..118372573 [GRCh37]
Chr11:11p15.3-q23.3		 pathogenic
NC_000011.9:g.(?_58916346)_(64972349_?)dup duplication Leukocyte adhesion deficiency 3 [RCV003113394]|not provided [RCV003113393] Chr11:58916346..64972349 [GRCh37]
Chr11:11q12.1-13.1		 uncertain significance|no classifications from unflagged records
NM_002411.4(SCGB2A2):c.233A>G (p.Glu78Gly) single nucleotide variant not specified [RCV004196814] Chr11:62271058 [GRCh38]
Chr11:62038530 [GRCh37]
Chr11:11q12.3		 likely benign
NM_002411.4(SCGB2A2):c.160G>A (p.Ala54Thr) single nucleotide variant not specified [RCV004246921] Chr11:62270985 [GRCh38]
Chr11:62038457 [GRCh37]
Chr11:11q12.3		 uncertain significance
NM_002411.4(SCGB2A2):c.151G>A (p.Asp51Asn) single nucleotide variant not specified [RCV004229144] Chr11:62270976 [GRCh38]
Chr11:62038448 [GRCh37]
Chr11:11q12.3		 uncertain significance
NM_002411.4(SCGB2A2):c.238T>C (p.Phe80Leu) single nucleotide variant not specified [RCV004116470] Chr11:62271063 [GRCh38]
Chr11:62038535 [GRCh37]
Chr11:11q12.3		 likely benign
GRCh37/hg19 11q12.2-13.5(chr11:59923608-76272324)x3 copy number gain not provided [RCV003484842] Chr11:59923608..76272324 [GRCh37]
Chr11:11q12.2-13.5		 pathogenic
GRCh37/hg19 11q12.1-13.3(chr11:56895955-69295402)x3 copy number gain not specified [RCV003986944] Chr11:56895955..69295402 [GRCh37]
Chr11:11q12.1-13.3		 likely pathogenic
GRCh37/hg19 11p11.12-q13.1(chr11:50398499-63924462)x3 copy number gain not specified [RCV003986918] Chr11:50398499..63924462 [GRCh37]
Chr11:11p11.12-q13.1		 likely pathogenic
NM_002411.4(SCGB2A2):c.251T>C (p.Ile84Thr) single nucleotide variant not specified [RCV004452798] Chr11:62272964 [GRCh38]
Chr11:62040436 [GRCh37]
Chr11:11q12.3		 uncertain significance
NM_002411.4(SCGB2A2):c.161C>T (p.Ala54Val) single nucleotide variant not specified [RCV004452797] Chr11:62270986 [GRCh38]
Chr11:62038458 [GRCh37]
Chr11:11q12.3		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:331
Count of miRNA genes:280
Interacting mature miRNAs:290
Transcripts:ENST00000227918, ENST00000525380
Prediction methods: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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage pharyngeal arch
High 48 1 1 1 30
Medium 4 3 4 96 3 1133 6 5 21 1 96 32 634
Low 91 117 94 51 42 6 235 66 145 19 316 55 44 1 67 128 2
Below cutoff 1406 1997 875 162 747 146 2105 1464 2064 99 683 770 16 839 1585

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000227918   ⟹   ENSP00000227918
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1162,270,158 - 62,273,160 (+)Ensembl
RefSeq Acc Id: ENST00000525380   ⟹   ENSP00000431997
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1162,270,158 - 62,272,071 (+)Ensembl
RefSeq Acc Id: NM_002411   ⟹   NP_002402
RefSeq Status: VALIDATED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381162,270,158 - 62,273,160 (+)NCBI
GRCh371162,037,630 - 62,040,628 (+)ENTREZGENE
GRCh371162,037,630 - 62,040,628 (+)NCBI
Build 361161,794,206 - 61,797,204 (+)NCBI Archive
HuRef1158,366,034 - 58,369,053 (+)NCBI
CHM1_11161,920,505 - 61,923,509 (+)NCBI
T2T-CHM13v2.01162,259,408 - 62,262,421 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005274005   ⟹   XP_005274062
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381162,270,158 - 62,271,203 (+)NCBI
Sequence:
RefSeq Acc Id: XM_054368828   ⟹   XP_054224803
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01162,259,408 - 62,260,453 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_002402   ⟸   NM_002411
- Peptide Label: precursor
- UniProtKB: A1A522 (UniProtKB/Swiss-Prot),   Q86WH8 (UniProtKB/Swiss-Prot),   Q13296 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_005274062   ⟸   XM_005274005
- Peptide Label: isoform X1
- UniProtKB: Q6NX70 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSP00000227918   ⟸   ENST00000227918
RefSeq Acc Id: ENSP00000431997   ⟸   ENST00000525380
RefSeq Acc Id: XP_054224803   ⟸   XM_054368828
- Peptide Label: isoform X1
- UniProtKB: Q6NX70 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q13296-F1-model_v2 AlphaFold Q13296 1-93 view protein structure

Promoters
RGD ID:7220631
Promoter ID:EPDNEW_H16061
Type:multiple initiation site
Name:SCGB2A2_1
Description:secretoglobin family 2A member 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381162,270,158 - 62,270,218EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:7050 AgrOrtholog
COSMIC SCGB2A2 COSMIC
Ensembl Genes ENSG00000110484 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000227918 ENTREZGENE
  ENST00000227918.3 UniProtKB/Swiss-Prot
  ENST00000525380 ENTREZGENE
  ENST00000525380.1 UniProtKB/TrEMBL
GTEx ENSG00000110484 GTEx
HGNC ID HGNC:7050 ENTREZGENE
Human Proteome Map SCGB2A2 Human Proteome Map
InterPro Secretoglobin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Secretoglobin_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:4250 UniProtKB/Swiss-Prot
NCBI Gene 4250 ENTREZGENE
OMIM 605562 OMIM
PANTHER MAMMAGLOBIN-A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAMMAGLOBIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Uteroglobin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA34993 PharmGKB
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
  SCGB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48201 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A1A522 ENTREZGENE
  Q13296 ENTREZGENE
  Q6NX70 ENTREZGENE, UniProtKB/TrEMBL
  Q86WH8 ENTREZGENE
  SG2A2_HUMAN UniProtKB/Swiss-Prot
UniProt Secondary A1A522 UniProtKB/Swiss-Prot
  Q86WH8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-12 SCGB2A2  secretoglobin family 2A member 2    secretoglobin, family 2A, member 2  Symbol and/or name change 5135510 APPROVED