Katna1 (katanin catalytic subunit A1) - Rat Genome Database

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Gene: Katna1 (katanin catalytic subunit A1) Rattus norvegicus
Analyze
Symbol: Katna1
Name: katanin catalytic subunit A1
RGD ID: 1303062
Description: Predicted to have several functions, including dynein complex binding activity; microtubule-severing ATPase activity; and protein heterodimerization activity. Involved in microtubule severing and negative regulation of neuron projection development. Localizes to growth cone and neuronal cell body. Orthologous to human KATNA1 (katanin catalytic subunit A1); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: katanin; katanin p60 (ATPase-containing) subunit A1; katanin p60 ATPase-containing subunit A1; katanin p60 subunit A 1; katanin p60 subunit A1; microtubule severing protein; p60 katanin
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
mRatBN7.212,202,501 - 2,244,132 (+)NCBI
Rnor_6.0 Ensembl11,825,872 - 1,867,787 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.011,826,170 - 1,867,786 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013,522,927 - 3,564,344 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.412,394,947 - 2,436,574 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.112,394,946 - 2,436,572 (+)NCBI
Celera1751,300 - 792,888 (+)NCBICelera
Cytogenetic Map1p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
axon  (IDA,ISO)
centrosome  (IEA,ISO)
Cul3-RING ubiquitin ligase complex  (ISS)
cytoplasm  (IEA,ISO,ISS)
growth cone  (IDA)
lipid droplet  (ISO)
microtubule  (IEA)
microtubule cytoskeleton  (IBA)
midbody  (IEA,ISO,ISS)
mitotic spindle pole  (IEA,ISO,ISS)
neuronal cell body  (IDA)
nucleus  (IBA,ISO,TAS)
plasma membrane  (ISO)
spindle  (ISO,ISS)
spindle pole  (ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:8889548   PMID:10209026   PMID:10445032   PMID:10751153   PMID:12477932   PMID:16203747   PMID:16554463   PMID:18234839   PMID:19261606   PMID:20530212   PMID:23904609   PMID:24303010  
PMID:26929214   PMID:31963385  


Genomics

Comparative Map Data
Katna1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.212,202,501 - 2,244,132 (+)NCBI
Rnor_6.0 Ensembl11,825,872 - 1,867,787 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.011,826,170 - 1,867,786 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013,522,927 - 3,564,344 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.412,394,947 - 2,436,574 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.112,394,946 - 2,436,572 (+)NCBI
Celera1751,300 - 792,888 (+)NCBICelera
Cytogenetic Map1p13NCBI
KATNA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6149,594,873 - 149,648,972 (-)EnsemblGRCh38hg38GRCh38
GRCh386149,594,873 - 149,649,018 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh376149,916,009 - 149,969,850 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366149,957,865 - 150,001,421 (-)NCBINCBI36hg18NCBI36
Build 346149,957,864 - 150,001,421NCBI
Celera6150,651,214 - 150,694,812 (-)NCBI
Cytogenetic Map6q25.1NCBI
HuRef6147,482,647 - 147,536,579 (-)NCBIHuRef
CHM1_16150,180,715 - 150,234,615 (-)NCBICHM1_1
Katna1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39107,601,748 - 7,638,914 (+)NCBIGRCm39mm39
GRCm39 Ensembl107,601,764 - 7,638,914 (+)Ensembl
GRCm38107,725,990 - 7,763,150 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl107,726,000 - 7,763,150 (+)EnsemblGRCm38mm10GRCm38
MGSCv37107,445,798 - 7,482,948 (+)NCBIGRCm37mm9NCBIm37
MGSCv36107,416,212 - 7,453,339 (+)NCBImm8
Celera107,603,717 - 7,641,580 (+)NCBICelera
Cytogenetic Map10A1NCBI
Katna1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543911,623,697 - 11,660,344 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543911,620,285 - 11,658,797 (+)NCBIChiLan1.0ChiLan1.0
KATNA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16152,119,206 - 152,173,349 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6152,119,206 - 152,173,113 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06147,413,892 - 147,467,587 (-)NCBIMhudiblu_PPA_v0panPan3
KATNA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1140,376,153 - 40,422,679 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl140,373,904 - 40,422,627 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha141,213,485 - 41,260,274 (-)NCBI
ROS_Cfam_1.0140,556,065 - 40,602,855 (-)NCBI
UMICH_Zoey_3.1140,432,197 - 40,478,742 (-)NCBI
UNSW_CanFamBas_1.0140,297,210 - 40,343,704 (-)NCBI
UU_Cfam_GSD_1.0140,638,095 - 40,684,879 (-)NCBI
Katna1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946135,305,920 - 135,347,263 (-)NCBI
SpeTri2.0NW_0049364892,557,827 - 2,599,050 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KATNA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl116,321,355 - 16,360,798 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1116,330,854 - 16,360,801 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2118,657,447 - 18,665,635 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KATNA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11321,979,755 - 22,040,247 (+)NCBI
ChlSab1.1 Ensembl1321,993,836 - 22,044,525 (+)Ensembl
Katna1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247858,419,646 - 8,464,757 (+)NCBI

