Pxn (paxillin) - Rat Genome Database

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Gene: Pxn (paxillin) Rattus norvegicus
Analyze
Symbol: Pxn
Name: paxillin
RGD ID: 1305759
Description: Exhibits integrin binding activity; protein kinase binding activity; and ubiquitin protein ligase binding activity. Involved in response to peptide. Localizes to focal adhesion. Orthologous to human PXN (paxillin); PARTICIPATES IN ephrin - ephrin receptor bidirectional signaling axis; insulin-like growth factor signaling pathway; integrin mediated signaling pathway; INTERACTS WITH (R)-mevalonic acid; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: MODEL
Also known as: inverted formin-2-like; LOC108352464; LOC360820; myocardial ischemic preconditioning associated protein 7
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
mRatBN7.21241,060,791 - 41,107,962 (-)NCBI
Rnor_6.0 Ensembl1246,797,954 - 46,845,080 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01246,797,953 - 46,845,107 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01248,595,399 - 48,642,177 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41242,322,193 - 42,370,507 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11242,185,581 - 42,233,895 (-)NCBI
Celera1242,684,240 - 42,731,375 (-)NCBICelera
Cytogenetic Map12q16NCBI
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
(R)-mevalonic acid  (EXP)
1,2-dimethylhydrazine  (ISO)
1,8-cineole  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxycoumarin  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-vinylcyclohexene dioxide  (ISO)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
Anetholtrithion  (ISO)
arsenite(3-)  (ISO)
atropine  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
BQ 123  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calciol  (ISO)
carbamazepine  (ISO)
chlorpyrifos  (EXP)
cisplatin  (ISO)
cobalt dichloride  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dieldrin  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP,ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
glucose  (ISO)
heparin  (ISO)
hydrogen peroxide  (ISO)
ibuprofen  (EXP)
isoflavones  (ISO)
lithium chloride  (ISO)
lithocholic acid  (ISO)
methamphetamine  (ISO)
methotrexate  (ISO)
methoxychlor  (ISO)
oxotremorine M  (ISO)
ozone  (ISO)
paracetamol  (ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenylarsine oxide  (ISO)
phenylmercury acetate  (ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
simvastatin  (EXP)
sodium arsenite  (EXP)
Soman  (EXP)
terbinafine  (ISO)
toxaphene  (ISO)
troglitazone  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
wortmannin  (ISO)
xanthohumol  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:9054445   PMID:9348226   PMID:9710592   PMID:10809671   PMID:10925297   PMID:11146548   PMID:11304546   PMID:11784865   PMID:11807098   PMID:12477932   PMID:12686598   PMID:14636584  
PMID:14699151   PMID:15308668   PMID:15322113   PMID:15467718   PMID:15489334   PMID:15728191   PMID:15889232   PMID:15911746   PMID:16399995   PMID:16641100   PMID:16717130   PMID:17136425  
PMID:17412802   PMID:17449030   PMID:17513457   PMID:17591694   PMID:17603879   PMID:18042622   PMID:18697830   PMID:18794329   PMID:19004813   PMID:19007553   PMID:19151925   PMID:19779731  
PMID:19885391   PMID:20086044   PMID:21423176   PMID:22110278   PMID:23574715   PMID:23658024   PMID:24036928   PMID:24457422   PMID:24841562   PMID:24863063   PMID:25217619   PMID:25705373  
PMID:25753039   PMID:26616057   PMID:27061092   PMID:28759036  


