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[180377_at]

Description R12E2.4 /REP_DB=WormBase Gene ID /WP=CE18136 /TR=O61788 /GB=AAC17025.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 02      4grp_highest_8_8 > 35      4grp_high_8_8 > 56      6grp_highest_nonorm > 41      6grp_total > 35      4grp_total > 63      6grp_highest_sub > De      6grp_cgc > 34      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 417
1 2 3 4 range
A 1002.8
(3)
P 		745.9
(-1.1)
P 		826.6
(0.2)
P 		625.3
(-3)
P 		378
B 829.2
(-1.5)
P 		799.9
(-2.1)
P 		757.2
(-3)
P 		1041.8
(3)
P 		285
C 915.8
(1.3)
P 		688.7
(-3)
P 		1008.3
(3)
P 		774.6
(-1.4)
P 		320
avr 915.9
(3) 		744.8
(-3) 		864
(1.2) 		813.9
(-0.6) 		171

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 582
1 2 3 4 5 6 range
A 815.8
(1.5)
P 		851.9
(1.9)
P 		957.7
(3)
P 		660.7
(-0.2)
P 		402.2
(-3)
P 		529.6
(-1.6)
P 		556
B 956
(3)
P 		883.5
(2.3)
P 		669.6
(0)
P 		650.6
(-0.2)
P 		375.9
(-3)
P 		669.9
(0)
P 		580
C 874.7
(2.7)
P 		899.7
(3)
P 		712.5
(0.8)
P 		699.1
(0.6)
P 		396.9
(-3)
P 		621.5
(-0.3)
P 		503
avr 882.2
(3) 		878.4
(3) 		779.9
(1.7) 		670.1
(0.4) 		391.7
(-3) 		607
(-0.4) 		491
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 274
1 2 3 4 range
A 365.1
(3)
P 		161.9
(-1.5)
P 		216.1
(-0.3)
P 		91.5
(-3)
P 		274
B 264.4
(3)
P 		197.6
(-1.5)
P 		175.5
(-3)
P 		222
(0.1)
P 		89
C 303.1
(1.7)
P 		198
(-1.2)
P 		351.4
(3)
P 		130.6
(-3)
P 		221
avr 310.9
(3) 		185.8
(-1.6) 		247.7
(0.7) 		148
(-3) 		163

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 211
1 2 3 4 5 6 range
A 150.4
(-2)
P 		303
(3)
P 		208.6
(-0.1)
P 		167.6
(-1.5)
P 		121.4
(-3)
P 		128.9
(-2.8)
P 		182
B 332.6
(3)
P 		294.1
(1.7)
P 		162.6
(-2.7)
P 		172.3
(-2.3)
P 		152.7
(-3)
P 		249.8
(0.2)
P 		180
C 324.2
(3)
P 		274.5
(1.5)
P 		181.3
(-1.4)
P 		140.6
(-2.6)
P 		128.4
(-3)
P 		208
(-0.6)
P 		196
avr 269.1
(2.2) 		290.5
(3) 		184.2
(-1.1) 		160.2
(-2) 		134.2
(-3) 		195.6
(-0.6) 		156
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180377_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1878
Sequence Type Exemplar sequence
Representative Public ID R12E2.4 NCBI
Target Description R12E2.4 /REP_DB=WormBase Gene ID /WP=CE18136 /TR=O61788 /GB=AAC17025.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_058914(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058914 NCBI Caenorhabditis elegans INneXin family member (inx-17) (inx-17) mRNA, complete cds. 11/11 None
SNAP00000012680 ENSEMBL cdna:SNAP chromosome:CEL140:I:4165136:4166963:1 9/11 None
GENEFINDER00000012702 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4165136:4166963:1 11/11 None
R12E2.4a ENSEMBL cdna:known chromosome:CEL140:I:4165136:4167058:1 gene:R12E2.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026421 5/11 Cross Hyb Matching Probes None
R12E2.4b 6/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
172006 2 1 NM_058914 180377_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:4165135-4166963(+) 100.0 100.0
Public Domain and Genome References
Ensembl R12E2.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_491315 INneXin family member (inx-17) [Caenorhabditis elegans] gb|AAG50220.1| gap junction innexin [Caenorhabditis elegans] gb|AAC17025.1| Innexin protein 17, isoform a [Caenorhabditis elegans] sp|O61788|INX17_CAEEL Innexin-17 (Gap junction innexin) 0.0
blast NP_491315 INneXin family member (inx-17) [Caenorhabditis elegans] gb|AAG50220.1| gap junction innexin [Caenorhabditis elegans] gb|AAC17025.1| Innexin protein 17, isoform a [Caenorhabditis elegans] sp|O61788|INX17_CAEEL Innexin-17 (Gap junction innexin) 1.0E-173
blast NP_001021592 INneXin family member (inx-17) [Caenorhabditis elegans] gb|AAX88822.1| Innexin protein 17, isoform b [Caenorhabditis elegans] 1.0E-144
blast CAE66706 Hypothetical protein CBG12051 [Caenorhabditis briggsae] 1.0E-138
Protein Domains
Database ID Description E-Value
Pfam IPR000990 EMBL-EBI Innexin 2.6E-41
Pfam IPR000990 EMBL-EBI Innexin 2.2E-7
Pfam IPR000990 EMBL-EBI Innexin 4.6E-10
Pfam IPR000990 EMBL-EBI Innexin 3.5E-36
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491315.1 4 26-48,98-120,189-211,268-290
R12E2.4a 4 26-48,98-120,189-211,268-290
SNAP00000012680 4 26-48,98-120,189-211,244-266
GENEFINDER00000012702 4 26-48,98-120,189-211,268-290
Sequence
Target Sequence 
>C. ELEGANS:180377_AT
ggcgacgagtcggcaagttgacggtgaattctggggatcacgcctaaccacttgcatatt
ggcaacaaaatttctggcaacaatcttgatatttatctcaatgggatttttggattattt
catgggattgggtccgatgtatggatggacaattacaaaagatatattacaaggacgaca
atggcaagagagtggctcatttccgagagtaactttctgtgattttcaagttcgagaact
tggttatgtcaataattggtcacttcagtgtgttttaatggtgaacatgttcaatgagaa
gctgttcattgcgctttggtggtggtacgcacttttggcgattctctcgattttcgacat
tttccgagtgttattccgatttacaatccatcatcaaatctctttcatcacgagaattct
ggcatgtacaggtgattctgcgatcagtgcaacag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCGACGAGTCGGCAAGTTGACGGT 103 543 507 Antisense
TGAATTCTGGGGATCACGCCTAACC 3 573 531 Antisense
CACGCCTAACCACTTGCATATTGGC 7 201 545 Antisense
GAGTGGCTCATTTCCGAGAGTAACT 419 401 696 Antisense
GTCAATAATTGGTCACTTCAGTGTG 322 463 754 Antisense
GTTCATTGCGCTTTGGTGGTGGTAC 684 441 810 Antisense
GGTACGCACTTTTGGCGATTCTCTC 346 505 830 Antisense
GGCGATTCTCTCGATTTTCGACATT 561 541 843 Antisense
GACATTTTCCGAGTGTTATTCCGAT 137 371 862 Antisense
ACAATCCATCATCAAATCTCTTTCA 330 115 889 Antisense
GGTGATTCTGCGATCAGTGCAACAG 53 497 937 Antisense
Sequence Source Affymetrix Proprietary Database