Plekhh2 (pleckstrin homology, MyTH4 and FERM domain containing H2) - Rat Genome Database
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Gene: Plekhh2 (pleckstrin homology, MyTH4 and FERM domain containing H2) Rattus norvegicus
Analyze
Symbol: Plekhh2
Name: pleckstrin homology, MyTH4 and FERM domain containing H2
RGD ID: 1304935
Description: Predicted to have actin binding activity and identical protein binding activity. Predicted to be involved in negative regulation of actin filament depolymerization. Predicted to localize to several cellular components, including cortical actin cytoskeleton; lamellipodium; and nuclear body. Orthologous to human PLEKHH2 (pleckstrin homology, MyTH4 and FERM domain containing H2); INTERACTS WITH 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC313866; pleckstrin homology domain containing, family H (with MyTH4 domain) member 2; pleckstrin homology domain-containing family H member 2; RGD1304935; similar to CG12467-PA
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
Rnor_6.067,784,743 - 7,895,986 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl67,793,735 - 7,893,769 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.067,731,647 - 7,830,438 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.467,887,555 - 7,986,077 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.167,887,554 - 7,986,077 (+)NCBI
Celera69,753,640 - 9,852,005 (-)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:22832517  


Genomics

Comparative Map Data
Plekhh2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.067,784,743 - 7,895,986 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl67,793,735 - 7,893,769 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.067,731,647 - 7,830,438 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.467,887,555 - 7,986,077 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.167,887,554 - 7,986,077 (+)NCBI
Celera69,753,640 - 9,852,005 (-)NCBICelera
Cytogenetic Map6q12NCBI
PLEKHH2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl243,637,260 - 43,767,987 (+)EnsemblGRCh38hg38GRCh38
GRCh38243,637,260 - 43,767,987 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37243,864,439 - 43,995,126 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36243,717,951 - 43,848,630 (+)NCBINCBI36hg18NCBI36
Build 34243,776,097 - 43,906,776NCBI
Celera243,703,213 - 43,833,863 (+)NCBI
Cytogenetic Map2p21NCBI
HuRef243,600,415 - 43,731,823 (+)NCBIHuRef
CHM1_1243,794,022 - 43,924,517 (+)NCBICHM1_1
Plekhh2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391784,819,303 - 84,929,571 (+)NCBIGRCm39mm39
GRCm381784,511,895 - 84,622,143 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1784,511,895 - 84,622,138 (+)EnsemblGRCm38mm10GRCm38
MGSCv371784,911,235 - 85,021,482 (+)NCBIGRCm37mm9NCBIm37
MGSCv361784,420,221 - 84,530,455 (+)NCBImm8
Celera1788,877,452 - 88,989,118 (+)NCBICelera
Cytogenetic Map17E4NCBI
Plekhh2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544110,825,499 - 10,919,901 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544110,818,982 - 10,921,224 (+)NCBIChiLan1.0ChiLan1.0
PLEKHH2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A44,570,356 - 44,700,272 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A44,570,356 - 44,700,272 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A43,723,791 - 43,852,380 (+)NCBIMhudiblu_PPA_v0panPan3
PLEKHH2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1046,114,348 - 46,224,363 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11046,113,659 - 46,226,259 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Plekhh2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365088,153,367 - 8,268,760 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLEKHH2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl396,707,397 - 96,834,189 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1396,707,397 - 96,833,431 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23102,783,515 - 102,863,985 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PLEKHH2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11463,488,305 - 63,617,146 (-)NCBI
ChlSab1.1 Ensembl1463,488,773 - 63,609,021 (-)Ensembl
Plekhh2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473825,122,843 - 25,240,304 (+)NCBI

