Sarnp (SAP domain containing ribonucleoprotein) - Rat Genome Database

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Gene: Sarnp (SAP domain containing ribonucleoprotein) Rattus norvegicus
Analyze
Symbol: Sarnp
Name: SAP domain containing ribonucleoprotein
RGD ID: 1305692
Description: Predicted to enable DNA binding activity and RNA binding activity. Predicted to be involved in poly(A)+ mRNA export from nucleus. Predicted to be located in cytoplasmic ribonucleoprotein granule and nuclear speck. Predicted to be part of transcription export complex. Predicted to be active in nucleus. Orthologous to human SARNP (SAP domain containing ribonucleoprotein); PARTICIPATES IN NXF1-NXT1 export pathway; INTERACTS WITH 3-chloropropane-1,2-diol; benzo[a]pyrene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Cip29; cytokine induced protein 29 kDa; LOC362819; MGC112623; nuclear protein Hcc-1; RGD1305692; SAP domain-containing ribonucleoprotein; similar to RIKEN cDNA 1110005A23
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
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
mRatBN7.271,251,096 - 1,305,335 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl71,251,098 - 1,305,332 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.073,246,220 - 3,300,467 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl73,246,220 - 3,300,455 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.073,217,778 - 3,271,845 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.472,121,254 - 2,176,071 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.172,121,394 - 2,176,059 (+)NCBI
Celera71,121,855 - 1,176,089 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. mRNA export and the TREX complex. Katahira J Biochim Biophys Acta. 2012 Jun;1819(6):507-13. doi: 10.1016/j.bbagrm.2011.12.001. Epub 2011 Dec 8.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:20844015   PMID:22658674   PMID:22681889  


Genomics

Comparative Map Data
Sarnp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.271,251,096 - 1,305,335 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl71,251,098 - 1,305,332 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.073,246,220 - 3,300,467 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl73,246,220 - 3,300,455 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.073,217,778 - 3,271,845 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.472,121,254 - 2,176,071 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.172,121,394 - 2,176,059 (+)NCBI
Celera71,121,855 - 1,176,089 (+)NCBICelera
Cytogenetic Map7q11NCBI
SARNP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381255,752,463 - 55,817,724 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1255,752,463 - 55,817,724 (-)EnsemblGRCh38hg38GRCh38
GRCh371256,146,247 - 56,211,508 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,437,325 - 54,497,773 (-)NCBINCBI36Build 36hg18NCBI36
Celera1255,798,717 - 55,863,901 (-)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1253,185,208 - 53,249,923 (-)NCBIHuRef
CHM1_11256,112,996 - 56,178,310 (-)NCBICHM1_1
T2T-CHM13v2.01255,719,098 - 55,784,368 (-)NCBIT2T-CHM13v2.0
Sarnp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910128,657,633 - 128,713,507 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10128,653,202 - 128,713,498 (+)EnsemblGRCm39 Ensembl
GRCm3810128,821,764 - 128,877,638 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10128,817,333 - 128,877,629 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710128,258,827 - 128,314,694 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610128,224,868 - 128,280,566 (+)NCBIMGSCv36mm8
Celera10131,214,346 - 131,270,179 (+)NCBICelera
Cytogenetic Map10D3NCBI
Sarnp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554583,402,822 - 3,451,193 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554583,396,443 - 3,451,193 (-)NCBIChiLan1.0ChiLan1.0
SARNP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11233,818,823 - 33,879,358 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1233,818,823 - 33,879,358 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01233,093,916 - 33,159,303 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SARNP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.110153,682 - 203,598 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl10153,766 - 203,509 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha10215,941 - 265,635 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.010160,817 - 210,447 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl10158,977 - 210,354 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.110138,488 - 188,389 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.010381,571 - 431,208 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.010505,504 - 555,421 (-)NCBIUU_Cfam_GSD_1.0
Sarnp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494558,589,671 - 58,644,607 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936646226,333 - 280,562 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SARNP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl521,199,422 - 21,261,876 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1521,203,048 - 21,262,437 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2522,686,457 - 22,742,102 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SARNP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11151,702,975 - 51,768,435 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1151,707,532 - 51,768,314 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037194,225,541 - 194,291,333 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sarnp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480212,200,312 - 12,254,195 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480212,200,201 - 12,260,246 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
AU048745  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map5q32UniSTS
Cytogenetic Map13q24UniSTS
Cytogenetic Map6q32UniSTS
Cytogenetic Map17p12UniSTS
Cytogenetic Map16p14UniSTS
Cytogenetic Map13q26UniSTS
Cytogenetic Map10q22UniSTS
Cytogenetic Map7q11UniSTS
Cytogenetic Map8q24UniSTS
Cytogenetic Map5q21UniSTS
Cytogenetic Map4q24UniSTS
Cytogenetic Map2q11UniSTS
Cytogenetic Map1q54UniSTS
Cytogenetic Map1q36UniSTS
Cytogenetic Map18p11UniSTS
Cytogenetic Map13q13UniSTS
Cytogenetic Map10q24UniSTS
Cytogenetic Map8q31UniSTS
Cytogenetic Map3q21UniSTS
Cytogenetic Map13p13UniSTS
Cytogenetic Map1q21UniSTS
Cytogenetic Map11q23UniSTS
Cytogenetic Map10q31UniSTS
Cytogenetic Map16q12.2UniSTS
Cytogenetic Map3q24UniSTS
Cytogenetic Map5q36UniSTS
Cytogenetic Map3p13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:253
Count of miRNA genes:159
Interacting mature miRNAs:180
Transcripts:ENSRNOT00000009155
Prediction methods:Microtar, Miranda, 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
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009155   ⟹   ENSRNOP00000009155
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,251,098 - 1,305,323 (+)Ensembl
Rnor_6.0 Ensembl73,246,220 - 3,300,455 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096123   ⟹   ENSRNOP00000083779
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,251,243 - 1,305,329 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101436   ⟹   ENSRNOP00000094202
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,255,069 - 1,305,331 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000112138   ⟹   ENSRNOP00000089624
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,251,226 - 1,305,332 (+)Ensembl
RefSeq Acc Id: NM_001033070   ⟹   NP_001028242
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.271,251,098 - 1,305,335 (+)NCBI
Rnor_6.073,246,220 - 3,300,467 (+)NCBI
Rnor_5.073,217,778 - 3,271,845 (+)NCBI
RGSC_v3.472,121,254 - 2,176,071 (+)RGD
Celera71,121,855 - 1,176,089 (+)RGD
Sequence:
RefSeq Acc Id: XM_006240781   ⟹   XP_006240843
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.271,251,096 - 1,305,335 (+)NCBI
Rnor_6.073,246,223 - 3,300,467 (+)NCBI
Rnor_5.073,217,778 - 3,271,845 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765031   ⟹   XP_008763253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.271,251,096 - 1,281,932 (+)NCBI
Rnor_6.073,246,223 - 3,278,331 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079380   ⟹   XP_038935308
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.271,251,156 - 1,305,335 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001028242   ⟸   NM_001033070
- UniProtKB: Q498U4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006240843   ⟸   XM_006240781
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008763253   ⟸   XM_008765031
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000009155   ⟸   ENSRNOT00000009155
RefSeq Acc Id: XP_038935308   ⟸   XM_039079380
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000083779   ⟸   ENSRNOT00000096123
RefSeq Acc Id: ENSRNOP00000089624   ⟸   ENSRNOT00000112138
RefSeq Acc Id: ENSRNOP00000094202   ⟸   ENSRNOT00000101436
Protein Domains
SAP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q498U4-F1-model_v2 AlphaFold Q498U4 1-210 view protein structure

