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[190924_at] 7TM chemoreceptor, srn family

Description K12B6.5 /REP_DB=WormBase Gene ID /WP=CE12172 /GEN=srn-1 /TR=O16383 /GB=AAB65915.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 79      4grp_total > 19      6grp_cgc > 19      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 28.1
(-3)
A 		61.3
(3)
A 		31.7
(-2.3)
A 		56
(2)
A 		33
B 49.1
(-0.8)
A 		55.3
(-0.3)
A 		19.2
(-3)
A 		99.2
(3)
A 		80
C 44.4
(-2.4)
A 		51.7
(-1.7)
A 		37
(-3)
A 		105.5
(3)
A 		69
avr 40.5
(-1.8) 		56.1
(-0.2) 		29.3
(-3) 		86.9
(3) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 26.7
(-1.7)
A 		20.9
(-3)
A 		34.3
(0)
A 		42.3
(1.8)
A 		47.4
(3)
A 		45.3
(2.5)
A 		27
B 32.1
(0.3)
A 		55.2
(3)
A 		37.3
(0.9)
A 		4.2
(-3)
A 		28.9
(-0.1)
A 		48.2
(2.2)
A 		51
C 55.4
(2.8)
A 		56.2
(3)
A 		28.4
(-3)
A 		54.6
(2.7)
A 		31.3
(-2.4)
A 		50.2
(1.7)
A 		28
avr 38.1
(-1) 		44.1
(1.4) 		33.3
(-3) 		33.7
(-2.8) 		35.9
(-1.9) 		47.9
(3) 		15
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 10.2
(-0.6)
A 		13.3
(3)
A 		8.3
(-2.9)
A 		8.2
(-3)
A 		5
B 15.7
(1)
A 		13.6
(0.3)
A 		4.5
(-3)
A 		21.1
(3)
A 		17
C 14.7
(-0.8)
A 		14.8
(-0.7)
A 		12.9
(-3)
A 		17.8
(3)
A 		5
avr 13.5
(1.1) 		13.9
(1.5) 		8.6
(-3) 		15.7
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 4.9
(-3)
A 		7.4
(-1.4)
A 		7.5
(-1.3)
A 		10.7
(0.7)
A 		14.3
(3)
A 		11
(0.9)
A 		9
B 11.2
(0.5)
A 		18.4
(3)
A 		9.1
(-0.2)
A 		1.1
(-3)
A 		11.7
(0.7)
A 		18
(2.9)
A 		17
C 20.6
(3)
A 		17.1
(1.4)
A 		7.2
(-3)
A 		11
(-1.3)
A 		10.1
(-1.7)
A 		16.8
(1.3)
A 		13
avr 12.2
(0.6) 		14.3
(2.2) 		7.9
(-2.8) 		7.6
(-3) 		12
(0.4) 		15.3
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190924_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11521
Sequence Type Exemplar sequence
Representative Public ID K12B6.5 NCBI
Target Description K12B6.5 /REP_DB=WormBase Gene ID /WP=CE12172 /GEN=srn-1 /TR=O16383 /GB=AAB65915.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
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_072206(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072206 NCBI Caenorhabditis elegans Serpentine Receptor, class N family member (srn-1) (srn-1) mRNA, complete cds. 11/11 None
K12B6.5 ENSEMBL cdna:known chromosome:CEL140:V:6287514:6289028:-1 gene:K12B6.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000011421 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:6287513-6289028(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srn family
Gene Symbol srn-1
Ensembl K12B6.5
Entrez Gene 191957 Entrez gene
SwissProt O16383 EMBL-EBI
WormBase CE12172 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB65915 Serpentine receptor, class n protein 1 [Caenorhabditis elegans] ref|NP_504607.1| Serpentine Receptor, class N family member (srn-1) [Caenorhabditis elegans] 1.0E-167
blast CAE71860 Hypothetical protein CBG18904 [Caenorhabditis briggsae] 1.0E-116
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504607.1 7 20-42,63-85,100-122,143-165,209-231,252-274,294-313
K12B6.5 7 20-42,63-85,100-122,143-165,209-231,252-274,294-313
Sequence
Target Sequence 
>C. ELEGANS:190924_AT
ctactcgtcgtctcagctgaaaacatgacacacgcacttggaaaatacgcttctcaatct
gaaactgtgtacttttacgtggatatctggaagcccaaagttgttccacttttgttatca
gttgttgttggtctagctgcaatatatgtatcaaatctctgtggatcaagattggtttgg
aaagcaattgatagaagaaagaataacatgtcttttaaaagttatgaaactcacagacat
ttaactttacttgctctttttcaaaacttgataccagcagttgtaattgcttttcccgta
tttcttgttgcattttcatttgtgatgagctatgagtctgacacttttgctgaactcata
aaacattttgtaacttttgtcatttctatttatccggctttgagcgtcatgttgagcttt
attttcattaaaccttaccggaaatatttattttctctcatctgttcaattcctgctctc
cgaaaaaaacctagtcgggtatctgacacccaactgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTACTCGTCGTCTCAGCTGAAAACA 463 225 526 Antisense
GAAAACATGACACACGCACTTGGAA 94 355 544 Antisense
GAAGCCCAAAGTTGTTCCACTTTTG 466 343 615 Antisense
GACATTTAACTTTACTTGCTCTTTT 681 369 761 Antisense
GCAGTTGTAATTGCTTTTCCCGTAT 472 311 802 Antisense
GAGCTATGAGTCTGACACTTTTGCT 618 387 852 Antisense
TTGTCATTTCTATTTATCCGGCTTT 572 707 902 Antisense
ATCCGGCTTTGAGCGTCATGTTGAG 567 37 917 Antisense
ATATTTATTTTCTCTCATCTGTTCA 597 19 969 Antisense
TTCAATTCCTGCTCTCCGAAAAAAA 693 683 990 Antisense
GTCGGGTATCTGACACCCAACTGTC 454 471 1019 Antisense
Sequence Source Affymetrix Proprietary Database