Katnb1 (katanin regulatory subunit B1) - Rat Genome Database

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Gene: Katnb1 (katanin regulatory subunit B1) Rattus norvegicus
Analyze
Symbol: Katnb1
Name: katanin regulatory subunit B1
RGD ID: 1311256
Description: Predicted to have ATPase regulator activity; dynein complex binding activity; and protein heterodimerization activity. Involved in microtubule severing; positive regulation of cell death; and positive regulation of neuron projection development. Localizes to growth cone; midbody; and neuronal cell body. Human ortholog(s) of this gene implicated in lissencephaly. Orthologous to human KATNB1 (katanin regulatory subunit B1); INTERACTS WITH 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine; 2-methoxyethanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: katanin p80 (WD repeat containing) subunit B 1; katanin p80 (WD40-containing) subunit B 1; katanin p80 WD40 repeat-containing subunit B1; katanin p80 WD40-containing subunit B1; LOC291852
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
mRatBN7.2199,921,216 - 9,940,853 (-)NCBI
Rnor_6.0 Ensembl1910,340,307 - 10,360,310 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01910,340,027 - 10,360,319 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01910,320,130 - 10,339,578 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41910,355,488 - 10,373,010 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11910,360,314 - 10,377,836 (-)NCBI
Celera199,809,407 - 9,826,994 (-)NCBICelera
Cytogenetic Map19p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9568719   PMID:10751153   PMID:12477932   PMID:16203747   PMID:19946888   PMID:21630459   PMID:23904609   PMID:26929214  


Genomics

Comparative Map Data
Katnb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2199,921,216 - 9,940,853 (-)NCBI
Rnor_6.0 Ensembl1910,340,307 - 10,360,310 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01910,340,027 - 10,360,319 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01910,320,130 - 10,339,578 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41910,355,488 - 10,373,010 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11910,360,314 - 10,377,836 (-)NCBI
Celera199,809,407 - 9,826,994 (-)NCBICelera
Cytogenetic Map19p13NCBI
KATNB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1657,735,739 - 57,757,244 (+)EnsemblGRCh38hg38GRCh38
GRCh381657,735,770 - 57,757,244 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371657,769,682 - 57,791,156 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361656,327,161 - 56,348,663 (+)NCBINCBI36hg18NCBI36
Build 341656,328,617 - 56,348,657NCBI
Celera1642,266,969 - 42,288,421 (+)NCBI
Cytogenetic Map16q21NCBI
HuRef1643,636,584 - 43,658,036 (+)NCBIHuRef
CHM1_11659,176,440 - 59,197,887 (+)NCBICHM1_1
Katnb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39895,807,804 - 95,826,502 (+)NCBIGRCm39mm39
GRCm39 Ensembl895,807,814 - 95,829,777 (+)Ensembl
GRCm38895,081,175 - 95,099,874 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl895,081,186 - 95,103,149 (+)EnsemblGRCm38mm10GRCm38
MGSCv37897,605,101 - 97,623,774 (+)NCBIGRCm37mm9NCBIm37
MGSCv36897,970,330 - 97,989,003 (+)NCBImm8
Celera899,407,232 - 99,425,928 (+)NCBICelera
Cytogenetic Map8C5NCBI
Katnb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543315,345,246 - 15,366,039 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543315,345,246 - 15,365,986 (+)NCBIChiLan1.0ChiLan1.0
KATNB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11657,142,912 - 57,165,426 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1657,143,472 - 57,165,426 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01638,011,804 - 38,034,015 (+)NCBIMhudiblu_PPA_v0panPan3
KATNB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1258,734,875 - 58,755,515 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl258,734,893 - 58,755,477 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha255,364,660 - 55,385,336 (-)NCBI
ROS_Cfam_1.0259,273,227 - 59,293,915 (-)NCBI
UMICH_Zoey_3.1256,104,955 - 56,125,637 (-)NCBI
UNSW_CanFamBas_1.0257,112,437 - 57,133,123 (-)NCBI
UU_Cfam_GSD_1.0258,005,758 - 58,026,434 (-)NCBI
Katnb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934949,831,461 - 49,851,830 (-)NCBI
SpeTri2.0NW_0049364759,737,974 - 9,757,614 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KATNB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl619,630,350 - 19,667,676 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1619,630,355 - 19,659,039 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2617,703,623 - 17,719,166 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KATNB1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1543,666,892 - 43,688,110 (+)NCBI
ChlSab1.1 Ensembl543,666,940 - 43,687,807 (+)Ensembl
Katnb1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474628,360,461 - 28,381,545 (-)NCBI

