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[190250_at] 7TM chemoreceptor, sra family

Description F28C12.7 /REP_DB=WormBase Gene ID /WP=CE09754 /TR=O17846 /GB=CAB04710.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=7tm receptor protein
Cluster 6grp_total > 02      4grp_total > 19      6grp_cgc > 52      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 83
1 2 3 4 range
A 33.5
(0.8)
A 		40.3
(3)
A 		21.9
(-3)
A 		36.8
(1.9)
A 		18
B 17.5
(-2.4)
A 		14.3
(-3)
A 		26.1
(-0.8)
A 		46.5
(3)
P 		32
C 33.2
(-1.3)
P 		40.5
(-0.7)
A 		9.4
(-3)
A 		92.1
(3)
P 		83
avr 28.1
(-1.6) 		31.7
(-1.1) 		19.1
(-3) 		58.5
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 59
(2.9)
A 		35.2
(0.3)
P 		29.6
(-0.3)
A 		5.1
(-3)
A 		59.6
(3)
P 		21.3
(-1.2)
A 		55
B 22.5
(-0.1)
A 		45.5
(3)
P 		2.7
(-2.8)
A 		27.8
(0.6)
A 		22.6
(-0.1)
A 		1.3
(-3)
A 		44
C 18.7
(-1.2)
A 		25.5
(0.1)
A 		9.9
(-3)
A 		39.9
(3)
A 		19.5
(-1.1)
A 		20.2
(-0.9)
A 		30
avr 33.4
(2.4) 		35.4
(3) 		14.1
(-3) 		24.3
(-0.1) 		33.9
(2.6) 		14.3
(-2.9) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 12.2
(3)
A 		8.7
(-0.1)
A 		5.7
(-2.7)
A 		5.4
(-3)
A 		7
B 5.6
(-1)
A 		3.5
(-3)
A 		6
(-0.7)
A 		9.9
(3)
P 		6
C 11
(0.8)
P 		11.7
(1.1)
A 		3.3
(-3)
A 		15.5
(3)
P 		12
avr 9.6
(2.2) 		8
(0.4) 		5
(-3) 		10.3
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 10.9
(0.4)
A 		12.5
(1)
P 		6.4
(-1.2)
A 		1.3
(-3)
A 		18
(3)
P 		5.2
(-1.6)
A 		17
B 7.8
(0)
A 		15.1
(3)
P 		0.6
(-3)
A 		7.4
(-0.2)
A 		9.2
(0.6)
A 		0.5
(-3)
A 		15
C 6.9
(1.8)
A 		7.8
(2.8)
A 		2.5
(-3)
A 		8
(3)
A 		6.3
(1.1)
A 		6.8
(1.7)
A 		6
avr 8.5
(0.7) 		11.8
(3) 		3.2
(-3) 		5.6
(-1.3) 		11.2
(2.6) 		4.2
(-2.3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190250_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1222
Sequence Type Exemplar sequence
Representative Public ID F28C12.7 NCBI
Target Description F28C12.7 /REP_DB=WormBase Gene ID /WP=CE09754 /TR=O17846 /GB=CAB04710.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=7tm receptor protein
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_060817(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060817 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-22) (sra-22) mRNA, complete cds. 11/11 None
SNAP00000021705 ENSEMBL cdna:SNAP chromosome:CEL140:I:12710057:12711007:1 11/11 None
F28C12.7 ENSEMBL cdna:known chromosome:CEL140:I:12709560:12711007:1 gene:F28C12.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000021719 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12709490-12710938(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-22
Ensembl F28C12.7
Entrez Gene 185059 Entrez gene
SwissProt O17846 EMBL-EBI
WormBase CE33386 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7606 sensory perception of chemical stimulus 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
4888 transmembrane receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07602 Hypothetical protein F28C12.7 [Caenorhabditis elegans] emb|CAB04710.2| Hypothetical protein F28C12.7 [Caenorhabditis elegans] ref|NP_493218.2| Serpentine Receptor, class A (alpha) family member (sra-22) [Caenorhabditis elegans] sp|O17846|SRA22_CAEEL Serpentine receptor class alpha-22 (Protein sra-22) 0.0
blast CAB04701 Hypothetical protein T06G6.1 [Caenorhabditis elegans] ref|NP_493219.1| Serpentine Receptor, class A (alpha) family member (sra-23) [Caenorhabditis elegans] sp|O62367|SRA23_CAEEL Serpentine receptor class alpha-23 (Protein sra-23) 1.0E-145
blast CAB07597 Hypothetical protein F28C12.5 [Caenorhabditis elegans] ref|NP_493217.1| Serpentine Receptor, class A (alpha) family member (sra-21) [Caenorhabditis elegans] sp|O18690|SRA21_CAEEL Serpentine receptor class alpha-21 (Protein sra-21) 1.0E-145
blast CAB07602 Hypothetical protein F28C12.7 [Caenorhabditis elegans] emb|CAB04710.2| Hypothetical protein F28C12.7 [Caenorhabditis elegans] ref|NP_493218.2| Serpentine Receptor, class A (alpha) family member (sra-22) [Caenorhabditis elegans] sp|O17846|SRA22_CAEEL Serpentine receptor class alpha-22 (Protein sra-22) 1.0E-104
blast CAB07597 Hypothetical protein F28C12.5 [Caenorhabditis elegans] ref|NP_493217.1| Serpentine Receptor, class A (alpha) family member (sra-21) [Caenorhabditis elegans] sp|O18690|SRA21_CAEEL Serpentine receptor class alpha-21 (Protein sra-21) 2.0E-89
blast CAB04701 Hypothetical protein T06G6.1 [Caenorhabditis elegans] ref|NP_493219.1| Serpentine Receptor, class A (alpha) family member (sra-23) [Caenorhabditis elegans] sp|O62367|SRA23_CAEEL Serpentine receptor class alpha-23 (Protein sra-23) 1.0E-81
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 3.9E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493218.2 6 32-54,113-130,150-172,196-218,250-272,282-304
F28C12.7 6 32-54,113-130,150-172,196-218,250-272,282-304
SNAP00000021705 4 17-39,63-85,117-139,149-171
Sequence
Target Sequence 
>C. ELEGANS:190250_AT
tttatcgcgatttctctgctagtcatccagcttctgctcacactcgtatcattctacatc
gcattctatggagtctcgttagctggttatgtgtcagtgtgcattcagtatccgaaagca
gctgtgcaatatggcacaatcaacaccgttcgcactatggtcatggtttgctgtcttata
gtcacggggtttacatattatctaagcgtgaagtcagagaaacaaatccaaaaaatcagt
tattctcctggagagcgatattctgcatacgagaatattacaacatcccaatcagtgtgt
attttcattattcttcagctttcatgcgttatgctaacgtcaatcggaatgaatttgctt
ctgatgatgggagaagcaatgtcagaaggaacattcaccacgattgcattgttcctaccg
ggcataacctacgctaacttatgtcttcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTATCGCGATTTCTCTGCTAGTCA 59 675 409 Antisense
TGCTCACACTCGTATCATTCTACAT 75 581 443 Antisense
CTACATCGCATTCTATGGAGTCTCG 397 227 462 Antisense
GTGTCAGTGTGCATTCAGTATCCGA 300 487 499 Antisense
AATATGGCACAATCAACACCGTTCG 257 173 536 Antisense
ACACCGTTCGCACTATGGTCATGGT 285 109 551 Antisense
GGTTTGCTGTCTTATAGTCACGGGG 116 505 573 Antisense
ATTTTCATTATTCTTCAGCTTTCAT 350 15 709 Antisense
GAAGGAACATTCACCACGATTGCAT 285 333 793 Antisense
TTGCATTGTTCCTACCGGGCATAAC 542 691 812 Antisense
AACCTACGCTAACTTATGTCTTCCA 26 147 834 Antisense
Sequence Source Affymetrix Proprietary Database