Genomics

Comparative Map Data
Pxn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21241,060,791 - 41,107,962 (-)NCBI
Rnor_6.0 Ensembl1246,797,954 - 46,845,080 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01246,797,953 - 46,845,107 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01248,595,399 - 48,642,177 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41242,322,193 - 42,370,507 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11242,185,581 - 42,233,895 (-)NCBI
Celera1242,684,240 - 42,731,375 (-)NCBICelera
Cytogenetic Map12q16NCBI
PXN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl12120,210,439 - 120,265,771 (-)EnsemblGRCh38hg38GRCh38
GRCh3812120,210,447 - 120,265,737 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3712120,648,250 - 120,703,533 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612119,132,640 - 119,187,892 (-)NCBINCBI36hg18NCBI36
Build 3412119,110,976 - 119,166,229NCBI
Celera12120,281,352 - 120,336,672 (-)NCBI
Cytogenetic Map12q24.23NCBI
HuRef12117,656,442 - 117,711,723 (-)NCBIHuRef
CHM1_112120,616,253 - 120,671,571 (-)NCBICHM1_1
Pxn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395115,630,153 - 115,694,046 (+)NCBIGRCm39mm39
GRCm39 Ensembl5115,644,735 - 115,694,046 (+)Ensembl
GRCm385115,491,970 - 115,555,987 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5115,506,676 - 115,555,987 (+)EnsemblGRCm38mm10GRCm38
MGSCv375115,956,711 - 116,005,995 (+)NCBIGRCm37mm9NCBIm37
MGSCv365115,767,751 - 115,815,656 (+)NCBImm8
Celera5112,606,134 - 112,661,101 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map556.1NCBI
Pxn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545511,388,378 - 11,403,082 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545511,387,140 - 11,401,178 (+)NCBIChiLan1.0ChiLan1.0
PXN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.112121,160,295 - 121,200,695 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12121,160,295 - 121,176,667 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v012117,785,614 - 117,840,816 (-)NCBIMhudiblu_PPA_v0panPan3
PXN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12616,157,231 - 16,224,028 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2616,159,025 - 16,184,820 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2616,161,797 - 16,210,046 (-)NCBI
ROS_Cfam_1.02616,424,969 - 16,473,447 (-)NCBI
UMICH_Zoey_3.12616,385,989 - 16,434,224 (-)NCBI
UNSW_CanFamBas_1.02616,463,118 - 16,511,352 (-)NCBI
UU_Cfam_GSD_1.02616,504,096 - 16,552,543 (-)NCBI
Pxn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118146,161,497 - 146,210,393 (+)NCBI
SpeTri2.0NW_004936668660,415 - 709,282 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PXN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1440,227,894 - 40,278,766 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11440,227,894 - 40,278,785 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PXN
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111115,560,859 - 115,619,093 (-)NCBI
ChlSab1.1 Ensembl11115,560,662 - 115,619,029 (-)Ensembl
Pxn
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474713,371,128 - 13,435,619 (+)NCBI

Position Markers
D11S1348  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21241,069,480 - 41,070,277 (+)MAPPER
Rnor_6.01246,806,642 - 46,807,437NCBIRnor6.0
Rnor_5.01248,604,088 - 48,604,883UniSTSRnor5.0
RGSC_v3.41242,330,877 - 42,331,672UniSTSRGSC3.4
Celera1242,692,924 - 42,693,719UniSTS
Cytogenetic Map12q16UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12247568747475687Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12251344247513442Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12251344247513442Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12421005149210051Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6922362652716770Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922363052716770Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12978983452716770Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121312721150320041Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121441977552716770Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)121502198652716770Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121590890052716770Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121590890052716770Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121834247752716770Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121834247752716770Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121872904352716770Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121875259352716770Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101875259352716770Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122265070248598906Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)122265070252716770Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)122490659052716770Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122609884552716770Rat
8693658Alc33Alcohol consumption QTL 332.10.68drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)122911360949560679Rat
8693635Alc28Alcohol consumption QTL 282.70.439drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)122911360950757185Rat
1556747Calcic1Intracellular calcium level QTL 13.6platelet calcium amount (VT:0010500)platelet intracellular calcium level (CMO:0000922)123172356547433663Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)123172356551955754Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)123172356552716770Rat
1300162Bp188Blood pressure QTL 1883.19arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123752188451955754Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1026
Count of miRNA genes:301
Interacting mature miRNAs:372
Transcripts:ENSRNOT00000047466, ENSRNOT00000064115
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


