[Home] | [Total List]

[183405_at] 7TM chemoreceptor, srt family

Description C24B9.6 /REP_DB=WormBase Gene ID /WP=CE17448 /TR=O76434 /GB=AAC19249.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 18      4grp_total > 17      6grp_cgc > 21      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 88
1 2 3 4 range
A 26.7
(-3)
A 		36.6
(-2.1)
A 		48
(-1.1)
A 		94.4
(3)
A 		68
B 8.8
(-2.6)
A 		34.5
(1.6)
A 		6.5
(-3)
A 		43.3
(3)
A 		37
C 27.9
(-3)
A 		38
(0.3)
A 		46.5
(3)
A 		45.2
(2.6)
A 		19
avr 21.1
(-3) 		36.4
(-0.7) 		33.7
(-1.1) 		61
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 45.4
(3)
A 		6.9
(-3)
A 		28.3
(0.3)
A 		20.8
(-0.8)
A 		28
(0.3)
A 		34.5
(1.3)
A 		39
B 31.5
(2.7)
A 		30
(2.3)
A 		29.6
(2.2)
A 		6.9
(-3)
A 		33
(3)
A 		21.5
(0.4)
A 		26
C 41.9
(3)
A 		33.9
(1.8)
A 		26.7
(0.7)
A 		18.4
(-0.6)
A 		14.2
(-1.2)
A 		2.7
(-3)
A 		39
avr 39.6
(3) 		23.6
(-1) 		28.2
(0.2) 		15.4
(-3) 		25.1
(-0.6) 		19.6
(-2) 		24
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 9.7
(-1.2)
A 		7.9
(-3)
A 		12.5
(1.7)
A 		13.8
(3)
A 		6
B 2.8
(-2)
A 		8.5
(2.5)
A 		1.5
(-3)
A 		9.2
(3)
A 		8
C 9.2
(-1.9)
A 		10.9
(-0.7)
A 		16.2
(3)
A 		7.6
(-3)
A 		9
avr 7.2
(-3) 		9.1
(0.8) 		10.1
(2.8) 		10.2
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 8.4
(2.9)
A 		2.5
(-3)
A 		6.2
(0.7)
A 		5.3
(-0.2)
A 		8.5
(3)
A 		8.4
(2.9)
A 		6
B 11
(1.8)
A 		10
(1.2)
A 		7.2
(-0.2)
A 		1.8
(-3)
A 		13.4
(3)
A 		8
(0.2)
A 		12
C 15.5
(3)
A 		10.3
(0.9)
A 		6.8
(-0.6)
A 		3.7
(-1.8)
A 		4.6
(-1.5)
A 		0.9
(-3)
A 		15
avr 11.6
(3) 		7.6
(-0) 		6.7
(-0.7) 		3.6
(-3) 		8.8
(0.9) 		5.8
(-1.4) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183405_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14907
Sequence Type Exemplar sequence
Representative Public ID C24B9.6 NCBI
Target Description C24B9.6 /REP_DB=WormBase Gene ID /WP=CE17448 /TR=O76434 /GB=AAC19249.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071337(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071337 NCBI Caenorhabditis elegans Serpentine Receptor, class T family member (srt-27) (srt-27) mRNA, complete cds. 11/11 None
SNAP00000038278 ENSEMBL cdna:SNAP chromosome:CEL140:V:2719523:2720690:-1 11/11 None
GENEFINDER00000038288 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2717222:2725152:-1 11/11 None
C24B9.6 ENSEMBL cdna:known chromosome:CEL140:V:2719523:2720690:-1 gene:C24B9.6 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
chrV:2719522-2720690(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srt family
Gene Symbol srt-27
Ensembl C24B9.6
Entrez Gene 182840 Entrez gene
SwissProt O76434 EMBL-EBI
WormBase CE17448 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC19249 Serpentine receptor, class t protein 27 [Caenorhabditis elegans] ref|NP_503738.1| Serpentine Receptor, class T family member (srt-27) [Caenorhabditis elegans] 0.0
blast AAO26014 Serpentine receptor, class g (gamma) protein 60 [Caenorhabditis elegans] ref|NP_503739.2| Serpentine Receptor, class G (gamma) family member (srg-60) [Caenorhabditis elegans] 1.0E-161
blast CAE62540 Hypothetical protein CBG06649 [Caenorhabditis briggsae] 1.0E-160
blast AAC19254 Serpentine receptor, class t protein 28 [Caenorhabditis elegans] ref|NP_503735.1| Serpentine Receptor, class T family member (srt-28) [Caenorhabditis elegans] 1.0E-130
blast CAE61716 Hypothetical protein CBG05666 [Caenorhabditis briggsae] 1.0E-129
Protein Domains
Database ID Description E-Value
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503738.1 7 38-60,73-95,110-132,153-175,202-224,245-267,271-293
C24B9.6 7 38-60,73-95,110-132,153-175,202-224,245-267,271-293
SNAP00000038278 7 38-60,73-95,110-132,153-175,202-224,245-267,271-293
GENEFINDER00000038288 23 22-44,57-79,118-140,177-195,277-299,306-328,361-383,390-407,443-465,485-502,604-626,639-661,676-698,719-741,768-790,811-833,1007-1029,1042-1064,1079-1101,1122-1144,1199-1221,1242-1263,1273-1295
Sequence
Target Sequence 
>C. ELEGANS:183405_AT
ggaatctctctgtaagctcattttcgatggagccaagacttatggtgttctaactctacc
cgttatttatggcatgtactttgtgattttcaccactccaatcgcattttcttccaagca
cctcacctggttctttaatcctcttatttttccgaatatgactcacgagtacaccaatct
tccacacggcttcaacaacttgttcgttgtcgctttcacgtgtcttatgtacgcctcgtt
ctgttgtgttgtcttggaaaaggttcaggagattgagggacccactaagaataatgcttt
gagcaaacaaatattcttccaatccgcactgatttgtgcagtcaaccagacggcgtctgt
aatttatgtcatcatgaacttcatcgaagtcccactttggcttatcatgctcgggcacat
gctttggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAATCTCTCTGTAAGCTCATTTTC 450 533 429 Antisense
TATGGTGTTCTAACTCTACCCGTTA 358 655 469 Antisense
GTACTTTGTGATTTTCACCACTCCA 698 459 504 Antisense
TCCAATCGCATTTTCTTCCAAGCAC 197 587 525 Antisense
TCACCTGGTTCTTTAATCCTCTTAT 233 625 551 Antisense
TGACTCACGAGTACACCAATCTTCC 53 571 587 Antisense
TCCACACGGCTTCAACAACTTGTTC 80 587 609 Antisense
TTCACGTGTCTTATGTACGCCTCGT 514 687 643 Antisense
CTCGTTCTGTTGTGTTGTCTTGGAA 129 233 663 Antisense
GAAGTCCCACTTTGGCTTATCATGC 676 335 814 Antisense
TCATGCTCGGGCACATGCTTTGGCA 556 621 833 Antisense
Sequence Source Affymetrix Proprietary Database