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[176963_at]

Description Y42H9B.B /REP_DB=WormBase Gene ID /WP=CE25280 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60566.1
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_highest_8_8 > 50      4grp_high_8_8 > 32      6grp_highest_nonorm > 72      6grp_total > 90      4grp_total > 47      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_high1_sub > Cu      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 359
1 2 3 4 range
A 504.3
(3)
P 		283.7
(-2)
P 		238.4
(-3)
P 		314.4
(-1.3)
P 		266
B 518.7
(3)
P 		240.6
(-3)
P 		263.7
(-2.5)
P 		263.8
(-2.5)
P 		278
C 465.7
(3)
P 		264.7
(-0.9)
P 		304.4
(-0.2)
P 		159.4
(-3)
P 		306
avr 496.2
(3) 		263
(-2.6) 		268.8
(-2.5) 		245.9
(-3) 		250

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 376
1 2 3 4 5 6 range
A 458.3
(1.2)
P 		521
(2.4)
P 		257
(-3)
P 		475.5
(1.5)
P 		355.7
(-1)
P 		547.9
(3)
P 		291
B 431.9
(1)
P 		379.2
(-0.4)
P 		374.2
(-0.5)
P 		506.4
(3)
P 		281.2
(-3)
P 		447.9
(1.4)
P 		225
C 618.5
(2.7)
P 		489
(-0.1)
P 		443.6
(-1.1)
P 		632.9
(3)
P 		354.3
(-3)
P 		432.2
(-1.3)
P 		279
avr 502.9
(2) 		463.1
(0.8) 		358.3
(-2.2) 		538.3
(3) 		330.4
(-3) 		476
(1.2) 		208
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 157
1 2 3 4 range
A 183.6
(3)
P 		61.6
(-2.3)
P 		62.3
(-2.3)
P 		46
(-3)
P 		138
B 165.4
(3)
P 		59.4
(-2.8)
P 		61.1
(-2.7)
P 		56.2
(-3)
P 		109
C 154.2
(3)
P 		76.1
(-0.7)
P 		106.1
(0.7)
P 		26.9
(-3)
P 		127
avr 167.7
(3) 		65.7
(-1.9) 		76.5
(-1.4) 		43
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 173
1 2 3 4 5 6 range
A 84.5
(-1.7)
P 		185.3
(3)
P 		56
(-3)
P 		120.6
(-0)
P 		107.3
(-0.6)
P 		133.4
(0.6)
P 		129
B 150.3
(1.7)
P 		126.2
(-0.2)
P 		90.9
(-3)
P 		134.1
(0.4)
P 		114.2
(-1.2)
P 		167
(3)
P 		76
C 229.3
(3)
P 		149.2
(-1.1)
P 		112.9
(-3)
P 		127.3
(-2.3)
P 		114.6
(-2.9)
P 		144.7
(-1.4)
P 		116
avr 154.7
(3) 		153.6
(2.9) 		86.6
(-3) 		127.3
(0.6) 		112
(-0.8) 		148.4
(2.4) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176963_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19115
Sequence Type Exemplar sequence
Representative Public ID Y42H9B.B NCBI
Target Description Y42H9B.B /REP_DB=WormBase Gene ID /WP=CE25280 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60566.1
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_068938(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068938 NCBI Caenorhabditis elegans neuRonal IGCAM family member (rig-4) (rig-4) mRNA, complete cds. 11/11 None
SNAP00000008106 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7991838:8000148:-1 11/11 None
GENEFINDER00000008110 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7991838:8004027:-1 11/11 None
Y42H9B.2 ENSEMBL cdna:known chromosome:CEL140:IV:7991391:8004027:-1 gene:Y42H9B.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
chrIV:7991843-8004033(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rig-4
Ensembl Y42H9B.2
Entrez Gene 177597 Entrez gene
SwissProt Q9N3X8 EMBL-EBI
WormBase CE33870 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.7692.1.S1_S_AT similar to sidekick 2 cfa
DROSOPHILA_2:1628319_S_AT sidekick dm
DROSGENOME1:154090_AT sidekick dm
CHICKEN:GGA.118.1.S1_AT sidekick homolog 2 (chicken) gga
HG-U133_PLUS_2:233585_AT sidekick homolog 2 (chicken) hs
HG-U133B:233585_AT sidekick homolog 2 (chicken) hs
HG-U133_PLUS_2:232061_AT sidekick homolog 2 (chicken) hs
HG-U133B:232061_AT sidekick homolog 2 (chicken) hs
HG-U133_PLUS_2:220628_S_AT sidekick homolog 2 (chicken) hs
HG-U133A:220628_S_AT sidekick homolog 2 (chicken) hs
HG-U133A_2:220628_S_AT sidekick homolog 2 (chicken) hs
HU35KSUBA:AA452721_AT sidekick homolog 2 (chicken) hs
HU35KSUBC:RC_N23651_AT sidekick homolog 2 (chicken) hs
U133_X3P:G9506620_3P_A_AT sidekick homolog 2 (chicken) hs
U133_X3P:HS.43410.0.A1_3P_AT sidekick homolog 2 (chicken) hs
U133_X3P:HS.125490.2.S1_3P_AT sidekick homolog 2 (chicken) hs
U133_X3P:HS.125490.1.S1_3P_AT sidekick homolog 2 (chicken) hs
HG-U133_PLUS_2:242064_AT sidekick homolog 2 (chicken) hs
HG-U133B:242064_AT sidekick homolog 2 (chicken) hs
HG-U95B:54276_AT sidekick homolog 2 (chicken) hs
HG-U95E:81862_AT sidekick homolog 2 (chicken) hs
MG-U74BV2:105828_AT sidekick homolog 2 (chicken) mm
MOE430B:1430425_AT sidekick homolog 2 (chicken) mm
MOUSE430_2:1430425_AT sidekick homolog 2 (chicken) mm
MOE430B:1457333_AT sidekick homolog 2 (chicken) mm
MOUSE430_2:1457333_AT sidekick homolog 2 (chicken) mm
MG-U74CV2:138166_AT MKIAA1514 protein mm
MOE430B:1447445_AT MKIAA1514 protein mm
MOUSE430_2:1447445_AT MKIAA1514 protein mm
MU19KSUBC:TC38342_AT MKIAA1514 protein mm
RAE230B:1381475_AT sidekick homolog 2 (chicken) (predicted) rn
RAT230_2:1381475_AT sidekick homolog 2 (chicken) (predicted) rn
RAE230B:1379016_AT Sidekick homolog 2 (chicken) (predicted) rn
RAT230_2:1379016_AT Sidekick homolog 2 (chicken) (predicted) rn
RAE230B:1397981_AT Sidekick homolog 2 (chicken) (predicted) rn
RAT230_2:1397981_AT Sidekick homolog 2 (chicken) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAF60566 Neuronal igcam protein 4 [Caenorhabditis elegans] ref|NP_501339.2| neuRonal IGCAM family member (rig-4) [Caenorhabditis elegans] 0.0
blast CAE70924 Hypothetical protein CBG17724 [Caenorhabditis briggsae] 0.0
blast AAN09028 CG5227-PC, isoform C [Drosophila melanogaster] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.3E-18
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.6E-5
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.3E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.1E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.7E-20
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.7E-15
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.1E-13
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.3E-11
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.2E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 4.8E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 6.3E-9
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.3E-18
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.6E-5
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.3E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.1E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.7E-20
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.7E-15
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.1E-13
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.3E-11
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.0
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 4.8E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 6.3E-9
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.3E-18
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.6E-5
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.3E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.1E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.7E-20
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.7E-15
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.1E-13
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.3E-11
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 4.2E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 4.8E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 6.3E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501339.2 2 5-24,2019-2041
Y42H9B.2 2 5-24,2019-2041
SNAP00000008106 1 1656-1678
GENEFINDER00000008110 2 5-24,2118-2140
Sequence
Target Sequence 
>C. ELEGANS:176963_AT
gctacagatgttataccaccactcccgaactctgggcctccacatacaagtgttgaagcc
atgcagaagcttagtgctcttgttggaagagatattaggagtcagaacactgcttatgtt
actccatcagctcgaggaggttcagacaatggacgaaatgaatacatgccgacacgatca
gatctttacgcaactcgatcagaatatggccgagtcgaatacagaggacatataccatct
tcgtctggaggatctggagctggatcacagccacaaggaagccccctacaacagccagaa
gtgtacgattcgtttgatgaagaagaagacgttgttgatgatgatactgtaattcgtggt
gatcgaacaatgactgatggtgttgatgatattgctaggcattatggatcaactgatcag
tatagagatacatggagaaaagttagagacacggatatggttagagcgcctatcctaact
ggtcacccgagcagtgcagcaggcagatcttcaacaactgatagcacgagtgaaggtcca
tgggctaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTACAGATGTTATACCACCACTCC 3 303 6301 Antisense
CTGGGCCTCCACATACAAGTGTTGA 158 241 6332 Antisense
ACTGCTTATGTTACTCCATCAGCTC 64 99 6409 Antisense
GAATACATGCCGACACGATCAGATC 23 327 6460 Antisense
CGATCAGATCTTTACGCAACTCGAT 345 249 6475 Antisense
GAGGACATATACCATCTTCGTCTGG 316 405 6524 Antisense
TCTTCGTCTGGAGGATCTGGAGCTG 387 615 6538 Antisense
TGGATCACAGCCACAAGGAAGCCCC 82 549 6561 Antisense
GTTAGAGCGCCTATCCTAACTGGTC 384 447 6760 Antisense
TCACCCGAGCAGTGCAGCAGGCAGA 592 623 6783 Antisense
GCACGAGTGAAGGTCCATGGGCTAA 277 315 6824 Antisense
Sequence Source Affymetrix Proprietary Database