LOC299282 (Serine protease inhibitor) - Rat Genome Database

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Gene: LOC299282 (Serine protease inhibitor) Rattus norvegicus
Analyze
No known orthologs.
Symbol: LOC299282
Name: Serine protease inhibitor
RGD ID: 3745
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 chronic obstructive pulmonary disease; cystic fibrosis; and vasculitis. Orthologous to human SERPINA3 (serpin family A member 3).
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Ab1-021; contrapsin-like protease inhibitor 3; contrapsin-like protease inhibitor-related protein; CPi-23; liver regeneration protein lrryan; serine protease inhibitor 1; serine protease inhibitor 2.1; serine protease inhibitor 2a; serine protease inhibitor A3L; serpin A3L; Serpina3l; SPI-1; SPI-2.1; SPI1; Spin1; Spin2a
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26123,298,365 - 123,305,804 (+)NCBI
Rnor_6.0 Ensembl6127,941,526 - 128,080,889 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06128,046,780 - 128,062,241 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06137,256,803 - 137,272,264 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46128,435,211 - 128,450,672 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16128,438,957 - 128,454,419 (+)NCBI
Celera6120,774,322 - 120,789,776 (+)NCBICelera
Cytogenetic Map6q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:3493437   PMID:3494016   PMID:12477932   PMID:15489334   PMID:15638460  


Genomics


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)688996335139410483Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)675623277136143011Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)697949772133849286Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6121224054135658578Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6117355600147991367Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6108154445133849286Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)675623277136426962Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)675623393136142742Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)688507712133507712Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)6127286494144745573Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)675623393136142742Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6104381930138066274Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6104363890147991367Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)691703409136703409Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)692879510137879510Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6127286494147249902Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)6127286494147991367Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)699273921144792678Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)6101207574147991367Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)689631358134631358Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)689631358134631358Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6111134524138065254Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)699273921144273921Rat


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 12 12 12
Medium 15 13 13 4 1
Low 3 8 26 12 19 12 8 9 48 19 29 9 8
Below cutoff 35 4 4 4 2 26 16 8 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001389215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_182474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AY298742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY325133 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC088096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D00752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211246 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218097 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218181 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M15917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X13149 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X16357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X16360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013961   ⟹   ENSRNOP00000013961
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6128,050,311 - 128,062,241 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000014073   ⟹   ENSRNOP00000014073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6128,073,344 - 128,080,878 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000033897   ⟹   ENSRNOP00000029694
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6127,941,526 - 127,964,588 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077517   ⟹   ENSRNOP00000075693
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6128,050,250 - 128,080,220 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078064   ⟹   ENSRNOP00000070684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6128,046,780 - 128,062,238 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082680   ⟹   ENSRNOP00000074930
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6127,946,686 - 128,080,217 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084685   ⟹   ENSRNOP00000071980
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6128,048,099 - 128,080,889 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087017   ⟹   ENSRNOP00000070308
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6128,048,174 - 128,055,509 (+)Ensembl
RefSeq Acc Id: NM_001389215   ⟹   NP_001376144
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,437 - 123,305,804 (+)NCBI
RefSeq Acc Id: NM_182474   ⟹   NP_872280
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.06128,046,780 - 128,062,241 (+)NCBI
Rnor_5.06137,256,803 - 137,272,264 (+)NCBI
RGSC_v3.46128,435,211 - 128,450,672 (+)RGD
Celera6120,774,322 - 120,789,776 (+)RGD
Sequence:
RefSeq Acc Id: XM_039112075   ⟹   XP_038968003
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,398 - 123,305,803 (+)NCBI
RefSeq Acc Id: XM_039112076   ⟹   XP_038968004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,440 - 123,305,803 (+)NCBI
RefSeq Acc Id: XM_039112077   ⟹   XP_038968005
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,387 - 123,305,803 (+)NCBI
RefSeq Acc Id: XR_005505492
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,365 - 123,305,803 (+)NCBI
RefSeq Acc Id: XR_005505493
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,398 - 123,305,803 (+)NCBI
RefSeq Acc Id: XR_005505494
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,298,437 - 123,305,803 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_872280   ⟸   NM_182474
- Sequence:
RefSeq Acc Id: ENSRNOP00000074930   ⟸   ENSRNOT00000082680
RefSeq Acc Id: ENSRNOP00000029694   ⟸   ENSRNOT00000033897
RefSeq Acc Id: ENSRNOP00000071980   ⟸   ENSRNOT00000084685
RefSeq Acc Id: ENSRNOP00000075693   ⟸   ENSRNOT00000077517
RefSeq Acc Id: ENSRNOP00000070308   ⟸   ENSRNOT00000087017
RefSeq Acc Id: ENSRNOP00000014073   ⟸   ENSRNOT00000014073
RefSeq Acc Id: ENSRNOP00000070684   ⟸   ENSRNOT00000078064
RefSeq Acc Id: ENSRNOP00000013961   ⟸   ENSRNOT00000013961
RefSeq Acc Id: XP_038968005   ⟸   XM_039112077
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968003   ⟸   XM_039112075
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001376144   ⟸   NM_001389215
- Peptide Label: precursor
RefSeq Acc Id: XP_038968004   ⟸   XM_039112076
- Peptide Label: isoform X1
Protein Domains
Reverse transcriptase   SERPIN

Transcriptome

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

Promoters
RGD ID:13694807
Promoter ID:EPDNEW_R5330
Type:multiple initiation site
Name:LOC299282_2
Description:Serine protease inhibitor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5331  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.06128,048,149 - 128,048,209EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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)
ACI/EurMcwi (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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
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)
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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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/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
SHRSP/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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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/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:3745 AgrOrtholog
Ensembl Genes ENSRNOG00000010478 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013961 UniProtKB/TrEMBL
  ENSRNOP00000029694 UniProtKB/TrEMBL
  ENSRNOP00000070308 UniProtKB/TrEMBL
  ENSRNOP00000070684 UniProtKB/TrEMBL
  ENSRNOP00000071980 UniProtKB/TrEMBL
  ENSRNOP00000074930 UniProtKB/TrEMBL
  ENSRNOP00000075693 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013961 UniProtKB/TrEMBL
  ENSRNOT00000033897 UniProtKB/TrEMBL
  ENSRNOT00000077517 UniProtKB/TrEMBL
  ENSRNOT00000078064 UniProtKB/TrEMBL
  ENSRNOT00000082680 UniProtKB/TrEMBL
  ENSRNOT00000084685 UniProtKB/TrEMBL
  ENSRNOT00000087017 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:7372979 IMAGE-MGC_LOAD
InterPro DNA/RNA_pol_sf UniProtKB/TrEMBL
  RT_dom 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:299282 UniProtKB/TrEMBL
MGC_CLONE MGC:108539 IMAGE-MGC_LOAD
NCBI Gene 299282 ENTREZGENE
PANTHER PTHR11461 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam RVT_1 UniProtKB/TrEMBL
  Serpin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen LOC299282 PhenoGen
PROSITE RT_POL UniProtKB/TrEMBL
  SERPIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SERPIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56574 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56672 UniProtKB/TrEMBL
UniProt A0A0G2JXK5_RAT UniProtKB/TrEMBL
  A0A0G2JYK0_RAT UniProtKB/TrEMBL
  A0A0G2K1T8_RAT UniProtKB/TrEMBL
  A0A0G2K9B1_RAT UniProtKB/TrEMBL
  A0A0G2KB85_RAT UniProtKB/TrEMBL
  F1LM05_RAT UniProtKB/TrEMBL
  P05544 ENTREZGENE
  P09005 ENTREZGENE
  Q7TMB9_RAT UniProtKB/TrEMBL
  Q7TP87_RAT UniProtKB/TrEMBL
  SPA3L_RAT UniProtKB/Swiss-Prot
  SPI21_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-30 LOC299282  serine (or cysteine) peptidase inhibitor, clade A, member 3K  Spin2a  Serine protease inhibitor  Symbol and Name updated 1299863 APPROVED
2002-06-10 Spin2a  Serine protease inhibitor      Symbol and Name status set to approved 70586 APPROVED