Frmpd1 (FERM and PDZ domain containing 1) - Rat Genome Database
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Gene: Frmpd1 (FERM and PDZ domain containing 1) Rattus norvegicus
Analyze
Symbol: Frmpd1
Name: FERM and PDZ domain containing 1
RGD ID: 1305229
Description: Predicted to be involved in establishment of protein localization to membrane and regulation of G protein-coupled receptor signaling pathway. Predicted to colocalize with cell cortex. Orthologous to human FRMPD1 (FERM and PDZ domain containing 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; cadmium dichloride; furan.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: FERM and PDZ domain-containing protein 1; LOC313244
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_6.0560,735,413 - 60,837,773 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl560,809,762 - 60,837,764 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0565,243,896 - 65,346,330 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4561,748,052 - 61,849,848 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1561,792,640 - 61,849,904 (+)NCBI
Celera558,011,145 - 58,113,460 (+)NCBICelera
Cytogenetic Map5q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
protein binding  (IPI,ISO)

References

Additional References at PubMed
PMID:8889548   PMID:22074847   PMID:23376485  


Genomics

Candidate Gene Status
Frmpd1 is a candidate Gene for QTL Mcs24
Comparative Map Data
Frmpd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0560,735,413 - 60,837,773 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl560,809,762 - 60,837,764 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0565,243,896 - 65,346,330 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4561,748,052 - 61,849,848 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1561,792,640 - 61,849,904 (+)NCBI
Celera558,011,145 - 58,113,460 (+)NCBICelera
Cytogenetic Map5q22NCBI
FRMPD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl937,650,954 - 37,746,904 (+)EnsemblGRCh38hg38GRCh38
GRCh38937,603,229 - 37,746,904 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37937,651,052 - 37,746,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36937,641,052 - 37,736,901 (+)NCBINCBI36hg18NCBI36
Build 34937,641,051 - 37,736,901NCBI
Celera937,584,272 - 37,680,095 (+)NCBI
Cytogenetic Map9p13.2NCBI
HuRef937,603,099 - 37,698,949 (+)NCBIHuRef
CHM1_1937,652,768 - 37,748,636 (+)NCBICHM1_1
Frmpd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39445,183,990 - 45,285,936 (+)NCBIGRCm39mm39
GRCm38445,184,420 - 45,285,936 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl445,184,875 - 45,285,936 (+)EnsemblGRCm38mm10GRCm38
MGSCv37445,197,778 - 45,298,808 (+)NCBIGRCm37mm9NCBIm37
MGSCv36445,206,006 - 45,307,475 (+)NCBImm8
Celera445,205,799 - 45,307,566 (+)NCBICelera
Cytogenetic Map4B1NCBI
Frmpd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541928,716,494 - 28,888,495 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541928,717,277 - 28,888,486 (-)NCBIChiLan1.0ChiLan1.0
FRMPD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1938,421,706 - 38,519,025 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl938,421,706 - 38,519,025 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0937,497,210 - 37,595,867 (+)NCBIMhudiblu_PPA_v0panPan3
FRMPD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1153,939,807 - 54,051,756 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11153,901,625 - 54,051,885 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Frmpd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365245,469,495 - 5,557,109 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FRMPD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1238,371,336 - 238,511,716 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11238,371,311 - 238,511,714 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21266,330,435 - 266,446,687 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FRMPD1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11242,835,352 - 42,981,017 (-)NCBI
ChlSab1.1 Ensembl1242,835,350 - 42,980,486 (-)Ensembl
Frmpd1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249301,268,527 - 1,364,017 (+)NCBI

Position Markers
D5Got315  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0560,741,200 - 60,741,431NCBIRnor6.0
Rnor_5.0565,249,718 - 65,249,949UniSTSRnor5.0
RGSC_v3.4561,753,777 - 61,754,008UniSTSRGSC3.4
Celera558,016,932 - 58,017,163UniSTS
Cytogenetic Map5q22UniSTS
AW532232  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0560,825,562 - 60,825,743NCBIRnor6.0
Rnor_5.0565,334,080 - 65,334,261UniSTSRnor5.0
RGSC_v3.4561,837,682 - 61,837,863UniSTSRGSC3.4
Celera558,100,914 - 58,101,095UniSTS
Cytogenetic Map5q22UniSTS
RH 3.4 Map5379.2UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5189432042Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5193273395Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5152509878720537Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5166658771552720Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)59514842103580403Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512651967117554267Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51884791363847913Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51884791376608178Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52190436366904363Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52907889974078899Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52907889974078899Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52964166174641661Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52964166174641661Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531926122136640934Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53440240979402409Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53440240979402409Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53440240979402409Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)535225432108092802Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)535661945117554267Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53578875670742105Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535788756147487820Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540777918154732375Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54440427689432042Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)544404276134502294Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)547745646167946134Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54872203893587756Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)551418671147487820Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)55180442696804426Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)55180442696804426Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55330956898309568Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)555903593100903593Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)556902367101902367Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)556991667137729065Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)560072951133313852Rat
1598868Mcs12Mammary carcinoma susceptibility QTL 120.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)56022509561370302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:104
Count of miRNA genes:79
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000016839
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 2
Low 20 19 5 15 5 1 1 70 13 35 1
Below cutoff 3 23 19 17 4 17 7 10 19 4 11 7