Position Markers
D1Rat246  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.011,868,045 - 1,868,274NCBIRnor6.0
Rnor_5.013,564,603 - 3,564,832UniSTSRnor5.0
RGSC_v3.412,436,832 - 2,437,062RGDRGSC3.4
RGSC_v3.412,436,833 - 2,437,062UniSTSRGSC3.4
RGSC_v3.112,436,833 - 2,437,062RGD
Celera1793,147 - 793,378UniSTS
RH 3.4 Map116.7RGD
RH 3.4 Map116.7UniSTS
SHRSP x BN Map10.04UniSTS
SHRSP x BN Map10.04RGD
Cytogenetic Map1p13UniSTS
RH135174  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.011,860,218 - 1,860,389NCBIRnor6.0
Rnor_6.01014,304,307 - 14,304,486NCBIRnor6.0
Rnor_5.01014,120,323 - 14,120,502UniSTSRnor5.0
Rnor_5.013,556,975 - 3,557,146UniSTSRnor5.0
RGSC_v3.41014,191,417 - 14,191,596UniSTSRGSC3.4
RGSC_v3.412,428,995 - 2,429,166UniSTSRGSC3.4
Celera1013,642,544 - 13,642,723UniSTS
Celera1785,348 - 785,519UniSTS
Cytogenetic Map1p13UniSTS
Cytogenetic Map10q12UniSTS
RH125418  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.011,860,127 - 1,860,227NCBIRnor6.0
Rnor_5.013,556,884 - 3,556,984UniSTSRnor5.0
RGSC_v3.412,428,904 - 2,429,004UniSTSRGSC3.4
Celera1785,257 - 785,357UniSTS
Cytogenetic Map1p13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124368159Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128468970Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1134993530Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1134993530Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)1134993530Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1164407321Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)125439343579402Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)125439343579402Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)125439343579402Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:23
Count of miRNA genes:23
Interacting mature miRNAs:23
Transcripts:ENSRNOT00000020417
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 16 29 16 18 16 51 22 34 11
Low 27 28 25 1 25 8 11 23 13 7 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020417   ⟹   ENSRNOP00000020417
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl11,825,872 - 1,867,787 (+)Ensembl
RefSeq Acc Id: NM_001004217   ⟹   NP_001004217
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.212,202,501 - 2,244,132 (+)NCBI
Rnor_6.011,826,170 - 1,867,786 (+)NCBI
Rnor_5.013,522,927 - 3,564,344 (+)NCBI
RGSC_v3.412,394,947 - 2,436,574 (+)RGD
Celera1751,300 - 792,888 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001004217 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97929 (Get FASTA)   NCBI Sequence Viewer  
  AAT44333 (Get FASTA)   NCBI Sequence Viewer  
  EDL93689 (Get FASTA)   NCBI Sequence Viewer  
  Q6E0V2 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001004217   ⟸   NM_001004217
- UniProtKB: Q6E0V2 (UniProtKB/Swiss-Prot),   Z4YNM2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020417   ⟸   ENSRNOT00000020417
Protein Domains
AAA

Transcriptome

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

Promoters
RGD ID:13689481
Promoter ID:EPDNEW_R5
Type:initiation region
Name:Katna1_1
Description:katanin catalytic subunit A1
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_6.011,826,160 - 1,826,220EPDNEW

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)
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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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 3552922 3552923 G A snv IS/Kyo (KyushuU), DOB/Oda (KyushuU), IS-Tlk/Kyo (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303062 AgrOrtholog
Ensembl Genes ENSRNOG00000014996 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020417 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020417 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7444887 IMAGE-MGC_LOAD
InterPro AAA+_ATPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AAA_lid_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_AAA_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_AAA_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KATNA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vps4_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:292464 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:116039 IMAGE-MGC_LOAD
NCBI Gene 292464 ENTREZGENE
Pfam AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AAA_lid_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vps4_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Katna1 PhenoGen
PROSITE AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt KTNA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Z4YNM2 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q4V7G3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Katna1  katanin catalytic subunit A1  Katna1  katanin p60 (ATPase-containing) subunit A1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Katna1  katanin p60 (ATPase-containing) subunit A1    katanin p60 subunit A 1  Name updated 1299863 APPROVED
2005-02-14 Katna1  katanin p60 subunit A 1      Symbol and Name status set to provisional 70820 PROVISIONAL