Position Markers
BF404107  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.067,734,558 - 7,734,734NCBIRnor6.0
Rnor_6.067,821,732 - 7,821,908NCBIRnor6.0
Rnor_5.067,759,524 - 7,759,700UniSTSRnor5.0
Rnor_5.067,673,754 - 7,673,930UniSTSRnor5.0
RGSC_v3.467,915,293 - 7,915,469UniSTSRGSC3.4
Celera69,824,294 - 9,824,470UniSTS
Cytogenetic Map6q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6123620518Rat
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)6125048718Rat
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6135623029Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6135623029Rat
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)6135623029Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6135623029Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6135623029Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6141917988Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6142388212Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6142388212Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142388212Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6142388212Rat
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)6142388212Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6143665660Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6143665660Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6143665660Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6144015370Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6144570292Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6175623393Rat
8693645Alc31Alcohol consumption QTL 313.70.038drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)613505323600274Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6112039328706721Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6112039346120393Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)6112039375023446Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)6616172276002731Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6616172276002731Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)67009971115379601Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:101
Count of miRNA genes:82
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000006832
Prediction methods:Microtar, 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 4 4 1 4 11 22 40 11
Low 3 43 51 35 18 35 8 10 63 13 1 8
Below cutoff 2 2 2 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001191770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764459 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764460 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07073203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01041646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000006832   ⟹   ENSRNOP00000006832
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl67,793,855 - 7,893,519 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090724   ⟹   ENSRNOP00000072102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl67,793,735 - 7,893,769 (+)Ensembl
RefSeq Acc Id: NM_001191770   ⟹   NP_001178699
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,793,855 - 7,893,519 (+)NCBI
Rnor_5.067,731,647 - 7,830,438 (+)NCBI
Celera69,753,640 - 9,852,005 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764459   ⟹   XP_008762681
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,784,917 - 7,895,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008764460   ⟹   XP_008762682
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,784,743 - 7,895,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008764462   ⟹   XP_008762684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,810,121 - 7,895,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008764463   ⟹   XP_008762685
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,817,710 - 7,895,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594121   ⟹   XP_017449610
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,812,964 - 7,895,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594122   ⟹   XP_017449611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,784,916 - 7,895,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594123   ⟹   XP_017449612
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.067,785,041 - 7,895,986 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001178699   ⟸   NM_001191770
- Sequence:
RefSeq Acc Id: XP_008762682   ⟸   XM_008764460
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008762681   ⟸   XM_008764459
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008762684   ⟸   XM_008764462
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008762685   ⟸   XM_008764463
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017449611   ⟸   XM_017594122
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017449612   ⟸   XM_017594123
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017449610   ⟸   XM_017594121
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000006832   ⟸   ENSRNOT00000006832
RefSeq Acc Id: ENSRNOP00000072102   ⟸   ENSRNOT00000090724
Protein Domains
FERM   MyTH4   PH

Transcriptome

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


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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304935 AgrOrtholog
Ensembl Genes ENSRNOG00000005124 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006832 UniProtKB/TrEMBL
  ENSRNOP00000072102 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006832 UniProtKB/TrEMBL
  ENSRNOT00000090724 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.20.80.10 UniProtKB/TrEMBL
  1.25.40.530 UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/TrEMBL
InterPro Band_41_domain UniProtKB/TrEMBL
  FERM/acyl-CoA-bd_prot_3-hlx UniProtKB/TrEMBL
  FERM_2 UniProtKB/TrEMBL
  FERM_central UniProtKB/TrEMBL
  FERM_domain UniProtKB/TrEMBL
  MyTH4_dom UniProtKB/TrEMBL
  MyTH4_dom_sf UniProtKB/TrEMBL
  PH_like_dom UniProtKB/TrEMBL
  Pleckstrin_homology UniProtKB/TrEMBL
NCBI Gene 313866 ENTREZGENE
Pfam FERM_M UniProtKB/TrEMBL
  MyTH4 UniProtKB/TrEMBL
  PF00169 UniProtKB/TrEMBL
PhenoGen Plekhh2 PhenoGen
PROSITE FERM_3 UniProtKB/TrEMBL
  MYTH4 UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/TrEMBL
SMART B41 UniProtKB/TrEMBL
  MyTH4 UniProtKB/TrEMBL
  SM00233 UniProtKB/TrEMBL
Superfamily-SCOP FERM_3-hlx UniProtKB/TrEMBL
UniProt A0A0G2K246_RAT UniProtKB/TrEMBL
  D3ZNS6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Plekhh2  pleckstrin homology, MyTH4 and FERM domain containing H2  Plekhh2  pleckstrin homology domain containing, family H (with MyTH4 domain) member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Plekhh2  pleckstrin homology domain containing, family H (with MyTH4 domain) member 2  RGD1304935_predicted  similar to CG12467-PA (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1304935_predicted  similar to CG12467-PA (predicted)  LOC313866_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC313866_predicted  similar to CG12467-PA (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL