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[176799_at]

Description Y49C4A.2 /REP_DB=WormBase Gene ID /WP=CE26125 /GB=AAK72313.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 02      4grp_total > 01      6grp_cgc > 52      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 2
(-3)
A 		2.8
(-2.9)
A 		18.7
(-1.7)
A 		79.3
(3)
P 		77
B 11.3
(0)
A 		2.7
(-3)
A 		13.8
(0.9)
A 		19.9
(3)
A 		17
C 9.4
(-2.5)
A 		3.9
(-2.8)
A 		0.5
(-3)
A 		110
(3)
P 		110
avr 7.6
(-2.6) 		3.1
(-3) 		11
(-2.3) 		69.7
(3) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 26.1
(3)
A 		1.7
(-3)
A 		21.3
(1.8)
A 		24.2
(2.5)
A 		19.7
(1.4)
A 		13.4
(-0.1)
A 		24
B 17.7
(1.2)
A 		11.6
(-0.3)
A 		6.2
(-1.7)
A 		24.5
(3)
A 		20
(1.8)
A 		1.3
(-3)
A 		23
C 4.5
(-2.6)
A 		46.3
(3)
P 		1.3
(-3)
A 		2.7
(-2.8)
A 		3.2
(-2.7)
A 		27
(0.4)
A 		45
avr 16.1
(0.8) 		19.9
(3) 		9.6
(-3) 		17.1
(1.4) 		14.3
(-0.3) 		13.9
(-0.5) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 0.7
(-2.9)
A 		0.6
(-3)
A 		4.9
(-0.7)
A 		11.6
(3)
P 		11
B 3.6
(2)
A 		0.7
(-3)
A 		3.2
(1.3)
A 		4.2
(3)
A 		4
C 3.1
(-2.1)
A 		1.1
(-2.7)
A 		0.2
(-3)
A 		18.6
(3)
P 		18
avr 2.5
(-2) 		0.8
(-3) 		2.8
(-1.9) 		11.5
(3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 4.8
(1.6)
A 		0.6
(-3)
A 		4.6
(1.4)
A 		6.1
(3)
A 		5.9
(2.8)
A 		3.3
(-0.1)
A 		6
B 6.2
(1.5)
A 		3.9
(-0.3)
A 		1.5
(-2.2)
A 		6.5
(1.7)
A 		8.1
(3)
A 		0.5
(-3)
A 		8
C 1.7
(-2.4)
A 		14.1
(3)
P 		0.3
(-3)
A 		0.6
(-2.9)
A 		1
(-2.7)
A 		9
(0.8)
A 		14
avr 4.2
(0.1) 		6.2
(3) 		2.1
(-3) 		4.4
(0.4) 		5
(1.2) 		4.3
(0.2) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176799_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15945
Sequence Type Exemplar sequence
Representative Public ID Y49C4A.2 NCBI
Target Description Y49C4A.2 /REP_DB=WormBase Gene ID /WP=CE26125 /GB=AAK72313.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070900
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y49C4A.2 ENSEMBL cdna:known chromosome:CEL140:V:707048:708283:1 gene:Y49C4A.2 None
NM_070900 NCBI Caenorhabditis elegans Serpentine Receptor, class BC (class B-like) family member (srbc-38) (srbc-38) mRNA, complete cds. None
GENEFINDER00000005338 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:699909:710218:1 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:706828-708336(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol srbc-38
Ensembl Y49C4A.2
Entrez Gene 3565932 Entrez gene
SwissProt Q5FAM6 EMBL-EBI
WormBase CE38121 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503299 Serpentine Receptor, class X family member (srx-5) [Caenorhabditis elegans] gb|AAK72315.1| Serpentine receptor, class x protein 5 [Caenorhabditis elegans] 1.0E-145
blast NP_503301 Serpentine Receptor, class BC (class B-like) family member (srbc-38) [Caenorhabditis elegans] gb|AAW88387.1| Hypothetical protein Y49C4A.2 [Caenorhabditis elegans] 1.0E-141
blast NP_503301 Serpentine Receptor, class BC (class B-like) family member (srbc-38) [Caenorhabditis elegans] gb|AAW88387.1| Hypothetical protein Y49C4A.2 [Caenorhabditis elegans] 1.0E-138
blast NP_503300 Serpentine Receptor, class BC (class B-like) family member (srbc-37) [Caenorhabditis elegans] gb|AAW88388.1| Hypothetical protein Y49C4A.3 [Caenorhabditis elegans] 1.0E-129
blast NP_503300 Serpentine Receptor, class BC (class B-like) family member (srbc-37) [Caenorhabditis elegans] gb|AAW88388.1| Hypothetical protein Y49C4A.3 [Caenorhabditis elegans] 1.0E-113
blast AAW88416 Serpentine receptor, class bc (class b-like) protein 36 [Caenorhabditis elegans] ref|NP_001021358.1| Serpentine Receptor, class BC (class B-like) family member (srbc-36) [Caenorhabditis elegans] 2.0E-67
Protein Domains
Database ID Description E-Value
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 8.8E-81
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 5.1E-72
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 8.8E-81
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 4.2E-62
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503301.2 7 4-26,46-68,78-100,121-143,176-198,219-241,251-270
Y49C4A.2 7 4-26,46-68,78-100,121-143,176-198,219-241,251-270
GENEFINDER00000005338 25 7-29,39-61,125-147,177-199,220-239,273-295,315-337,352-374,394-416,448-470,493-515,520-542,562-584,594-616,637-659,692-714,735-757,767-786,836-855,939-956,976-998,1008-1030,1051-1073,1104-1123,1143-1165
Sequence
Target Sequence 
>C. ELEGANS:176799_AT
ggaacagaaccttttgtgctttttggattttgctcgtatcaaatggaaattccatcgacg
tgtcgattttttggttgtgcaattaatacgtgtttcaatagtttttggagcgttcataga
acgataatattcactactattgttattttgtcaattttgctggccgcaaaacttttcatc
ttgaaccattttcaactaggtgtaactaataaaatgctgtcaaaagcaaatcggttagca
ttaattgatgtttgcacggtttttatttttgacattattcctgcggtgtgtggaaattta
tggccaattgcatatattttctcttttgacattgaatttttcgcaaaaattacgattgtc
gtaaccattagtttagcagtcctttttttcagttttcaatcaatatctacacaacttaaa
tttattcattttcagaacgtaggtccctacaatttctacttgaaaatttttggatgttcg
atagagacaattattgtgtcgtccgttattatgcgctcaaaatcgaaaatttctaaaaac
tcacccgttattgcgatttcaagagttactgcgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAACAGAACCTTTTGTGCTTTTTG 663 527 547 Antisense
TTGCTGGCCGCAAAACTTTTCATCT 519 693 703 Antisense
TTGACATTATTCCTGCGGTGTGTGG 286 705 815 Antisense
GTCGTAACCATTAGTTTAGCAGTCC 459 473 904 Antisense
TAGCAGTCCTTTTTTTCAGTTTTCA 702 651 920 Antisense
TCAGTTTTCAATCAATATCTACACA 221 623 935 Antisense
TCATTTTCAGAACGTAGGTCCCTAC 44 619 972 Antisense
TAGGTCCCTACAATTTCTACTTGAA 349 653 986 Antisense
TGTGTCGTCCGTTATTATGCGCTCA 642 555 1041 Antisense
AAACTCACCCGTTATTGCGATTTCA 348 127 1083 Antisense
TTGCGATTTCAAGAGTTACTGCGAT 354 699 1097 Antisense
Sequence Source Affymetrix Proprietary Database