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[193350_at] 7 transmembrane receptor (rhodopsin family)

Description T02D1.6 /REP_DB=WormBase Gene ID /WP=CE16326 /TR=O45725 /GB=CAB05904.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=7 transmembrane receptor (rhodopsin family)
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 27      4grp_highest_8_8 > 54      4grp_high_8_8 > 09      6grp_highest_nonorm > 80      6grp_total > 16      4grp_total > 22      6grp_highest_sub > De      6grp_high1_sub > Cu      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 322
1 2 3 4 range
A 432.4
(3)
P 		226.4
(-1)
P 		120.2
(-3)
P 		420.3
(2.8)
P 		312
B 370.4
(3)
P 		148.5
(-2.7)
P 		138.4
(-3)
P 		295.3
(1.1)
P 		232
C 441.8
(3)
P 		189.6
(-2)
P 		138.3
(-3)
P 		354.1
(1.3)
P 		304
avr 414.9
(3) 		188.2
(-1.8) 		132.3
(-3) 		356.6
(1.8) 		283

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 360
1 2 3 4 5 6 range
A 458.7
(3)
P 		226
(-1.4)
P 		172.4
(-2.4)
P 		154.4
(-2.7)
P 		141
(-3)
P 		141
(-3)
P 		318
B 354.1
(3)
P 		254.5
(0.7)
P 		121
(-2.5)
P 		98.9
(-3)
P 		158.2
(-1.6)
P 		179
(-1.1)
P 		255
C 263
(3)
P 		212.3
(0.9)
P 		155.4
(-1.4)
P 		156.2
(-1.4)
P 		116.2
(-3)
P 		184.8
(-0.2)
P 		147
avr 358.6
(3) 		230.9
(-0.4) 		149.6
(-2.6) 		136.5
(-3) 		138.5
(-2.9) 		168.3
(-2.1) 		222
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 157.4
(3)
P 		49.2
(-2.2)
P 		31.4
(-3)
P 		61.5
(-1.6)
P 		126
B 118.1
(3)
P 		36.7
(-2.7)
P 		32.1
(-3)
P 		62.9
(-0.9)
P 		86
C 146.3
(3)
P 		54.5
(-2.6)
P 		48.2
(-3)
P 		59.7
(-2.3)
P 		98
avr 140.6
(3) 		46.8
(-2.4) 		37.2
(-3) 		61.4
(-1.6) 		103

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 84.6
(3)
P 		80.4
(2.5)
P 		37.5
(-2.6)
P 		39.2
(-2.4)
P 		42.5
(-2)
P 		34.3
(-3)
P 		50
B 123.2
(3)
P 		84.7
(0.6)
P 		29.4
(-2.8)
P 		26.2
(-3)
P 		64.3
(-0.6)
P 		66.8
(-0.5)
P 		97
C 97.5
(3)
P 		64.8
(0)
P 		39.6
(-2.3)
P 		31.4
(-3)
P 		37.6
(-2.4)
P 		61.9
(-0.2)
P 		66
avr 101.8
(3) 		76.6
(0.8) 		35.5
(-2.7) 		32.3
(-3) 		48.1
(-1.6) 		54.3
(-1.1) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193350_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9966
Sequence Type Exemplar sequence
Representative Public ID T02D1.6 NCBI
Target Description T02D1.6 /REP_DB=WormBase Gene ID /WP=CE16326 /TR=O45725 /GB=CAB05904.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=7 transmembrane receptor (rhodopsin family)
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_070706(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070706 NCBI Caenorhabditis elegans T02D1.6 (T02D1.6) mRNA, complete cds. 9/11 None
SNAP00000012311 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17408374:17409529:-1 9/11 None
GENEFINDER00000012315 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17408374:17413346:-1 9/11 None
T02D1.6 ENSEMBL cdna:known chromosome:CEL140:IV:17408374:17413455:-1 gene:T02D1.6 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028262 2/11 Cross Hyb Matching Probes None
SNAP00000004094 2/11 Cross Hyb Matching Probes None
GENEFINDER00000004179 2/11 Cross Hyb Matching Probes None
SNAP00000012310 2/11 Cross Hyb Matching Probes None
Y116A8C.44 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:17407276-17413352(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7 transmembrane receptor (rhodopsin family)
Ensembl T02D1.6
Entrez Gene 178528 Entrez gene
SwissProt O45725 EMBL-EBI
WormBase CE30684 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 CAB05904 Hypothetical protein T02D1.6 [Caenorhabditis elegans] ref|NP_503107.2| T02D1.6 [Caenorhabditis elegans] 0.0
blast CAE57423 Hypothetical protein CBG00382 [Caenorhabditis briggsae] 0.0
blast AAA27938 Hypothetical protein C06G4.5 [Caenorhabditis elegans] 2.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 1.8E-24
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 1.8E-24
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503107.2 7 60-82,103-125,147-169,182-204,239-261,292-314,329-351
T02D1.6 7 60-82,103-125,147-169,182-204,239-261,292-314,329-351
SNAP00000012311 6 20-42,52-74,87-109,144-166,197-219,234-256
GENEFINDER00000012315 7 60-82,103-125,147-169,182-204,239-261,292-314,329-351
Sequence
Target Sequence 
>C. ELEGANS:193350_AT
gtctacacagttctgatcgcagctgtatattttgtttgttggactccgtactggttctcg
gttctttacgcaatcatcatgtctctgcttggaaaaccaaccacaaattccgaatgggtg
ctatttgccatttattgtgttcatttattgccatattttggttcatcaagcaattggatt
ttatatggattgttgaacactcagctacagatgaaaaacgacattggagatgatggtcaa
agcattatgacaaccaacggagttcaagatcttccaagacgttcaacatcccgcctaatc
tgtgatgctggtgctacgtcatctcgatcaataccaaccaacaatactcctctatggcaa
aatgattcaactctgacacgtggaaattctgatacaatcaacgctgttccaagtgatgct
gaaatcgaagcaatgatgggtcttcaagaaaatgtggaatcatacctggcatcatcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTACACAGTTCTGATCGCAGCTG 179 469 1231 Antisense
TTTGTTGGACTCCGTACTGGTTCTC 233 605 1265 Antisense
TGGTTCTCGGTTCTTTACGCAATCA 113 547 1282 Antisense
TACGCAATCATCATGTCTCTGCTTG 518 647 1297 Antisense
GGGTGCTATTTGCCATTTATTGTGT 357 497 1346 Antisense
GGATTGTTGAACACTCAGCTACAGA 236 509 1417 Antisense
TAATCTGTGATGCTGGTGCTACGTC 385 635 1526 Antisense
GTGCTACGTCATCTCGATCAATACC 646 479 1541 Antisense
TCAATACCAACCAACAATACTCCTC 442 633 1558 Antisense
TCAACGCTGTTCCAAGTGATGCTGA 276 631 1628 Antisense
GTGGAATCATACCTGGCATCATCAA 460 491 1684 Antisense
Sequence Source Affymetrix Proprietary Database