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[173317_s_at] integrin-linked kinase

Description CEC107_rc /REP_DB=TREMBL Accession /GB=C08107 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk175b10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 32      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 51      6grp_total > 22      4grp_total > 51      6grp_highest_sub > 02      6grp_cgc > 61      6grp_high1_sub > 02_03      6grp_cgc_sub > De      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1033
1 2 3 4 range
A 617.8
(-0.2)
P 		1173.6
(3)
P 		726.2
(0.4)
P 		141.1
(-3)
P 		1033
B 671.1
(0.3)
P 		1066.2
(3)
P 		908.1
(1.9)
P 		184.9
(-3)
P 		881
C 540.8
(-0.4)
P 		1035.3
(3)
P 		835.4
(1.6)
P 		166.7
(-3)
P 		869
avr 609.9
(-0.1) 		1091.7
(3) 		823.2
(1.3) 		164.2
(-3) 		928

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 482
1 2 3 4 5 6 range
A 530.5
(0.4)
P 		674
(2.4)
P 		718.6
(3)
P 		631.9
(1.8)
P 		417.4
(-1.2)
P 		290.4
(-3)
P 		428
B 771.9
(3)
P 		766.5
(2.9)
P 		728.8
(2.4)
P 		370.2
(-3)
P 		667.8
(1.4)
P 		376.9
(-2.9)
P 		402
C 541.9
(0.2)
P 		712.5
(3)
P 		659.4
(2.1)
P 		476.2
(-0.8)
P 		550
(0.4)
P 		343.3
(-3)
P 		369
avr 614.8
(1.4) 		717.7
(3) 		702.3
(2.8) 		492.8
(-0.5) 		545.1
(0.3) 		336.9
(-3) 		381
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 277
1 2 3 4 range
A 225
(2.2)
P 		254.8
(3)
P 		189.8
(1.3)
P 		20.6
(-3)
P 		234
B 214
(1.7)
P 		263.3
(3)
P 		210.4
(1.6)
P 		39.4
(-3)
P 		224
C 179
(0.4)
P 		297.6
(3)
P 		291.2
(2.9)
P 		28.1
(-3)
P 		270
avr 206
(1.4) 		271.9
(3) 		230.5
(2) 		29.4
(-3) 		243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 201
1 2 3 4 5 6 range
A 97.8
(-2)
P 		239.7
(3)
P 		156.5
(0)
P 		160.3
(0.2)
P 		126
(-1)
P 		70.7
(-3)
P 		169
B 268.6
(2.9)
P 		255.1
(2.4)
P 		177
(-0.3)
P 		98.1
(-3)
P 		271.3
(3)
P 		140.6
(-1.5)
P 		173
C 200.9
(2.2)
P 		217.4
(3)
P 		167.8
(0.6)
P 		95.8
(-3)
P 		178
(1.1)
P 		114.9
(-2.1)
P 		122
avr 189.1
(0.7) 		237.4
(3) 		167.1
(-0.3) 		118.1
(-2.6) 		191.8
(0.9) 		108.7
(-3) 		129
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173317_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28054
Sequence Type Exemplar sequence
Representative Public ID CEC107 NCBI
Target Description CEC107_rc /REP_DB=TREMBL Accession /GB=C08107 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk175b10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_064738(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064738 NCBI Caenorhabditis elegans Paralysed Arrest at Two-fold family member (pat-4) (pat-4) mRNA, complete cds. 11/11 A 
SNAP00000042026 ENSEMBL cdna:SNAP chromosome:CEL140:III:89642:94802:-1 11/11 None
C29F9.7.1 ENSEMBL cdna:known chromosome:CEL140:III:89017:94808:-1 gene:C29F9.7 11/11 A 
C29F9.7.2 ENSEMBL cdna:known chromosome:CEL140:III:89460:95255:-1 gene:C29F9.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000042035 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:89618-90459(-) 66.35 66.35
Public Domain and Genome References
Gene Title integrin-linked kinase
Gene Symbol pat-4
Ensembl C29F9.7
Entrez Gene 175175 Entrez gene
SwissProt Q9TZC4 EMBL-EBI
WormBase CE19706 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1606132_S_AT similar to integrin linked kinase cfa
CANINE:1591660_AT similar to integrin linked kinase cfa
CANINE_2:CFA.465.1.S1_S_AT similar to integrin linked kinase cfa
CANINE_2:CFA.465.2.S1_S_AT similar to integrin linked kinase cfa
CANINE_2:CFA.465.3.S1_S_AT similar to integrin linked kinase cfa
DROSOPHILA_2:1625014_AT Integrin linked kinase dm
DROSGENOME1:154284_AT Integrin linked kinase dm
CHICKEN:GGA.3404.1.S1_A_AT integrin-linked kinase gga
HG-U133A:201234_AT integrin-linked kinase hs
HG-U133_PLUS_2:201234_AT integrin-linked kinase hs
HG-U133A_2:201234_AT integrin-linked kinase hs
HG-FOCUS:201234_AT integrin-linked kinase hs
HUGENEFL:U40282_AT integrin-linked kinase hs
U133_X3P:G4758605_3P_S_AT integrin-linked kinase hs
HG-U95AV2:35365_AT integrin-linked kinase hs
HG-U133_PLUS_2:235906_AT Integrin-linked kinase-2 hs
HG-U133B:235906_AT Integrin-linked kinase-2 hs
HU35KSUBB:RC_T98195_AT Integrin-linked kinase-2 hs
HU35KSUBC:RC_Z41239_S_AT Integrin-linked kinase-2 hs
U133_X3P:HS.18252.0.A1_3P_AT Integrin-linked kinase-2 hs
U133_X3P:HS.106960.0.S1_3P_AT Integrin-linked kinase-2 hs
HG-U133_PLUS_2:235135_AT Integrin-linked kinase-2 hs
HG-U133B:235135_AT Integrin-linked kinase-2 hs
HG-U95B:47407_AT Integrin-linked kinase-2 hs
HG-U95C:65407_F_AT Integrin-linked kinase-2 hs
HG-U95C:65408_F_AT Integrin-linked kinase-2 hs
MU11KSUBB:MSA.9013.0_S_AT integrin linked kinase mm
MG-U74AV2:101499_AT integrin linked kinase mm
MOE430A:1449942_A_AT integrin linked kinase mm
MOUSE430A_2:1449942_A_AT integrin linked kinase mm
MOUSE430_2:1449942_A_AT integrin linked kinase mm
MU19KSUBC:TC36336_AT Integrin linked kinase, mRNA (cDNA clone MGC:5823 IMAGE:3601214) mm
RG-U34C:RC_AI176814_AT integrin linked kinase rn
RAE230A:1387777_AT integrin linked kinase rn
RAT230_2:1387777_AT integrin linked kinase rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6468 protein amino acid phosphorylation inferred from electronic annotation QuickGO AmiGO
6468 protein amino acid phosphorylation inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5912 adherens junction inferred from direct assay QuickGO AmiGO
8305 integrin complex inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4672 protein kinase activity inferred from electronic annotation QuickGO AmiGO
4674 protein serine/threonine kinase activity inferred from electronic annotation QuickGO AmiGO
4713 protein-tyrosine kinase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
4674 protein serine/threonine kinase activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC68756 Paralysed arrest at two-fold protein 4 [Caenorhabditis elegans] ref|NP_497139.1| Paralysed Arrest at Two-fold family member (pat-4) [Caenorhabditis elegans] 0.0
blast CAB77052 putative integrin-linked kinase [Caenorhabditis elegans] 0.0
blast EAL29808 GA10358-PA [Drosophila pseudoobscura] 1.0E-169
Protein Domains
Database ID Description E-Value
Pfam IPR002110 EMBL-EBI Ankyrin 3.7E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.2E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.3E-11
Pfam IPR000719 EMBL-EBI Protein kinase 9.8E-12
Pfam IPR000719 EMBL-EBI Protein kinase 5.2E-13
Sequence
Target Sequence 
>C. ELEGANS:173317_S_AT
tctctgatctaccgccaatggaatgcggaatgaagatcgctctggaaggtctccgagtgc
acattnnnnntggaatcgcccgtaatatgaaccgtttgatgaacatttgcatgaacgagg
acccgggacgtcggccaaactttgatcaaatcattccgatt

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCTGATCTACCGCCAATGGAATG 29 609 15 Antisense
GATCTACCGCCAATGGAATGCGGAA 195 419 20 Antisense
GAATGCGGAATGAAGATCGCTCTGG 344 331 35 Antisense
TCGCTCTGGAAGGTCTCCGAGTGCA 526 599 51 Antisense
TCTGGAAGGTCTCCGAGTGCACATT 412 605 55 Antisense
GGAATCGCCCGTAATATGAACCGTT 41 525 86 Antisense
TCGCCCGTAATATGAACCGTTTGAT 199 595 90 Antisense
GAACCGTTTGATGAACATTTGCATG 450 345 103 Antisense
AACATTTGCATGAACGAGGACCCGG 501 135 116 Antisense
TGCATGAACGAGGACCCGGGACGTC 189 561 122 Antisense
AAACTTTGATCAAATCATTCCGATT 75 129 151 Antisense
Sequence Source Affymetrix Proprietary Database