Serpinb13 (serpin family B member 13) - Rat Genome Database

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Gene: Serpinb13 (serpin family B member 13) Rattus norvegicus
Analyze
Symbol: Serpinb13
Name: serpin family B member 13
RGD ID: 1304661
Description: Predicted to enable cysteine-type endopeptidase inhibitor activity and protease binding activity. Predicted to be involved in negative regulation of keratinocyte apoptotic process. Predicted to be located in cytosol and nuclear speck. Predicted to be active in extracellular space. Orthologous to human SERPINB13 (serpin family B member 13); PARTICIPATES IN Entamoebiasis pathway; INTERACTS WITH atrazine; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC304690; serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13; serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 13; serpin B13; serpin peptidase inhibitor, clade B (ovalbumin), member 13
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81323,633,220 - 23,665,100 (+)NCBIGRCr8
mRatBN7.21323,118,582 - 23,150,352 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1323,118,584 - 23,150,760 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1323,440,858 - 23,476,035 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01324,725,325 - 24,760,499 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01323,411,040 - 23,446,214 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01327,032,048 - 27,062,620 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1327,032,048 - 27,062,620 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01332,181,102 - 32,211,674 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41313,175,746 - 13,209,693 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11313,174,044 - 13,209,213 (+)NCBI
Celera1322,973,759 - 23,006,125 (+)NCBICelera
Cytogenetic Map13p11NCBI
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
cytoplasm  (ISO)
cytosol  (IEA,ISO)
extracellular space  (IBA)
nuclear speck  (IEA,ISO)
nucleolus  (ISO)
nucleoplasm  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12504904   PMID:12809493   PMID:19056867   PMID:23376485   PMID:25931508  


Genomics

Comparative Map Data
Serpinb13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81323,633,220 - 23,665,100 (+)NCBIGRCr8
mRatBN7.21323,118,582 - 23,150,352 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1323,118,584 - 23,150,760 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1323,440,858 - 23,476,035 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01324,725,325 - 24,760,499 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01323,411,040 - 23,446,214 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01327,032,048 - 27,062,620 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1327,032,048 - 27,062,620 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01332,181,102 - 32,211,674 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41313,175,746 - 13,209,693 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11313,174,044 - 13,209,213 (+)NCBI
Celera1322,973,759 - 23,006,125 (+)NCBICelera
Cytogenetic Map13p11NCBI
SERPINB13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381863,587,343 - 63,599,192 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1863,586,989 - 63,604,639 (+)EnsemblGRCh38hg38GRCh38
GRCh371861,254,577 - 61,266,426 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361859,405,580 - 59,417,413 (+)NCBINCBI36Build 36hg18NCBI36
Build 341859,405,579 - 59,417,412NCBI
Celera1857,975,029 - 57,986,928 (+)NCBICelera
Cytogenetic Map18q21.33NCBI
HuRef1857,954,365 - 57,966,266 (+)NCBIHuRef
CHM1_11861,250,738 - 61,262,635 (+)NCBICHM1_1
T2T-CHM13v2.01863,792,453 - 63,804,288 (+)NCBIT2T-CHM13v2.0
Serpinb13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391106,908,714 - 106,928,925 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1106,908,714 - 106,928,925 (+)EnsemblGRCm39 Ensembl
GRCm381106,980,984 - 107,001,195 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1106,980,984 - 107,001,195 (+)EnsemblGRCm38mm10GRCm38
MGSCv371108,877,561 - 108,897,772 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361108,808,531 - 108,828,742 (+)NCBIMGSCv36mm8
Celera1109,829,710 - 109,849,799 (+)NCBICelera
Cytogenetic Map1E2.1NCBI
cM Map150.34NCBI
Serpinb13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540247,376,973 - 47,395,267 (+)NCBIChiLan1.0ChiLan1.0
SERPINB13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21781,099,631 - 81,110,133 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11866,792,242 - 66,802,744 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01856,946,828 - 56,958,702 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11860,258,085 - 60,270,607 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1860,258,085 - 60,270,607 (+)Ensemblpanpan1.1panPan2
SERPINB13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1113,492,998 - 13,505,716 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl113,493,301 - 13,505,001 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha114,454,349 - 14,466,713 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0113,348,652 - 13,361,012 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl113,348,955 - 13,361,049 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1113,386,943 - 13,399,315 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0113,316,210 - 13,328,609 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0113,565,064 - 13,577,444 (-)NCBIUU_Cfam_GSD_1.0
SERPINB13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1158,099,975 - 158,113,501 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11158,099,811 - 158,113,526 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SERPINB13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11816,163,247 - 16,175,953 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1816,165,054 - 16,173,438 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660609,514,452 - 9,526,866 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Serpinb13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247929,391,297 - 9,406,424 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247929,388,994 - 9,406,618 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Serpinb13
163 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:34
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000031789
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317027Aia22Adjuvant induced arthritis QTL 222.29joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)13134266636Rat
738036Lnnr4Liver neoplastic nodule remodeling QTL 43.64liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)13142356786Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
631672Iddm12Insulin dependent diabetes mellitus QTL 122.20.0032blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)13599466834535351Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317034Aia9Adjuvant induced arthritis QTL 94.62joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131176653532331607Rat
2317044Aia23Adjuvant induced arthritis QTL 232.3joint integrity trait (VT:0010548)ankle joint diameter (CMO:0002148)131176653532331607Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat


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

endocrine system hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 1 1 2 6
Below cutoff 7 7 1 1 17 2 3 2 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031789   ⟹   ENSRNOP00000034368
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1323,118,584 - 23,150,760 (+)Ensembl
Rnor_6.0 Ensembl1327,032,048 - 27,062,620 (+)Ensembl
RefSeq Acc Id: NM_001107168   ⟹   NP_001100638
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81323,633,220 - 23,664,994 (+)NCBI
mRatBN7.21323,118,582 - 23,150,352 (+)NCBI
Rnor_6.01327,032,048 - 27,062,620 (+)NCBI
Rnor_5.01332,181,102 - 32,211,674 (+)NCBI
RGSC_v3.41313,175,746 - 13,209,693 (+)RGD
Celera1322,973,759 - 23,006,125 (+)RGD
Sequence:
RefSeq Acc Id: XM_063272215   ⟹   XP_063128285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81323,634,373 - 23,665,100 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100638 (Get FASTA)   NCBI Sequence Viewer  
  XP_063128285 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL91753 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000034368
  ENSRNOP00000034368.4
Reference Protein Sequences
RefSeq Acc Id: NP_001100638   ⟸   NM_001107168
- UniProtKB: D3ZKA0 (UniProtKB/TrEMBL),   A6JSV5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000034368   ⟸   ENSRNOT00000031789
RefSeq Acc Id: XP_063128285   ⟸   XM_063272215
- Peptide Label: isoform X1
Protein Domains
SERPIN

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZKA0-F1-model_v2 AlphaFold D3ZKA0 1-389 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304661 AgrOrtholog
BioCyc Gene G2FUF-18598 BioCyc
Ensembl Genes ENSRNOG00000028194 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031789 ENTREZGENE
  ENSRNOT00000031789.6 UniProtKB/TrEMBL
Gene3D-CATH 2.30.39.10 UniProtKB/TrEMBL
  3.30.497.10 UniProtKB/TrEMBL
InterPro Protease_inhib_I4_serpin UniProtKB/TrEMBL
  Protease_inhib_I4_serpin_CS UniProtKB/TrEMBL
  Sepin_dom UniProtKB/TrEMBL
  Serpin_sf UniProtKB/TrEMBL
  Serpin_sf_1 UniProtKB/TrEMBL
  Serpin_sf_2 UniProtKB/TrEMBL
KEGG Report rno:304690 UniProtKB/TrEMBL
NCBI Gene 304690 ENTREZGENE
PANTHER Prot_inh_serpin UniProtKB/TrEMBL
  SERPIN B13 UniProtKB/TrEMBL
Pfam Serpin UniProtKB/TrEMBL
PhenoGen Serpinb13 PhenoGen
PROSITE SERPIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000028194 RatGTEx
SMART SERPIN UniProtKB/TrEMBL
Superfamily-SCOP Prot_inh_serpin UniProtKB/TrEMBL
UniProt A6JSV5 ENTREZGENE, UniProtKB/TrEMBL
  D3ZKA0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-13 Serpinb13  serpin family B member 13  Serpinb13  serpin peptidase inhibitor, clade B (ovalbumin), member 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Serpinb13  serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13   Serpinb13_predicted  serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Serpinb13_predicted  serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13 (predicted)    serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 13 (predicted)  Name updated 1299863 APPROVED
2005-01-12 Serpinb13_predicted  serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 13 (predicted)      Symbol and Name status set to approved 70820 APPROVED