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 37 49 34 19 34 6 9 66 35 41 11 6
Low 6 8 7 7 2 2 8 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001012147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249459 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249460 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC097575 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC123425 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY641810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473973 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000047466   ⟹   ENSRNOP00000043928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1246,797,959 - 46,845,079 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000064115   ⟹   ENSRNOP00000061647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1246,797,954 - 46,845,080 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081134   ⟹   ENSRNOP00000070477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1246,799,762 - 46,809,849 (-)Ensembl
RefSeq Acc Id: NM_001012147   ⟹   NP_001012147
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,796 - 41,107,920 (-)NCBI
Rnor_6.01246,797,958 - 46,845,079 (-)NCBI
Rnor_5.01248,595,399 - 48,642,177 (-)NCBI
RGSC_v3.41242,322,193 - 42,370,507 (-)RGD
Celera1242,684,240 - 42,731,375 (-)RGD
Sequence:
RefSeq Acc Id: XM_006249457   ⟹   XP_006249519
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01246,797,953 - 46,811,702 (-)NCBI
Rnor_5.01248,595,399 - 48,642,177 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249459   ⟹   XP_006249521
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01246,797,953 - 46,811,702 (-)NCBI
Rnor_5.01248,595,399 - 48,642,177 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249460   ⟹   XP_006249522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,107,954 (-)NCBI
Rnor_6.01246,797,953 - 46,845,107 (-)NCBI
Rnor_5.01248,595,399 - 48,642,177 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598400   ⟹   XP_017453889
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01246,797,953 - 46,811,702 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598401   ⟹   XP_017453890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01246,804,464 - 46,811,711 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598402   ⟹   XP_017453891
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01246,797,953 - 46,845,107 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039089602   ⟹   XP_038945530
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,074,564 (-)NCBI
RefSeq Acc Id: XM_039089603   ⟹   XP_038945531
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,074,563 (-)NCBI
RefSeq Acc Id: XM_039089605   ⟹   XP_038945533
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,107,962 (-)NCBI
RefSeq Acc Id: XM_039089606   ⟹   XP_038945534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,074,558 (-)NCBI
RefSeq Acc Id: XM_039089607   ⟹   XP_038945535
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,087,900 (-)NCBI
RefSeq Acc Id: XM_039089608   ⟹   XP_038945536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,074,523 (-)NCBI
RefSeq Acc Id: XM_039089609   ⟹   XP_038945537
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,074,525 (-)NCBI
RefSeq Acc Id: XM_039089610   ⟹   XP_038945538
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21241,060,791 - 41,074,512 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001012147   ⟸   NM_001012147
- UniProtKB: Q66H76 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006249522   ⟸   XM_006249460
- Peptide Label: isoform X9
- UniProtKB: Q1EG89 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249519   ⟸   XM_006249457
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006249521   ⟸   XM_006249459
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017453891   ⟸   XM_017598402
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017453889   ⟸   XM_017598400
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017453890   ⟸   XM_017598401
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000043928   ⟸   ENSRNOT00000047466
RefSeq Acc Id: ENSRNOP00000070477   ⟸   ENSRNOT00000081134
RefSeq Acc Id: ENSRNOP00000061647   ⟸   ENSRNOT00000064115
RefSeq Acc Id: XP_038945533   ⟸   XM_039089605
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038945535   ⟸   XM_039089607
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038945530   ⟸   XM_039089602
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945531   ⟸   XM_039089603
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038945534   ⟸   XM_039089606
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038945537   ⟸   XM_039089609
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038945536   ⟸   XM_039089608
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038945538   ⟸   XM_039089610
- Peptide Label: isoform X8
Protein Domains
LIM zinc-binding

Transcriptome

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

Promoters
RGD ID:13698687
Promoter ID:EPDNEW_R9212
Type:initiation region
Name:Pxn_1
Description:paxillin
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_6.01246,845,074 - 46,845,134EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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)
ACI/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
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_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 46803448 46803449 G A snv ACI/EurMcwi (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305759 AgrOrtholog
Ensembl Genes ENSRNOG00000001149 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000043928 UniProtKB/Swiss-Prot
  ENSRNOP00000061647 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070477 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047466 UniProtKB/Swiss-Prot
  ENSRNOT00000064115 UniProtKB/TrEMBL
  ENSRNOT00000081134 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7128801 IMAGE-MGC_LOAD
InterPro Paxillin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tgfb1i1/Leupaxin/TGFB1I1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:360820 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94176 IMAGE-MGC_LOAD
NCBI Gene 360820 ENTREZGENE
PANTHER PTHR24216:SF11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pxn PhenoGen
PIRSF Leupaxin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JY12_RAT UniProtKB/TrEMBL
  PAXI_RAT UniProtKB/Swiss-Prot
  Q1EG89 ENTREZGENE, UniProtKB/TrEMBL
  Q66H76 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Pxn  paxillin  LOC108352464  inverted formin-2-like  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108352464  inverted formin-2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Pxn  paxillin  Pxn_predicted  paxillin (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Pxn_predicted  paxillin (predicted)      Symbol and Name status set to approved 70820 APPROVED