Transcriptome

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

Promoters
RGD ID:13694956
Promoter ID:EPDNEW_R5480
Type:multiple initiation site
Name:Sarnp_1
Description:SAP domain containing ribonucleoprotein
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_6.073,246,365 - 3,246,425EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 3256914 3256915 A G snv MR/N (MCW)
7 3270890 3270891 G T snv WN/N (MCW), BN/SsN (MCW)
7 3270919 3270920 T G snv F344/NRrrc (MCW), M520/N (MCW), BN/SsN (MCW), Buf/N (MCW), WN/N (MCW), WKY/N (MCW)
7 3275131 3275132 T G snv WN/N (MCW), ACI/N (MCW), MR/N (MCW)
7 3295399 3295400 A C snv MR/N (MCW), WKY/N (MCW), WN/N (MCW), ACI/N (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 2131948 2131949 A G snv MR/N (KNAW), LCR/2Mco (UMich)
7 2146496 2146497 G T snv BN/SsN (KNAW), BN/NHsdMcwi (KNAW), WN/N (KNAW)
7 2146525 2146526 T G snv BN/NHsdMcwi (KNAW), WN/N (KNAW), WKY/N (KNAW), M520/N (KNAW), LE/Stm (KNAW), F344/NRrrc (KNAW), BUF/N (KNAW), BN/SsN (KNAW)
7 2150737 2150738 T G snv ACI/N (KNAW), LE/Stm (KNAW), MR/N (KNAW), WN/N (KNAW), SS/JrHsdMcwi (MCW)
7 2171003 2171004 A C snv WN/N (KNAW), MR/N (KNAW), ACI/N (KNAW), WKY/N (KNAW), BN/NHsdMcwi (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305692 AgrOrtholog
BioCyc Gene G2FUF-35328 BioCyc
Ensembl Genes ENSRNOG00000030520 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009155 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000083779 ENTREZGENE
  ENSRNOP00000083779.1 UniProtKB/TrEMBL
  ENSRNOP00000089624.1 UniProtKB/TrEMBL
  ENSRNOP00000094202.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009155 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000096123 ENTREZGENE
  ENSRNOT00000096123.1 UniProtKB/TrEMBL
  ENSRNOT00000101436.1 UniProtKB/TrEMBL
  ENSRNOT00000112138.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.720.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7385206 IMAGE-MGC_LOAD
InterPro SAP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAP_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362819 UniProtKB/Swiss-Prot
MGC_CLONE MGC:112623 IMAGE-MGC_LOAD
NCBI Gene 362819 ENTREZGENE
Pfam SAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sarnp PhenoGen
PROSITE SAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF68906 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZWH1_RAT UniProtKB/TrEMBL
  A0A8I6AC55_RAT UniProtKB/TrEMBL
  A0A8I6AKB7_RAT UniProtKB/TrEMBL
  Q498U4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-05-18 Sarnp  SAP domain containing ribonucleoprotein  Cip29  cytokine induced protein 29 kDa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Cip29  cytokine induced protein 29 kDa  RGD1305692  similar to RIKEN cDNA 1110005A23  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1305692  similar to RIKEN cDNA 1110005A23  RGD1305692_predicted  similar to RIKEN cDNA 1110005A23 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1305692_predicted  similar to RIKEN cDNA 1110005A23 (predicted)  LOC362819_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC362819_predicted  similar to RIKEN cDNA 1110005A23 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL