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[191710_at] beta integrin

Description ZK1058.2 /REP_DB=WormBase Gene ID /WP=CE01102 /GEN=pat-3 /TR=SW:Q27874 /GB=CAA84677.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=beta integrin
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 24      4grp_high_8_8 > 52      6grp_highest_nonorm > 41      6grp_total > 15      4grp_total > 60      6grp_highest_sub > De      6grp_cgc > 23      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 802
1 2 3 4 range
A 730.5
(2.1)
P 		821.3
(3)
P 		788.6
(2.7)
P 		244.7
(-3)
P 		577
B 821.5
(2.8)
P 		829.3
(2.9)
P 		840.2
(3)
P 		211.3
(-3)
P 		629
C 792.8
(1.3)
P 		1013
(3)
P 		856.1
(1.8)
P 		223.2
(-3)
P 		790
avr 781.6
(2) 		887.9
(3) 		828.3
(2.5) 		226.4
(-3) 		662

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 786
1 2 3 4 5 6 range
A 890.7
(1.1)
P 		1041.9
(3)
P 		576.4
(-2.9)
P 		610.9
(-2.5)
P 		570.4
(-3)
P 		614.4
(-2.4)
P 		472
B 943.1
(3)
P 		804.4
(1.3)
P 		596.1
(-1.3)
P 		706.6
(0.1)
P 		502.9
(-2.5)
P 		460.9
(-3)
P 		482
C 1247
(3)
P 		750.1
(-1.1)
P 		860
(-0.2)
P 		706.8
(-1.5)
P 		585.7
(-2.5)
P 		522
(-3)
P 		725
avr 1026.9
(3) 		865.5
(1) 		677.5
(-1.2) 		674.8
(-1.3) 		553
(-2.8) 		532.4
(-3) 		495
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 263
1 2 3 4 range
A 266
(3)
P 		178.3
(0.7)
P 		206.2
(1.4)
P 		35.8
(-3)
P 		230
B 262
(3)
P 		204.8
(1.4)
P 		194.7
(1.1)
P 		45
(-3)
P 		217
C 262.4
(2.2)
P 		291.2
(2.8)
P 		298.4
(3)
P 		37.6
(-3)
P 		261
avr 263.5
(3) 		224.8
(2) 		233.1
(2.2) 		39.5
(-3) 		224

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 337
1 2 3 4 5 6 range
A 164.2
(-2.1)
P 		370.5
(3)
P 		125.5
(-3)
P 		154.9
(-2.3)
P 		172.1
(-1.9)
P 		149.6
(-2.4)
P 		245
B 328.2
(3)
P 		267.8
(1)
P 		144.7
(-3)
P 		187.2
(-1.6)
P 		204.3
(-1.1)
P 		171.9
(-2.1)
P 		184
C 462.2
(3)
P 		228.9
(-1.4)
P 		218.9
(-1.6)
P 		142.1
(-3)
P 		189.5
(-2.1)
P 		174.7
(-2.4)
P 		320
avr 318.2
(3) 		289.1
(1.9) 		163
(-2.9) 		161.4
(-3) 		188.6
(-2) 		165.4
(-2.8) 		157
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191710_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6946
Sequence Type Exemplar sequence
Representative Public ID ZK1058.2 NCBI
Target Description ZK1058.2 /REP_DB=WormBase Gene ID /WP=CE01102 /GEN=pat-3 /TR=SW:Q27874 /GB=CAA84677.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=beta integrin
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_065386(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065386 NCBI Caenorhabditis elegans Paralysed Arrest at Two-fold family member (pat-3) (pat-3) mRNA, complete cds. 11/11 None
SNAP00000000030 ENSEMBL cdna:SNAP chromosome:CEL140:III:3909304:3914926:-1 11/11 None
GENEFINDER00000000036 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3909304:3914104:-1 11/11 None
ZK1058.2.1 ENSEMBL cdna:known chromosome:CEL140:III:3908623:3914113:-1 gene:ZK1058.2 11/11 A 
ZK1058.2.2 ENSEMBL cdna:known chromosome:CEL140:III:3908920:3914113:-1 gene:ZK1058.2 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:3909303-3914104(-) 100.0 100.0
Public Domain and Genome References
Gene Title beta integrin
Gene Symbol pat-3
Ensembl ZK1058.2
Entrez Gene 175504 Entrez gene
SwissProt Q27874 EMBL-EBI
WormBase CE01102 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1605992_AT similar to integrin beta 1 isoform 1D precursor cfa
CANINE:1584175_AT similar to integrin beta 1 isoform 1D precursor cfa
CANINE_2:CFAAFFX.6707.1.S1_AT similar to integrin beta 1 isoform 1D precursor cfa
CANINE_2:CFAAFFX.6707.1.S1_S_AT similar to integrin beta 1 isoform 1D precursor cfa
DROSOPHILA_2:1639245_X_AT myospheroid dm
DROSOPHILA_2:1634649_AT myospheroid dm
DROSGENOME1:143507_AT myospheroid dm
CHICKEN:GGA.111.1.S1_S_AT Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) gga
CHICKEN:GGA.2015.1.S1_AT Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) gga
HG-U95AV2:32808_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:215878_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A_2:215878_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A:215878_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:211945_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A_2:211945_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A:211945_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:216178_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A_2:216178_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A:216178_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U95AV2:2055_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HC-G110:2055_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HUGENEFL:X07979_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HUGENEFL:U33880_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS2.287797.8.S1_3P_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS2.287797.6.S1_3P_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS.326526.0.S1_3P_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS.326526.0.S1_3P_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS.287798.0.S1_3P_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS.287797.0.A1_3P_S_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:216178_3P_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:1553530_A_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:1553678_A_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U95D:74589_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:215879_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A_2:215879_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A:215879_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A_2:216190_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133_PLUS_2:216190_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U133A:216190_X_AT integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
HG-U95D:70750_AT Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS.326526.0.A1_3P_AT Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
U133_X3P:HS.326526.0.A1_3P_X_AT Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) hs
MOE430A:1426918_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430A_2:1426918_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430_2:1426918_AT integrin beta 1 (fibronectin receptor beta) mm
MOE430A:1427771_X_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430A_2:1427771_X_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430_2:1427771_X_AT integrin beta 1 (fibronectin receptor beta) mm
MU11KSUBB:Y00769_S_AT integrin beta 1 (fibronectin receptor beta) mm
MG-U74AV2:100123_F_AT integrin beta 1 (fibronectin receptor beta) mm
MG-U74AV2:100124_R_AT integrin beta 1 (fibronectin receptor beta) mm
MOE430A:1452545_A_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430A_2:1452545_A_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430_2:1452545_A_AT integrin beta 1 (fibronectin receptor beta) mm
MOE430A:1426919_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430A_2:1426919_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430_2:1426919_AT integrin beta 1 (fibronectin receptor beta) mm
MOE430A:1426920_X_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430A_2:1426920_X_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430_2:1426920_X_AT integrin beta 1 (fibronectin receptor beta) mm
MOUSE430A_2:1438119_AT Integrin beta 1 (fibronectin receptor beta) (Itgb1), mRNA mm
MOE430A:1438119_AT Integrin beta 1 (fibronectin receptor beta) (Itgb1), mRNA mm
MOUSE430_2:1438119_AT Integrin beta 1 (fibronectin receptor beta) (Itgb1), mRNA mm
MU19KSUBC:TC38821_S_AT Integrin beta 1 (fibronectin receptor beta) (Itgb1), mRNA mm
RAE230A:1387346_AT integrin beta 1 rn
RAT230_2:1387346_AT integrin beta 1 rn
RAE230A:1368819_AT integrin beta 1 rn
RAT230_2:1368819_AT integrin beta 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7155 cell adhesion inferred from electronic annotation QuickGO AmiGO
7160 cell-matrix adhesion inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
8305 integrin complex inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA84677 Hypothetical protein ZK1058.2 [Caenorhabditis elegans] ref|NP_497787.1| Paralysed Arrest at Two-fold family member (pat-3) [Caenorhabditis elegans] sp|Q27874|PAT3_CAEEL Integrin beta pat-3 precursor gb|AAA85704.1| integrin beta pat-3 0.0
blast CAE60081 Hypothetical protein CBG03601 [Caenorhabditis briggsae] 0.0
blast EAA06838 ENSANGP00000021373 [Anopheles gambiae str. PEST] ref|XP_311354.2| ENSANGP00000021373 [Anopheles gambiae str. PEST] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 8.5E-5
Pfam IPR002369 EMBL-EBI Integrin, beta chain 1.0E-126
Pfam IPR006209 EMBL-EBI EGF-like domain 8.5E-5
Pfam IPR002369 EMBL-EBI Integrin, beta chain 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497787.1 1 738-760
ZK1058.2.1 1 738-760
ZK1058.2.2 1 738-760
SNAP00000000030 1 771-793
GENEFINDER00000000036 1 738-760
Sequence
Target Sequence 
>C. ELEGANS:191710_AT
atttcaactgattcatgcctctctgcaaatggaaaaatctgtaatggaaagggtgaatgt
atttgtggaagatgtcgatgcttcgattcgcccgacggaaatcgatattcgggagcgaaa
tgcgaaatttgtccgacgtgtccgacgaaatgtgtggaatacaagaattgtgtaatgtgc
cagcaatggcagacagggccacttaatgagaccgcctgtgatcagtgtgaattcaaagtt
attcctgttgaggaattacccaatctcaacgaaactacaccctgccaatttgtggatcca
gctgatgattgtacattctattatctctactattacgatgaggccacagataatgcaaca
gtctgggtcagaaaacataaagattgtcctccacctgtccctgtgctcgcaattgtgctc
ggagtcattgcgggtatcgtaatcctcggaattcttctcttgttgctctggaaattgctc
acagtacttcatgatagatccgaatacgctactttcaataacgaaaggcttatggccaaa
tgggatacgaacgagaacccaatctacaaacaggccacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTTCAACTGATTCATGCCTCTCTG 709 15 1822 Antisense
AAGATGTCGATGCTTCGATTCGCCC 88 155 1890 Antisense
GCGAAATTTGTCCGACGTGTCCGAC 310 287 1943 Antisense
AGGGCCACTTAATGAGACCGCCTGT 185 55 2016 Antisense
CAATCTCAACGAAACTACACCCTGC 565 179 2082 Antisense
TACACCCTGCCAATTTGTGGATCCA 436 643 2097 Antisense
AACATAAAGATTGTCCTCCACCTGT 606 135 2195 Antisense
CTGTGCTCGCAATTGTGCTCGGAGT 19 241 2222 Antisense
TCATTGCGGGTATCGTAATCCTCGG 652 611 2246 Antisense
TAATCCTCGGAATTCTTCTCTTGTT 669 635 2261 Antisense
AACCCAATCTACAAACAGGCCACGA 314 145 2377 Antisense
Sequence Source Affymetrix Proprietary Database