Serpind1 (serpin family D member 1) - Rat Genome Database

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Gene: Serpind1 (serpin family D member 1) Rattus norvegicus
Analyze
Symbol: Serpind1
Name: serpin family D member 1
RGD ID: 619854
Description: Predicted to have serine-type endopeptidase inhibitor activity. Predicted to be involved in negative regulation of endopeptidase activity. Predicted to localize to extracellular space. Human ortholog(s) of this gene implicated in heparin cofactor II deficiency. Orthologous to human SERPIND1 (serpin family D member 1); PARTICIPATES IN coagulation cascade pathway; complement system pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: HC-II; heparin cofactor 2; heparin cofactor II; leuserpin 2; leuserpin-2; protease inhibitor leuserpin-2; rls2var1; serine (or cysteine) peptidase inhibitor, clade D, member 1; serine (or cysteine) proteinase inhibitor, clade D, member 1; serpin D1; serpin peptidase inhibitor, clade D (heparin cofactor), member 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21183,664,517 - 83,675,593 (-)NCBI
Rnor_6.0 Ensembl1187,913,806 - 87,924,816 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01187,913,814 - 87,924,880 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01190,969,513 - 90,980,577 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,666,714 - 85,677,716 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11185,707,310 - 85,718,313 (-)NCBI
Celera1182,428,108 - 82,439,110 (-)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:12477932   PMID:23376485   PMID:23533145   PMID:27068509  


Genomics

Comparative Map Data
Serpind1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21183,664,517 - 83,675,593 (-)NCBI
Rnor_6.0 Ensembl1187,913,806 - 87,924,816 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01187,913,814 - 87,924,880 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01190,969,513 - 90,980,577 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,666,714 - 85,677,716 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11185,707,310 - 85,718,313 (-)NCBI
Celera1182,428,108 - 82,439,110 (-)NCBICelera
Cytogenetic Map11q23NCBI
SERPIND1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2220,774,113 - 20,787,720 (+)EnsemblGRCh38hg38GRCh38
GRCh382220,774,113 - 20,787,720 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372221,128,401 - 21,142,008 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362219,458,383 - 19,472,008 (+)NCBINCBI36hg18NCBI36
Build 342219,452,940 - 19,466,562NCBI
Celera224,619,743 - 4,633,367 (+)NCBI
Cytogenetic Map22q11.21ENTREZGENE
HuRef224,396,258 - 4,409,872 (+)NCBIHuRef
CHM1_12221,128,573 - 21,142,203 (+)NCBICHM1_1
Serpind1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391617,149,235 - 17,161,438 (+)NCBIGRCm39mm39
GRCm39 Ensembl1617,149,235 - 17,161,439 (+)Ensembl
GRCm381617,331,371 - 17,343,574 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,331,371 - 17,343,575 (+)EnsemblGRCm38mm10GRCm38
MGSCv371617,331,464 - 17,343,665 (+)NCBIGRCm37mm9NCBIm37
MGSCv361617,244,978 - 17,257,135 (+)NCBImm8
Celera1617,904,289 - 17,916,527 (+)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1610.74NCBI
Serpind1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544219,525,411 - 19,538,384 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544219,525,411 - 19,537,986 (-)NCBIChiLan1.0ChiLan1.0
SERPIND1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12219,488,733 - 19,502,380 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2219,488,733 - 19,502,380 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0222,997,480 - 3,011,469 (+)NCBIMhudiblu_PPA_v0panPan3
SERPIND1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12630,686,074 - 30,697,437 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2630,686,663 - 30,693,848 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2630,644,440 - 30,655,802 (-)NCBI
ROS_Cfam_1.02632,092,332 - 32,104,026 (-)NCBI
UMICH_Zoey_3.12630,140,268 - 30,151,742 (-)NCBI
UNSW_CanFamBas_1.02629,765,126 - 29,776,487 (-)NCBI
UU_Cfam_GSD_1.02630,854,649 - 30,866,010 (-)NCBI
Serpind1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118140,443,481 - 140,455,345 (-)NCBI
SpeTri2.0NW_0049366192,298,745 - 2,310,740 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SERPIND1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1450,416,309 - 50,436,470 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11450,427,121 - 50,436,470 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,875,835 - 53,885,198 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SERPIND1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1194,709,896 - 4,724,620 (+)NCBI
ChlSab1.1 Ensembl194,715,806 - 4,726,111 (+)Ensembl
Vero_WHO_p1.0NW_0236660852,274,595 - 2,288,806 (-)NCBI
Serpind1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624945919,639 - 932,515 (-)NCBI

Position Markers
D11Wox17  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,674,893 - 83,675,061 (+)MAPPER
Rnor_6.01187,924,191 - 87,924,358NCBIRnor6.0
Rnor_5.01190,979,890 - 90,980,057UniSTSRnor5.0
RGSC_v3.41185,677,091 - 85,677,258UniSTSRGSC3.4
Celera1182,438,485 - 82,438,652UniSTS
Cytogenetic Map11q23UniSTS
MHAa22f12.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,670,701 - 83,670,897 (+)MAPPER
Rnor_6.01187,919,999 - 87,920,194NCBIRnor6.0
Rnor_5.01190,975,698 - 90,975,893UniSTSRnor5.0
RGSC_v3.41185,672,899 - 85,673,094UniSTSRGSC3.4
Celera1182,434,293 - 82,434,488UniSTS
Cytogenetic Map11q23UniSTS
RH130116  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,664,552 - 83,664,737 (+)MAPPER
Rnor_6.01187,913,850 - 87,914,034NCBIRnor6.0
Rnor_5.01190,969,549 - 90,969,733UniSTSRnor5.0
RGSC_v3.41185,666,750 - 85,666,934UniSTSRGSC3.4
Celera1182,428,144 - 82,428,328UniSTS
RH 3.4 Map11722.22UniSTS
Cytogenetic Map11q23UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115785881090463843Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115994302390463843Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116449467190463843Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116964970890463843Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:238
Count of miRNA genes:168
Interacting mature miRNAs:185
Transcripts:ENSRNOT00000031819
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 appendage
High 4 4 4
Medium 36 35 35 2 1
Low 8 17 2 17 2 8 8 13 11 10 10 8
Below cutoff 3 7 2 2 24 16 18

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031819   ⟹   ENSRNOP00000031829
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1187,913,819 - 87,924,816 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084973   ⟹   ENSRNOP00000074639
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1187,913,806 - 87,921,679 (-)Ensembl
RefSeq Acc Id: NM_024382   ⟹   NP_077358
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21183,664,517 - 83,675,519 (-)NCBI
Rnor_6.01187,913,814 - 87,924,816 (-)NCBI
Rnor_5.01190,969,513 - 90,980,577 (-)NCBI
RGSC_v3.41185,666,714 - 85,677,716 (-)RGD
Celera1182,428,108 - 82,439,110 (-)RGD
Sequence:
RefSeq Acc Id: XM_006248709   ⟹   XP_006248771
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21183,664,517 - 83,675,593 (-)NCBI
Rnor_6.01187,913,814 - 87,924,880 (-)NCBI
Rnor_5.01190,969,513 - 90,980,577 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_077358   ⟸   NM_024382
- Peptide Label: precursor
- UniProtKB: Q64268 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006248771   ⟸   XM_006248709
- Peptide Label: isoform X1
- UniProtKB: Q64268 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000031829   ⟸   ENSRNOT00000031819
RefSeq Acc Id: ENSRNOP00000074639   ⟸   ENSRNOT00000084973
Protein Domains
SERPIN

Transcriptome

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

Promoters
RGD ID:13698329
Promoter ID:EPDNEW_R8854
Type:initiation region
Name:Serpind1_1
Description:serpin family D member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01187,924,806 - 87,924,866EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619854 AgrOrtholog
Ensembl Genes ENSRNOG00000001865 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000031829 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074639 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031819 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000084973 UniProtKB/TrEMBL
Gene3D-CATH 2.30.39.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.497.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7372906 IMAGE-MGC_LOAD
InterPro HCII UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serpin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serpin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serpin_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serpin_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serpin_sf_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serpin_sf_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:79224 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108674 IMAGE-MGC_LOAD
NCBI Gene 79224 ENTREZGENE
PANTHER PTHR11461 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Serpin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Serpind1 PhenoGen
PROSITE SERPIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SERPIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56574 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K8K3_RAT UniProtKB/TrEMBL
  HEP2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q5BKA6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-13 Serpind1  serpin family D member 1  Serpind1  serpin peptidase inhibitor, clade D (heparin cofactor), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-01-19 Serpind1  serpin peptidase inhibitor, clade D (heparin cofactor), member 1  Serpind1  serine (or cysteine) peptidase inhibitor, clade D, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Serpind1  serine (or cysteine) peptidase inhibitor, clade D, member 1    serine (or cysteine) proteinase inhibitor, clade D, member 1  Name updated 1299863 APPROVED
2004-12-14 Serpind1  serine (or cysteine) proteinase inhibitor, clade D, member 1    leuserpin-2  Name updated 1299863 APPROVED
2002-08-07 Serpind1  leuserpin-2      Symbol and Name status set to provisional 70820 PROVISIONAL