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07073109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01036462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01036463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01036464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01036465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC136163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ201883 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016839   ⟹   ENSRNOP00000016839
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl560,809,762 - 60,837,764 (+)Ensembl
RefSeq Acc Id: XM_006225279   ⟹   XP_006225341
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,028,768 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006225280   ⟹   XP_006225342
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,028,768 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006238143   ⟹   XP_006238205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,753,262 - 60,837,773 (+)NCBI
Rnor_5.0565,243,896 - 65,346,330 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006238144   ⟹   XP_006238206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,753,262 - 60,837,773 (+)NCBI
Rnor_5.0565,243,896 - 65,346,330 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763690   ⟹   XP_008761912
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,779,072 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008775946   ⟹   XP_008774168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,054,576 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593724   ⟹   XP_017449213
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,736,351 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593725   ⟹   XP_017449214
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,735,413 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593726   ⟹   XP_017449215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,735,773 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593727   ⟹   XP_017449216
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,768,959 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593728   ⟹   XP_017449217
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,745,596 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593729   ⟹   XP_017449218
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0560,805,380 - 60,837,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602999   ⟹   XP_017458488
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,012,083 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603000   ⟹   XP_017458489
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,011,145 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603001   ⟹   XP_017458490
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,011,505 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603002   ⟹   XP_017458491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,044,465 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603003   ⟹   XP_017458492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,021,328 - 58,113,460 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603004   ⟹   XP_017458493
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera558,080,991 - 58,113,460 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_006225341   ⟸   XM_006225279
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006225342   ⟸   XM_006225280
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006238205   ⟸   XM_006238143
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006238206   ⟸   XM_006238144
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008774168   ⟸   XM_008775946
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008761912   ⟸   XM_008763690
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458489   ⟸   XM_017603000
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458490   ⟸   XM_017603001
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458488   ⟸   XM_017602999
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458492   ⟸   XM_017603003
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458491   ⟸   XM_017603002
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017458493   ⟸   XM_017603004
- Peptide Label: isoform X2
- UniProtKB: D3ZW88 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449214   ⟸   XM_017593725
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449215   ⟸   XM_017593726
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449213   ⟸   XM_017593724
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449217   ⟸   XM_017593728
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449216   ⟸   XM_017593727
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449218   ⟸   XM_017593729
- Peptide Label: isoform X2
- UniProtKB: D3ZW88 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016839   ⟸   ENSRNOT00000016839
Protein Domains
FERM   Ras-associating

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)
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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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 65310216 65310217 C T snv NIG-III/Hok (KyushuU)
5 65337030 65337031 T G snv SR/JrHsd (MCW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 60828512 60828513 T G snv SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305229 AgrOrtholog
Ensembl Genes ENSRNOG00000012546 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016839 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016839 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.20.80.10 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
  FRMPD1/3/4_FERM_C UniProtKB/TrEMBL
  PH_dom-like UniProtKB/TrEMBL
  RA_dom UniProtKB/TrEMBL
  Ubiquitin-rel_dom UniProtKB/TrEMBL
NCBI Gene 313244 ENTREZGENE
Pfam FERM_M UniProtKB/TrEMBL
PhenoGen Frmpd1 PhenoGen
PROSITE FERM_3 UniProtKB/TrEMBL
  PS50200 UniProtKB/TrEMBL
SMART B41 UniProtKB/TrEMBL
Superfamily-SCOP FERM_3-hlx UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt D3ZW88 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-07 Frmpd1  FERM and PDZ domain containing 1  Frmpd1_predicted  FERM and PDZ domain containing 1 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-12 Frmpd1_predicted  FERM and PDZ domain containing 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED