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[177270_at]

Description JC8.12 /REP_DB=WormBase Gene ID /WP=CE23840 /TR=Q9U3C7 /GB=CAB54268.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 81      6grp_highest_nonorm > 53      6grp_total > 81      4grp_total > 56      6grp_highest_sub > 05      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 606
1 2 3 4 range
A 61.9
(-3)
A 		173.4
(-1)
P 		396
(3)
P 		87.2
(-2.5)
A 		334
B 103.5
(-2)
A 		394.3
(2.2)
P 		450.4
(3)
P 		31.7
(-3)
A 		419
C 82.7
(-2.9)
A 		398.2
(0.4)
P 		637.7
(3)
P 		75.9
(-3)
A 		562
avr 82.7
(-2.8) 		322
(0.6) 		494.7
(3) 		64.9
(-3) 		430

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1770
1 2 3 4 5 6 range
A 258.4
(-3)
P 		735.4
(-1.4)
P 		928.8
(-0.7)
P 		2028.2
(3)
P 		1319.2
(0.6)
P 		258.5
(-3)
P 		1770
B 348.2
(-3)
P 		891.5
(-0.3)
P 		520.4
(-2.1)
P 		1539.8
(3)
P 		1411.9
(2.4)
P 		391
(-2.8)
P 		1192
C 295.3
(-3)
P 		707
(-0.7)
P 		749.4
(-0.5)
P 		1106.2
(1.5)
P 		1380.5
(3)
P 		304.5
(-2.9)
P 		1085
avr 300.6
(-3) 		778
(-0.7) 		732.9
(-0.9) 		1558.1
(3) 		1370.5
(2.1) 		318
(-2.9) 		1258
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 216
1 2 3 4 range
A 22.5
(-2.4)
A 		37.6
(-1.4)
P 		103.5
(3)
P 		12.8
(-3)
A 		91
B 33
(-1.4)
A 		97.4
(2.6)
P 		104.4
(3)
P 		6.7
(-3)
A 		98
C 27.4
(-2.6)
A 		114.5
(-0.1)
P 		222.3
(3)
P 		12.8
(-3)
A 		210
avr 27.6
(-2.2) 		83.2
(0.3) 		143.4
(3) 		10.8
(-3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 526
1 2 3 4 5 6 range
A 47.6
(-3)
P 		261.5
(-0.3)
P 		202.3
(-1)
P 		514.4
(3)
P 		398.1
(1.5)
P 		62.9
(-2.8)
P 		467
B 121.2
(-3)
P 		296.7
(-0.7)
P 		126.4
(-2.9)
P 		407.8
(0.8)
P 		573.7
(3)
P 		145.8
(-2.7)
P 		453
C 109.4
(-2.9)
P 		215.7
(-1)
P 		190.7
(-1.5)
P 		222.5
(-0.9)
P 		446.7
(3)
P 		101.9
(-3)
P 		345
avr 92.7
(-3) 		258
(-0.4) 		173.1
(-1.7) 		381.6
(1.6) 		472.8
(3) 		103.5
(-2.8) 		380
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177270_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9277
Sequence Type Exemplar sequence
Representative Public ID JC8.12 NCBI
Target Description JC8.12 /REP_DB=WormBase Gene ID /WP=CE23840 /TR=Q9U3C7 /GB=CAB54268.1 /SUBMIT=HINXTON /CHR=4 /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_070149
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070149 NCBI Caenorhabditis elegans JC8.12 (JC8.12) mRNA, complete cds. None
SNAP00000009006 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13256155:13258977:1 None
JC8.12 ENSEMBL cdna:known chromosome:CEL140:IV:13256072:13259034:1 gene:JC8.12 None
GENEFINDER00000009011 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13254206:13258977:1 None
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:13256160-13258983(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl JC8.12
Entrez Gene 178283 Entrez gene
SwissProt Q9U3C7 EMBL-EBI
WormBase CE29812 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7186 G-protein coupled receptor protein signaling pathway inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
1584 rhodopsin-like receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB54268 Hypothetical protein JC8.12 [Caenorhabditis elegans] ref|NP_502550.2| JC8.12 [Caenorhabditis elegans] gb|AAK49908.1| JC8.12-like protein [Caenorhabditis elegans] 1.0E-175
blast CAB54268 Hypothetical protein JC8.12 [Caenorhabditis elegans] ref|NP_502550.2| JC8.12 [Caenorhabditis elegans] gb|AAK49908.1| JC8.12-like protein [Caenorhabditis elegans] 1.0E-169
blast CAE58632 Hypothetical protein CBG01800 [Caenorhabditis briggsae] 1.0E-161
blast CAE58632 Hypothetical protein CBG01800 [Caenorhabditis briggsae] 1.0E-155
blast CAE58633 Hypothetical protein CBG01801 [Caenorhabditis briggsae] 2.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 1.3E-62
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502550.2 8 13-35,39-61,131-150,155-172,184-203,218-240,253-275,280-299
JC8.12 8 13-35,39-61,131-150,155-172,184-203,218-240,253-275,280-299
SNAP00000009006 8 13-35,39-61,131-150,155-172,184-203,218-240,253-275,280-299
GENEFINDER00000009011 9 137-159,166-188,203-225,260-279,284-301,313-332,347-369,382-404,409-428
Sequence
Target Sequence 
>C. ELEGANS:177270_AT
gattgcttcagcgtttgcagagccaactttctataaaatcttgaaaattttctttcaaac
tttggctgttttctgtctgtcaaattacggaaattatactttttttcagtacactgaagt
cttgtacatgcactctttcaactcgctcgtcttttatcttctggccgatatggttcgagt
aagttattttctctattccttacgtggccgtgaaaaaattggtggccgaggtttttctgt
cccacggccacgtatgcttttttcaaatttcaaacatgtccgacttcaggacgaactccg
agatgctttcatgtatatgatcacttcagctcatccgcttttcattattgtttttgctgt
ttccatgtttgccggagttctcttccacttcacgacattctcctgtctcgagaagaatgg
tccattgaatatgcaaattgtgtcaaatgttcgtgcagttgttgagacattcttggctta
ttacctctcggtttatctgttttacgatgtgtacccgggagttttgaactgggctttcct
cgcagtaacctttgtcgctgcaagagctctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTGCTTCAGCGTTTGCAGAGCCA 637 431 423 Antisense
GGCTGTTTTCTGTCTGTCAAATTAC 120 541 486 Antisense
GAAGTCTTGTACATGCACTCTTTCA 170 337 538 Antisense
CTCTATTCCTTACGTGGCCGTGAAA 186 229 613 Antisense
ACGGCCACGTATGCTTTTTTCAAAT 86 89 666 Antisense
TCAGCTCATCCGCTTTTCATTATTG 683 623 748 Antisense
GTTTTTGCTGTTTCCATGTTTGCCG 353 449 772 Antisense
GACATTCTTGGCTTATTACCTCTCG 236 371 888 Antisense
TACCTCTCGGTTTATCTGTTTTACG 339 647 904 Antisense
GAGTTTTGAACTGGGCTTTCCTCGC 82 399 941 Antisense
AACCTTTGTCGCTGCAAGAGCTCTT 429 147 969 Antisense
Sequence Source Affymetrix Proprietary Database