Kpna2l1 (karyopherin subunit alpha 2 like 1) - Rat Genome Database

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Gene: Kpna2l1 (karyopherin subunit alpha 2 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Kpna2l1
Name: karyopherin subunit alpha 2 like 1
RGD ID: 2325125
Description: Orthologous to human KPNA2 (karyopherin subunit alpha 2).
Type: protein-coding (Ensembl: lncRNA)
RefSeq Status: MODEL
Previously known as: importin subunit alpha-1; karyopherin alpha 2-like; LOC100359600
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8613,292,713 - 13,294,727 (-)NCBIGRCr8
mRatBN7.267,539,165 - 7,541,177 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl67,539,160 - 7,541,159 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl67,539,156 - 7,541,159 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0610,642,705 - 10,644,673 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl610,642,700 - 10,644,676 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0620,631,222 - 20,633,189 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4610,523,393 - 10,524,982 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera67,274,646 - 7,276,634 (-)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:25002582  


Genomics

Variants

.
Variants in Kpna2l1
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:221
Count of miRNA genes:152
Interacting mature miRNAs:169
Transcripts:ENSRNOT00000040329
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6507449719988050Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat

Markers in Region
PMC109067P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10q32.1UniSTS
RH133348  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10q32.1UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 112 89 88 57 25 57 6 213 97 92 42 59 31

Sequence


Ensembl Acc Id: ENSRNOT00000040329   ⟹   ENSRNOP00000065409
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl67,539,156 - 7,541,159 (+)Ensembl
Rnor_6.0 Ensembl610,642,700 - 10,644,676 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000096474
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl67,539,160 - 7,541,159 (-)Ensembl
RefSeq Acc Id: XM_056985572   ⟹   XP_056841552
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8613,292,713 - 13,294,727 (-)NCBI
mRatBN7.267,539,165 - 7,541,177 (-)NCBI
Protein Sequences
Protein RefSeqs XP_056841552 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02653 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000065409   ⟸   ENSRNOT00000040329
RefSeq Acc Id: XP_056841552   ⟸   XM_056985572
- UniProtKB: Q9Z0N9 (UniProtKB/TrEMBL),   A6H9E8 (UniProtKB/TrEMBL)
Protein Domains
IBB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R7I0-F1-model_v2 AlphaFold M0R7I0 1-529 view protein structure

Transcriptome

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

Promoters
RGD ID:13694398
Promoter ID:EPDNEW_R4915
Type:multiple initiation site
Name:LOC100359600_1
Description:karyopherin alpha 2-like
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_6.0610,642,700 - 10,642,760EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2325125 AgrOrtholog
BioCyc Gene G2FUF-38712 BioCyc
Ensembl Genes ENSRNOG00000030058 Ensembl
  ENSRNOG00000069334 Ensembl
Gene3D-CATH Importin-alpha, importin-beta-binding domain UniProtKB/TrEMBL
  Leucine-rich Repeat Variant UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Arm_3 UniProtKB/TrEMBL
  Armadillo UniProtKB/TrEMBL
  Importin-a_IBB UniProtKB/TrEMBL
  Importin-a_IBB_sf UniProtKB/TrEMBL
  Importin_alpha UniProtKB/TrEMBL
NCBI Gene 100359600 ENTREZGENE
PANTHER IMPORTIN ALPHA UniProtKB/TrEMBL
  IMPORTIN SUBUNIT ALPHA-1 UniProtKB/TrEMBL
Pfam Arm UniProtKB/TrEMBL
  Arm_3 UniProtKB/TrEMBL
  IBB UniProtKB/TrEMBL
PhenoGen Kpna2l1 PhenoGen
PIRSF Importin_alpha UniProtKB/TrEMBL
PROSITE ARM_REPEAT UniProtKB/TrEMBL
  IBB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000030058 RatGTEx
  ENSRNOG00000069334 RatGTEx
RNAcentral URS00022B0D9E RNACentral
SMART ARM UniProtKB/TrEMBL
Superfamily-SCOP ARM repeat UniProtKB/TrEMBL
UniProt A6H9E8 ENTREZGENE, UniProtKB/TrEMBL
  Q9Z0N9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Kpna2l1  karyopherin subunit alpha 2 like 1  LOC100359600  karyopherin alpha 2-like  Symbol and Name Changed 1299863 APPROVED
2010-05-20 LOC100359600  karyopherin alpha 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL