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[173833_at] Integrin alpha chain

Description CEK010GYF /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F54G8.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D26732 /WB_GENE_ID=F54G8.3 /WP=CE00205 /CHR=3 /FEA=Genomic Cluster /GEN=ina-1 /DEF=Integrin alpha chain; C.elegans cDNA clone yk10g11 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 07      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 60      6grp_total > 08      4grp_total > 54      6grp_cgc > 0      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 403
1 2 3 4 range
A 426.5
(3)
P 		196.2
(-2.4)
P 		217.9
(-1.9)
P 		169
(-3)
P 		258
B 500
(3)
P 		278.2
(-0.3)
P 		202.4
(-1.4)
P 		96.9
(-3)
P 		403
C 375.8
(3)
P 		216
(-1.2)
P 		240.4
(-0.6)
P 		149.2
(-3)
P 		227
avr 434.1
(3) 		230.1
(-1.1) 		220.2
(-1.3) 		138.4
(-3) 		296

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 429
1 2 3 4 5 6 range
A 611.1
(3)
P 		441.3
(-0.8)
P 		479.6
(0.1)
P 		463.3
(-0.3)
P 		413.5
(-1.4)
P 		341.7
(-3)
P 		269
B 503.6
(3)
P 		401.7
(1.1)
P 		181.9
(-3)
P 		490.1
(2.7)
P 		280.2
(-1.2)
P 		298.5
(-0.8)
P 		322
C 437
(3)
P 		383.9
(0.9)
P 		288.8
(-3)
P 		345.6
(-0.7)
P 		315.6
(-1.9)
P 		314.5
(-2)
P 		148
avr 517.2
(3) 		409
(-0.2) 		316.8
(-3) 		433
(0.5) 		336.4
(-2.4) 		318.2
(-3) 		200
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 155.3
(3)
P 		42.6
(-2.2)
P 		57
(-1.5)
P 		24.7
(-3)
P 		131
B 159.4
(3)
P 		68.7
(-0.9)
P 		46.9
(-1.9)
P 		20.6
(-3)
P 		139
C 124.4
(3)
P 		62.1
(-0.8)
P 		83.8
(0.5)
P 		25.2
(-3)
P 		99
avr 146.4
(3) 		57.8
(-1.3) 		62.6
(-1.1) 		23.5
(-3) 		123

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 112.7
(-0.6)
P 		156.9
(3)
P 		104.5
(-1.3)
P 		117.5
(-0.2)
P 		124.8
(0.4)
P 		83.2
(-3)
P 		74
B 175.2
(3)
P 		133.7
(1.1)
P 		44.2
(-3)
P 		129.8
(0.9)
P 		113.8
(0.2)
P 		111.3
(0.1)
P 		131
C 162
(3)
P 		117.1
(0.1)
P 		73.5
(-2.7)
P 		69.5
(-3)
P 		102.1
(-0.9)
P 		105.3
(-0.7)
P 		93
avr 150
(3) 		135.9
(1.9) 		74.1
(-3) 		105.6
(-0.5) 		113.6
(0.1) 		99.9
(-1) 		76
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173833_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24177
Sequence Type Exemplar sequence
Representative Public ID CEK010GYF NCBI
Target Description CEK010GYF /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F54G8.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D26732 /WB_GENE_ID=F54G8.3 /WP=CE00205 /CHR=3 /FEA=Genomic Cluster /GEN=ina-1 /DEF=Integrin alpha chain; C.elegans cDNA clone yk10g11 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_066631(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066631 NCBI Caenorhabditis elegans INtegrin Alpha family member (ina-1) (ina-1) mRNA, complete cds. 11/11 None
F54G8.3 ENSEMBL cdna:known chromosome:CEL140:III:9167945:9172707:-1 gene:F54G8.3 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:9167951-9172639(-) 99.38 100.0
Public Domain and Genome References
Gene Title Integrin alpha chain
Gene Symbol ina-1
Ensembl F54G8.3
Entrez Gene 176296 Entrez gene
SwissProt Q03600 EMBL-EBI
WormBase CE00205 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1584716_AT similar to Integrin alpha-7 precursor cfa
CANINE_2:CFA.10634.1.A1_AT similar to Integrin alpha-7 precursor cfa
CANINE_2:CFA.18226.1.S1_S_AT similar to Integrin alpha-7 precursor cfa
CANINE_2:CFAAFFX.1052.1.S1_S_AT similar to Integrin alpha-7 precursor cfa
CANINE_2:CFAAFFX.1056.1.S1_S_AT similar to Integrin alpha-7 precursor cfa
CANINE_2:CFAAFFX.1059.1.S1_AT similar to Integrin alpha-7 precursor cfa
DROSOPHILA_2:1640547_AT multiple edematous wings dm
DROSOPHILA_2:1634290_A_AT multiple edematous wings dm
DROSGENOME1:152588_AT multiple edematous wings dm
HG-U133_PLUS_2:216331_AT integrin, alpha 7 hs
HG-U133A_2:216331_AT integrin, alpha 7 hs
HG-FOCUS:216331_AT integrin, alpha 7 hs
HG-U133A:216331_AT integrin, alpha 7 hs
HU35KSUBC:RC_N34517_S_AT integrin, alpha 7 hs
HUGENEFL:X74295_AT integrin, alpha 7 hs
HG-U133A:209663_S_AT integrin, alpha 7 hs
HG-U133_PLUS_2:209663_S_AT integrin, alpha 7 hs
HG-U133A_2:209663_S_AT integrin, alpha 7 hs
U133_X3P:G3930582_3P_A_AT integrin, alpha 7 hs
U133_X3P:HS.74369.1.S1_3P_AT integrin, alpha 7 hs
HG-U95AV2:36892_AT integrin, alpha 7 hs
HG-U95D:85808_AT Integrin, alpha 7 hs
MG-U74AV2:93061_AT integrin alpha 7 mm
MOE430A:1418393_A_AT integrin alpha 7 mm
MOUSE430A_2:1418393_A_AT integrin alpha 7 mm
MOUSE430_2:1418393_A_AT integrin alpha 7 mm
MU11KSUBA:L23423_S_AT integrin alpha 7 mm
MG-U74AV2:161497_F_AT integrin alpha 7 mm
MG-U74AV2:160086_AT integrin alpha 7 mm
MU19KSUBC:TC42030_I_AT Integrin alpha 7 (Itga7), mRNA mm
RG-U34A:X74293_S_AT integrin alpha 7 rn
RG-U34A:X65036_AT integrin alpha 7 rn
RG-U34A:X65036_G_AT integrin alpha 7 rn
RAE230A:1388240_A_AT integrin alpha 7 rn
RAT230_2:1388240_A_AT integrin alpha 7 rn
RAE230A:1370937_A_AT integrin alpha 7 rn
RAT230_2:1370937_A_AT integrin alpha 7 rn
RAE230A:1371214_AT integrin alpha 7 rn
RAT230_2:1371214_AT integrin alpha 7 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 CAA79561 Hypothetical protein F54G8.3 [Caenorhabditis elegans] ref|NP_499032.1| INtegrin Alpha family member (ina-1) [Caenorhabditis elegans] sp|Q03600|INA1_CAEEL Integrin alpha ina-1 precursor 0.0
blast CAE62667 Hypothetical protein CBG06805 [Caenorhabditis briggsae] 0.0
blast AAO85803 integrin alpha 1 [Pseudoplusia includens] 1.0E-102
Protein Domains
Database ID Description E-Value
Pfam IPR000413 EMBL-EBI Integrins alpha chain 3.2E-7
Pfam IPR000413 EMBL-EBI Integrins alpha chain 6.8E-10
Pfam IPR000413 EMBL-EBI Integrins alpha chain 6.1E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499032.1 1 1084-1106
F54G8.3 1 1084-1106
Sequence
Target Sequence 
>C. ELEGANS:173833_AT
gatacgggactttagatgcctctttatttcttttttcgactggatctctgtgatgtttta
ttcactttgtttgtttccatttatgtgataccattttcctgttttgttccctcaatgatt
ttcctcccaacttcactttaaacatttaagttttttttaaatatttaaatgtatgacatt
tttcaaatcttgtagtcaagtttattgaaaccatcttgacaaatatttcaccggtgccat
tttcatgtttttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATACGGGACTTTAGATGCCTCTTT 507 423 3419 Antisense
TTAGATGCCTCTTTATTTCTTTTTT 570 681 3430 Antisense
ATTTCTTTTTTCGACTGGATCTCTG 255 15 3444 Antisense
TTTTCGACTGGATCTCTGTGATGTT 157 677 3451 Antisense
GATGTTTTATTCACTTTGTTTGTTT 687 409 3470 Antisense
ACTTTGTTTGTTTCCATTTATGTGA 466 101 3482 Antisense
TTATGTGATACCATTTTCCTGTTTT 395 681 3499 Antisense
TTTTGTTCCCTCAATGATTTTCCTC 79 679 3520 Antisense
GACATTTTTCAAATCTTGTAGTCAA 158 371 3593 Antisense
GACAAATATTTCACCGGTGCCATTT 374 365 3636 Antisense
CACCGGTGCCATTTTCATGTTTTTT 683 199 3647 Antisense
Sequence Source Affymetrix Proprietary Database