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[179156_at] 7TM receptor, srbc family

Description F54B8.6 /REP_DB=WormBase Gene ID /WP=CE16108 /TR=O45559 /GB=CAB07623.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 12      4grp_total > 18      6grp_cgc > 62      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 10.3
(-3)
A 		48.1
(2.1)
A 		10.2
(-3)
A 		54.8
(3)
A 		45
B 25
(-3)
A 		37.3
(-1.3)
A 		56.8
(1.5)
P 		67.6
(3)
P 		43
C 29.3
(-2.3)
A 		28.5
(-2.3)
A 		18
(-3)
P 		113.7
(3)
P 		96
avr 21.5
(-3) 		38
(-1.3) 		28.3
(-2.3) 		78.7
(3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 68
1 2 3 4 5 6 range
A 70.2
(3)
A 		32.6
(-0.9)
A 		49.2
(0.8)
P 		41.2
(0)
A 		38.2
(-0.3)
A 		12.1
(-3)
A 		58
B 17.6
(-3)
A 		43.9
(3)
P 		25.5
(-1.2)
A 		31.7
(0.2)
A 		18.5
(-2.8)
A 		31.3
(0.1)
A 		26
C 16.1
(-1.6)
A 		60.7
(3)
P 		32.2
(0.1)
A 		8.6
(-2.4)
A 		6.1
(-2.6)
A 		2.7
(-3)
A 		58
avr 34.6
(0.8) 		45.7
(3) 		35.6
(1) 		27.2
(-0.7) 		20.9
(-1.9) 		15.4
(-3) 		30
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 3.7
(-2.2)
A 		10.4
(3)
A 		2.7
(-3)
A 		8
(1.1)
A 		8
B 8
(-3)
A 		9.2
(-1.9)
A 		13.2
(1.9)
P 		14.4
(3)
P 		6
C 9.7
(-1.4)
A 		8.2
(-2.1)
A 		6.3
(-3)
P 		19.2
(3)
P 		13
avr 7.1
(-3) 		9.3
(-1.1) 		7.4
(-2.7) 		13.9
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 12.9
(3)
A 		11.6
(2.2)
A 		10.7
(1.7)
P 		10.4
(1.5)
A 		11.5
(2.2)
A 		2.9
(-3)
A 		10
B 6.1
(-3)
A 		14.6
(3)
P 		6.2
(-2.9)
A 		8.4
(-1.4)
A 		7.5
(-2)
A 		11.7
(1)
A 		9
C 6
(-1.3)
A 		18.5
(3)
P 		8.2
(-0.5)
A 		1.7
(-2.7)
A 		2
(-2.6)
A 		0.9
(-3)
A 		18
avr 8.3
(-1.1) 		14.9
(3) 		8.4
(-1) 		6.8
(-2) 		7
(-1.9) 		5.2
(-3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179156_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13912
Sequence Type Exemplar sequence
Representative Public ID F54B8.6 NCBI
Target Description F54B8.6 /REP_DB=WormBase Gene ID /WP=CE16108 /TR=O45559 /GB=CAB07623.1 /SUBMIT=HINXTON /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_074550(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074550 NCBI Caenorhabditis elegans Serpentine Receptor, class BC (class B-like) family member (srbc-48) (srbc-48) mRNA, complete cds. 11/11 None
GENEFINDER00000032680 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15822867:15829931:1 11/11 None
F54B8.6 ENSEMBL cdna:known chromosome:CEL140:V:15822867:15823967:1 gene:F54B8.6 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:15822866-15823967(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM receptor, srbc family
Gene Symbol srbc-48
Ensembl F54B8.6
Entrez Gene 186203 Entrez gene
SwissProt O45559 EMBL-EBI
WormBase CE16108 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07623 Hypothetical protein F54B8.6 [Caenorhabditis elegans] ref|NP_506951.1| Serpentine Receptor, class BC (class B-like) family member (srbc-48) [Caenorhabditis elegans] 1.0E-150
blast CAB07623 Hypothetical protein F54B8.6 [Caenorhabditis elegans] ref|NP_506951.1| Serpentine Receptor, class BC (class B-like) family member (srbc-48) [Caenorhabditis elegans] 1.0E-130
blast CAB07628 Hypothetical protein F54B8.7a [Caenorhabditis elegans] ref|NP_001023966.1| Serpentine Receptor, class BC (class B-like) family member (srbc-49) [Caenorhabditis elegans] 1.0E-120
blast CAB07628 Hypothetical protein F54B8.7a [Caenorhabditis elegans] ref|NP_001023966.1| Serpentine Receptor, class BC (class B-like) family member (srbc-49) [Caenorhabditis elegans] 1.0E-104
blast CAI58636 Hypothetical protein F54B8.7b [Caenorhabditis elegans] ref|NP_001023967.1| Serpentine Receptor, class BC (class B-like) family member (srbc-49) [Caenorhabditis elegans] 2.0E-79
blast CAI58636 Hypothetical protein F54B8.7b [Caenorhabditis elegans] ref|NP_001023967.1| Serpentine Receptor, class BC (class B-like) family member (srbc-49) [Caenorhabditis elegans] 3.0E-65
Protein Domains
Database ID Description E-Value
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 1.2E-101
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 4.1E-97
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 8.2E-5
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 3.0E-59
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 1.9E-64
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506951.1 6 10-32,45-67,82-104,125-144,178-195,215-237
F54B8.6 6 10-32,45-67,82-104,125-144,178-195,215-237
GENEFINDER00000032680 12 10-32,45-67,82-104,125-144,178-196,216-238,253-275,310-332,347-369,376-398,418-440,461-483
Sequence
Target Sequence 
>C. ELEGANS:179156_AT
tatacccattcttagtgtttgacacaatgcgatacactcttggttttctgattacttttg
acagattcattgctatatatttccctgttttttatcagataaatcgaagaaaactatcca
tacactctattgtccttatcctattattgtccgccgcattcaatcaatacgtcctttttg
gatattgtgccaactctatagatgtgccattaaattgcgatgtcttcaagtgcactgtga
attcatgttattacaattactatctgactcaagaacagattgttcatttttctattggaa
ctatgacgatttgtttctgtactcgcttattaatcagatttctcactgccaaatctgaag
tcagcaagtttctgtcacaagcgacacgagttgcacttcttgactctcttacagttttag
tattcttcctagctccatcttttgcttacgctcatcttcctgcaactgatttcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATACCCATTCTTAGTGTTTGACAC 231 659 266 Antisense
AATGCGATACACTCTTGGTTTTCTG 290 167 291 Antisense
ATTGCTATATATTTCCCTGTTTTTT 205 7 334 Antisense
AACTATCCATACACTCTATTGTCCT 43 141 377 Antisense
TATTGTCCTTATCCTATTATTGTCC 677 665 393 Antisense
ATTATTGTCCGCCGCATTCAATCAA 603 13 408 Antisense
GTGCCAACTCTATAGATGTGCCATT 78 479 452 Antisense
GATTTGTTTCTGTACTCGCTTATTA 664 427 573 Antisense
GACACGAGTTGCACTTCTTGACTCT 573 367 648 Antisense
AGTTTTAGTATTCTTCCTAGCTCCA 13 63 678 Antisense
CTCATCTTCCTGCAACTGATTTCGA 556 229 716 Antisense
Sequence Source Affymetrix Proprietary Database