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[177383_at]

Description VC5.1 /REP_DB=WormBase Gene ID /WP=CE28354 /TR=Q9TYU2 /GB=AAC78209.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 47      4grp_total > 56      6grp_cgc > 26      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 33.9
(2.2)
A 		36.5
(2.7)
A 		4.4
(-3)
A 		38.3
(3)
A 		34
B 10.3
(-2.4)
A 		17.7
(-1.9)
A 		83.8
(3)
A 		2.6
(-3)
A 		81
C 35.7
(1.9)
A 		39
(3)
A 		20.9
(-3)
A 		26.6
(-1.1)
A 		18
avr 26.6
(-1.2) 		31.1
(0.7) 		36.4
(3) 		22.5
(-3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 55.2
(3)
A 		8.8
(-3)
A 		14
(-2.3)
A 		34.3
(0.3)
A 		9
(-3)
A 		25.6
(-0.8)
A 		46
B 2.6
(-3)
A 		36.9
(3)
A 		3
(-2.9)
A 		30.8
(1.9)
A 		12.9
(-1.2)
A 		3.6
(-2.8)
A 		34
C 1.8
(-3)
A 		20.9
(1.5)
A 		4
(-2.5)
A 		5.8
(-2.1)
A 		8.6
(-1.4)
A 		27.5
(3)
A 		26
avr 19.9
(1.7) 		22.2
(2.5) 		7
(-3) 		23.6
(3) 		10.2
(-1.8) 		18.9
(1.3) 		17
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 12.3
(3)
A 		7.9
(0.6)
A 		1.1
(-3)
A 		5.6
(-0.6)
A 		11
B 3.3
(-2.1)
A 		4.4
(-1.8)
A 		19.4
(3)
A 		0.6
(-3)
A 		19
C 11.8
(3)
A 		11.2
(2.5)
A 		7.3
(-0.7)
A 		4.5
(-3)
A 		7
avr 9.1
(2.8) 		7.8
(1.4) 		9.3
(3) 		3.6
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 10.2
(3)
A 		3.1
(-2.7)
A 		3
(-2.8)
A 		8.7
(1.8)
A 		2.7
(-3)
A 		6.2
(-0.2)
A 		8
B 0.9
(-2.9)
A 		12.3
(3)
A 		0.7
(-3)
A 		8.2
(0.9)
A 		5.2
(-0.7)
A 		1.3
(-2.7)
A 		12
C 0.7
(-3)
A 		6.4
(1)
A 		1
(-2.8)
A 		1.2
(-2.6)
A 		2.8
(-1.5)
A 		9.2
(3)
A 		9
avr 3.9
(-0.6) 		7.3
(3) 		1.6
(-3) 		6
(1.6) 		3.6
(-0.9) 		5.6
(1.2) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177383_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12489
Sequence Type Exemplar sequence
Representative Public ID VC5.1 NCBI
Target Description VC5.1 /REP_DB=WormBase Gene ID /WP=CE28354 /TR=Q9TYU2 /GB=AAC78209.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_072398, NM_001028920
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028920 NCBI Caenorhabditis elegans ODoRant response abnormal family member (odr-2) (odr-2) mRNA, complete cds. None
SNAP00000016301 ENSEMBL cdna:SNAP chromosome:CEL140:V:7106290:7106523:1 None
VC5.1 ENSEMBL cdna:known chromosome:CEL140:V:7105071:7106035:1 gene:VC5.1 None
NM_072398 NCBI Caenorhabditis elegans VC5.1 (VC5.1) mRNA, complete cds. None
T01C4.2c ENSEMBL cdna:known chromosome:CEL140:V:7106143:7117028:1 gene:T01C4.2 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
chrV:7105071-7106504(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl VC5.1
T01C4.2
Entrez Gene 189065 Entrez gene
SwissProt Q9TYU2 EMBL-EBI
WormBase CE28354 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001024091 ODoRant response abnormal family member (odr-2) [Caenorhabditis elegans] gb|AAB09176.2| Odorant response abnormal protein 2, isoform c [Caenorhabditis elegans] gb|AAK01411.1| Ly-6-related protein ODR-2 isoform 2b [Caenorhabditis elegans] 1.0E-111
blast NP_001024089 ODoRant response abnormal family member (odr-2) [Caenorhabditis elegans] gb|AAK68880.1| Odorant response abnormal protein 2, isoform a [Caenorhabditis elegans] gb|AAK01413.1| Ly-6-related protein ODR-2 isoform 18 [Caenorhabditis elegans] 1.0E-79
blast NP_001024090 ODoRant response abnormal family member (odr-2) [Caenorhabditis elegans] gb|AAK68881.1| Odorant response abnormal protein 2, isoform b [Caenorhabditis elegans] gb|AAK01412.1| Ly-6-related protein ODR-2 isoform 16 [Caenorhabditis elegans] 1.0E-79
blast AAC78209 Hypothetical protein VC5.1 [Caenorhabditis elegans] ref|NP_504799.1| VC5.1 [Caenorhabditis elegans] 2.0E-47
blast NP_001024091 ODoRant response abnormal family member (odr-2) [Caenorhabditis elegans] gb|AAB09176.2| Odorant response abnormal protein 2, isoform c [Caenorhabditis elegans] gb|AAK01411.1| Ly-6-related protein ODR-2 isoform 2b [Caenorhabditis elegans] 3.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR010558 EMBL-EBI Caenorhabditis elegans ly-6-related 1.6E-74
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024091.1 2 10-28,177-199
T01C4.2c 2 10-28,177-199
SNAP00000016301 1 10-28
Sequence
Target Sequence 
>C. ELEGANS:177383_AT
ggatttggaggttctagtcatttttgaaaaattcaatacaatttctacacaaatcaaaat
ttcacgatcgccgaaacaagtcatcaaaatatgctccagaactaaattgaaatttaagat
tgcatcatctttttcagaaaattttcagactccagccgttcaaataatccttgtaaaatc
taaagtttttccaagtttttggattcatcccttggtatttgaaaatttgcaaagacattc
agcaatattctcaaaatctcttctgtctcgctattttcacgtgtcccaaaattccccaat
taaacagaaatgcaccttccattgtcgagcctgcacccaatgggacttctgtttcggctc
cttctcttctggaatacaattgttctggcggcacgtgaaagatcgaatacagaatattgg
aaagatcagcatccacaacaaagatggagaatttattgtaagtatgggcaagggtccgaa
caatta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATTTGGAGGTTCTAGTCATTTTT 702 509 15 Antisense
CACGATCGCCGAAACAAGTCATCAA 629 199 77 Antisense
GATTGCATCATCTTTTTCAGAAAAT 656 433 132 Antisense
GAAAATTTTCAGACTCCAGCCGTTC 366 353 151 Antisense
CCAGCCGTTCAAATAATCCTTGTAA 662 271 166 Antisense
TTTGGATTCATCCCTTGGTATTTGA 33 667 212 Antisense
TCGCTATTTTCACGTGTCCCAAAAT 486 599 282 Antisense
AGAAATGCACCTTCCATTGTCGAGC 28 73 320 Antisense
CCATTGTCGAGCCTGCACCCAATGG 20 271 333 Antisense
ATACAATTGTTCTGGCGGCACGTGA 294 25 388 Antisense
GTATGGGCAAGGGTCCGAACAATTA 176 453 476 Antisense
Sequence Source Affymetrix Proprietary Database