[Home] | [Total List]

[184878_at] 7TM chemoreceptor, srb family

Description F58A6.10 /REP_DB=WormBase Gene ID /WP=CE07296 /TR=Q20962 /GB=AAA96202.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 53      4grp_total > 19      6grp_cgc > 65      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 27.3
(-2.1)
A 		38.6
(-1)
A 		16.7
(-3)
A 		83.8
(3)
A 		67
B 49.4
(1.6)
A 		33.3
(-0.1)
A 		5.9
(-3)
A 		62.7
(3)
A 		57
C 16.4
(-2.1)
A 		52.4
(1.5)
A 		7.5
(-3)
A 		66.8
(3)
A 		59
avr 31
(-0.9) 		41.4
(0.1) 		10
(-3) 		71.1
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 15.8
(-2.4)
A 		31
(-1)
A 		73.9
(3)
A 		18.1
(-2.2)
A 		65.3
(2.2)
A 		9.9
(-3)
A 		64
B 32.7
(0.7)
A 		35.9
(1.4)
A 		28.9
(-0.2)
A 		15.7
(-3)
A 		43.5
(3)
A 		41.4
(2.5)
A 		28
C 26.1
(-2.8)
A 		48.8
(1.4)
A 		40.8
(-0.1)
A 		57.7
(3)
A 		24.9
(-3)
A 		38.1
(-0.6)
A 		33
avr 24.9
(-3) 		38.6
(0.6) 		47.9
(3) 		30.5
(-1.5) 		44.6
(2.1) 		29.8
(-1.7) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 9.9
(1.2)
A 		8.4
(0)
A 		4.4
(-3)
A 		12.3
(3)
A 		8
B 15.8
(3)
A 		8.2
(-0.2)
A 		1.4
(-3)
A 		13.4
(2)
A 		14
C 5.4
(-1.7)
A 		15.1
(3)
A 		2.6
(-3)
A 		11.3
(1.2)
A 		13
avr 10.4
(1.8) 		10.6
(1.9) 		2.8
(-3) 		12.3
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 2.9
(-2.8)
A 		11
(-0)
A 		16.1
(1.8)
A 		4.6
(-2.2)
A 		19.7
(3)
A 		2.4
(-3)
A 		17
B 11.4
(0.2)
A 		12
(0.5)
A 		7
(-1.8)
A 		4.2
(-3)
A 		17.7
(3)
A 		15.5
(2)
A 		14
C 9.7
(-1.6)
A 		14.9
(3)
A 		10.4
(-1)
A 		11.6
(0.1)
A 		8.1
(-3)
A 		12.8
(1.1)
A 		7
avr 8
(-2.1) 		12.6
(1.1) 		11.2
(0.1) 		6.8
(-3) 		15.2
(3) 		10.2
(-0.6) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184878_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5625
Sequence Type Exemplar sequence
Representative Public ID F58A6.10 NCBI
Target Description F58A6.10 /REP_DB=WormBase Gene ID /WP=CE07296 /TR=Q20962 /GB=AAA96202.1 /SUBMIT=ST.LOUIS /CHR=2 /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_062556(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062556 NCBI Caenorhabditis elegans Serpentine Receptor, class B (beta) family member (srb-12) (srb-12) mRNA, complete cds. 11/11 None
SNAP00000019949 ENSEMBL cdna:SNAP chromosome:CEL140:II:5153100:5154245:-1 9/11 None
GENEFINDER00000019960 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5152893:5154619:-1 11/11 None
F58A6.10 ENSEMBL cdna:known chromosome:CEL140:II:5153100:5154619:-1 gene:F58A6.10 11/11 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
chrII:5153097-5154617(-) 99.71 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srb family
Gene Symbol srb-12
Ensembl F58A6.10
Entrez Gene 186490 Entrez gene
SwissProt Q20962 EMBL-EBI
WormBase CE07296 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4888 transmembrane receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA96202 Serpentine receptor, class b (beta) protein 12 [Caenorhabditis elegans] ref|NP_494957.1| Serpentine Receptor, class B (beta) family member (srb-12) [Caenorhabditis elegans] 0.0
blast CAE59053 Hypothetical protein CBG02336 [Caenorhabditis briggsae] 1.0E-135
blast CAE59058 Hypothetical protein CBG02342 [Caenorhabditis briggsae] 1.0E-126
blast AAA96202 Serpentine receptor, class b (beta) protein 12 [Caenorhabditis elegans] ref|NP_494957.1| Serpentine Receptor, class B (beta) family member (srb-12) [Caenorhabditis elegans] 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR002184 EMBL-EBI Integral membrane protein Srb, nematode type 1.0E-126
Pfam IPR002184 EMBL-EBI Integral membrane protein Srb, nematode type 1.7E-70
Pfam IPR002184 EMBL-EBI Integral membrane protein Srb, nematode type 9.5E-29
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_494957.1 7 23-45,58-80,107-129,142-164,189-211,240-262,277-298
F58A6.10 7 23-45,58-80,107-129,142-164,189-211,240-262,277-298
SNAP00000019949 5 4-23,36-58,68-87,108-130,145-167
GENEFINDER00000019960 7 23-45,58-80,107-129,142-164,189-211,240-262,277-298
Sequence
Target Sequence 
>C. ELEGANS:184878_AT
aggtcctgttttggttcttgttgtgatagcaattgacagtatgtttttgtacgatattta
tggacaagagaagtttgacaagccgttcataaattttatccttgttcctgcaacttctgc
tcttcaattcaactcatttttatggtatatgctgtatttgaaaattacaaacttcatatg
caaccttattcttctttttattcataaaatattacatcaaaggtaccgccgcaagaatgt
atcattatcagtaaaatatgaaatgcaggaaatatcccaatcttcaagatttacattaat
tgtcacattcactcatttattattttttggctggtatgtatcaacaattctcctcattcg
aactgttggccctgatttctttcgtggatttattaattacacagtcatgagaggtgttta
ttgtgcaacacctacctataattta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGTCCTGTTTTGGTTCTTGTTGTG 7 59 441 Antisense
GAGAAGTTTGACAAGCCGTTCATAA 558 391 508 Antisense
AATTTTATCCTTGTTCCTGCAACTT 96 175 532 Antisense
TATGCAACCTTATTCTTCTTTTTAT 350 655 617 Antisense
ATTACATCAAAGGTACCGCCGCAAG 353 13 651 Antisense
GGTACCGCCGCAAGAATGTATCATT 542 503 662 Antisense
GCAGGAAATATCCCAATCTTCAAGA 536 311 705 Antisense
GTCACATTCACTCATTTATTATTTT 451 465 742 Antisense
TGTATCAACAATTCTCCTCATTCGA 176 561 777 Antisense
TCATTCGAACTGTTGGCCCTGATTT 417 617 794 Antisense
TTGTGCAACACCTACCTATAATTTA 629 707 861 Antisense
Sequence Source Affymetrix Proprietary Database