Position Markers
RH140643  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01910,341,114 - 10,341,525NCBIRnor6.0
Rnor_5.01910,321,217 - 10,321,628UniSTSRnor5.0
RGSC_v3.41910,356,295 - 10,356,706UniSTSRGSC3.4
Celera199,810,214 - 9,810,625UniSTS
RH 3.4 Map1993.1UniSTS
Cytogenetic Map19p13UniSTS
AI710639  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01910,340,146 - 10,340,268NCBIRnor6.0
Rnor_5.01910,320,249 - 10,320,371UniSTSRnor5.0
RGSC_v3.41910,355,327 - 10,355,449UniSTSRGSC3.4
Celera199,809,246 - 9,809,368UniSTS
RH 3.4 Map1993.5UniSTS
Cytogenetic Map19p13UniSTS
KATNB1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01910,344,341 - 10,345,160NCBIRnor6.0
Rnor_5.01910,324,444 - 10,325,263UniSTSRnor5.0
RGSC_v3.41910,359,522 - 10,360,341UniSTSRGSC3.4
Celera199,813,441 - 9,814,260UniSTS
Cytogenetic Map19p13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19195770746957707Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19807254547318201Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19500757143907843Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19129558305Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19129558305Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19132379055Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19104464846044648Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)19370183548701835Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19243296347217667Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19138221845Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)19370183548701835Rat
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124933090Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19138221845Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19138221845Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19138221845Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127635288Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:58
Interacting mature miRNAs:64
Transcripts:ENSRNOT00000019770
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 26 18 12 14 12 74 22 41 11
Low 17 39 29 5 29 8 11 13 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019770   ⟹   ENSRNOP00000019770
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1910,340,307 - 10,358,695 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087100   ⟹   ENSRNOP00000070102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1910,340,747 - 10,360,310 (-)Ensembl
RefSeq Acc Id: NM_001024746   ⟹   NP_001019917
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,496 - 9,939,050 (-)NCBI
Rnor_6.01910,340,307 - 10,358,695 (-)NCBI
Rnor_5.01910,320,130 - 10,339,578 (-)NCBI
RGSC_v3.41910,355,488 - 10,373,010 (-)RGD
Celera199,809,407 - 9,826,994 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255078   ⟹   XP_006255140
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,940,707 (-)NCBI
Rnor_6.01910,340,027 - 10,360,318 (-)NCBI
Rnor_5.01910,320,130 - 10,339,578 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601198   ⟹   XP_017456687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,940,707 (-)NCBI
Rnor_6.01910,340,027 - 10,360,318 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601199   ⟹   XP_017456688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,940,520 (-)NCBI
Rnor_6.01910,340,027 - 10,360,187 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601200   ⟹   XP_017456689
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,940,520 (-)NCBI
Rnor_6.01910,340,027 - 10,360,187 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601201   ⟹   XP_017456690
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,940,707 (-)NCBI
Rnor_6.01910,340,027 - 10,360,319 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039097558   ⟹   XP_038953486
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,940,853 (-)NCBI
RefSeq Acc Id: XM_039097559   ⟹   XP_038953487
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,921,216 - 9,934,982 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001019917   ⟸   NM_001024746
- UniProtKB: Q4VFZ4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255140   ⟸   XM_006255078
- Peptide Label: isoform X3
- UniProtKB: Q4VFZ4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456690   ⟸   XM_017601201
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017456687   ⟸   XM_017601198
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456689   ⟸   XM_017601200
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456688   ⟸   XM_017601199
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000070102   ⟸   ENSRNOT00000087100
RefSeq Acc Id: ENSRNOP00000019770   ⟸   ENSRNOT00000019770
RefSeq Acc Id: XP_038953486   ⟸   XM_039097558
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953487   ⟸   XM_039097559
- Peptide Label: isoform X4
Protein Domains
WD_REPEATS_REGION

Transcriptome

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

Promoters
RGD ID:13700955
Promoter ID:EPDNEW_R11457
Type:initiation region
Name:Katnb1_1
Description:katanin regulatory subunit B1
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_6.01910,360,221 - 10,360,281EPDNEW

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)
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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:1311256 AgrOrtholog
Ensembl Genes ENSRNOG00000014626 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000019770 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070102 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019770 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000087100 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9102535 IMAGE-MGC_LOAD
InterPro G-protein_beta_WD-40_rep_reg UniProtKB/TrEMBL
  Katanin_bsu1 UniProtKB/TrEMBL
  Katanin_C-terminal UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/TrEMBL
  WD40_repeat_dom UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
KEGG Report rno:291852 UniProtKB/TrEMBL
MGC_CLONE MGC:187277 IMAGE-MGC_LOAD
NCBI Gene 291852 ENTREZGENE
Pfam Katanin_con80 UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
PharmGKB KATNB1 RGD
PhenoGen Katnb1 PhenoGen
PRINTS GPROTEINBRPT UniProtKB/TrEMBL
PROSITE WD_REPEATS_1 UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/TrEMBL
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP WD40_like UniProtKB/TrEMBL
UniProt A0A0G2JX20_RAT UniProtKB/TrEMBL
  B1WBN6_RAT UniProtKB/TrEMBL
  Q4VFZ4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Katnb1  katanin regulatory subunit B1  Katnb1  katanin p80 (WD repeat containing) subunit B 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-17 Katnb1  katanin p80 (WD repeat containing) subunit B 1  Katnb1  katanin p80 (WD40-containing) subunit B 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Katnb1  katanin p80 (WD40-containing) subunit B 1  Katnb1_predicted  katanin p80 (WD40-containing) subunit B 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Katnb1_predicted  katanin p80 (WD40-containing) subunit B 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED