[Home] | [Total List]

[178346_at]

Description F54B8.7 /REP_DB=WormBase Gene ID /WP=CE16109 /TR=O45564 /GB=CAB07628.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 91      4grp_total > 01      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 56.5
(-1.1)
A 		28.9
(-3)
A 		81.6
(0.7)
A 		115.2
(3)
A 		86
B 69.9
(2)
A 		47.3
(-3)
A 		48.5
(-2.7)
A 		74.6
(3)
A 		27
C 30.3
(-3)
A 		68.7
(1.5)
A 		36.2
(-2.3)
A 		81.1
(3)
A 		51
avr 52.2
(-2.4) 		48.3
(-3) 		55.4
(-2) 		90.3
(3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 53.9
(1.6)
A 		2.9
(-3)
A 		41
(0.5)
A 		28.5
(-0.7)
A 		68.8
(3)
A 		37.6
(0.2)
A 		66
B 51.4
(1.3)
A 		44.2
(0.3)
A 		33.8
(-1)
A 		64.5
(2.9)
A 		65
(3)
A 		18.2
(-3)
A 		47
C 16.6
(-3)
A 		110.9
(3)
A 		37
(-1.7)
A 		66.7
(0.2)
A 		29.2
(-2.2)
A 		39.5
(-1.5)
A 		94
avr 40.6
(-0.7) 		52.7
(2.6) 		37.3
(-1.5) 		53.2
(2.7) 		54.3
(3) 		31.8
(-3) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 20.6
(2.7)
A 		6.3
(-3)
A 		21.3
(3)
A 		16.9
(1.2)
A 		15
B 22.3
(3)
A 		11.7
(-2.7)
A 		11.2
(-3)
A 		15.9
(-0.5)
A 		11
C 10
(-3)
A 		19.7
(3)
A 		12.6
(-1.4)
A 		13.7
(-0.7)
A 		10
avr 17.6
(3) 		12.6
(-3) 		15
(-0.1) 		15.5
(0.5) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 9.9
(-0.3)
A 		1
(-3)
A 		8.9
(-0.6)
A 		7.2
(-1.1)
A 		20.8
(3)
A 		9.1
(-0.5)
A 		20
B 17.9
(0.4)
A 		14.7
(-0.6)
A 		8.2
(-2.6)
A 		17.1
(0.2)
A 		26.4
(3)
A 		6.8
(-3)
A 		20
C 6.1
(-3)
A 		33.8
(3)
A 		9.4
(-2.3)
A 		13.4
(-1.4)
A 		9.5
(-2.3)
A 		13.2
(-1.5)
A 		28
avr 11.3
(-1.5) 		16.5
(1.6) 		8.8
(-3) 		12.6
(-0.7) 		18.9
(3) 		9.7
(-2.5) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178346_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14250
Sequence Type Exemplar sequence
Representative Public ID F54B8.7 NCBI
Target Description F54B8.7 /REP_DB=WormBase Gene ID /WP=CE16109 /TR=O45564 /GB=CAB07628.1 /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_001028795(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028795 NCBI Caenorhabditis elegans Serpentine Receptor, class BC (class B-like) family member (srbc-49) (srbc-49) mRNA, complete cds. 11/11 None
F54B8.7a ENSEMBL cdna:known chromosome:CEL140:V:15824282:15825468:1 gene:F54B8.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028796 7/11 Cross Hyb Matching Probes None
SNAP00000032678 7/11 Cross Hyb Matching Probes None
GENEFINDER00000032680 7/11 Cross Hyb Matching Probes None
F54B8.7b 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
186204 2 1 NM_001028795 178346_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15824347-15825468(+) 100.0 100.0
Public Domain and Genome References
Ensembl F54B8.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
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-148
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-119
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-78
Protein Domains
Database ID Description E-Value
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 2.0E-104
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023966.1 7 10-32,53-75,80-102,123-145,178-200,213-235,250-269
F54B8.7a 7 10-32,53-75,80-102,123-145,178-200,213-235,250-269
Sequence
Target Sequence 
>C. ELEGANS:178346_AT
gattacattcgacagacttttggctatatactttccgatttcctatcatctacacagaca
gaaagtttctatatatttcattattttcattttaatattctcagccgcattcaatcaata
cgtattatttggatattgcggcaactccatagatgtgccattagaatgcgatgacttcaa
gtgcactgtgaattcatgttattacaattactatctgactcaagaacagattgttcattt
tgttatcggagccatgactgttattttatgtgctcggttattcataatgtacctcactgc
caaatctgaagtcaccaagtttctgtcacaagcgacacgagttgcactcctggactcgct
tacaatttttacattcttcattctcccatcatttgcctatgctcaatttcctgcaaccga
tttcgaaatatttggtcctttgttagcactgttcaaacgtgtcggagcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTACATTCGACAGACTTTTGGCT 689 429 249 Antisense
TTGGCTATATACTTTCCGATTTCCT 587 707 268 Antisense
TCCGATTTCCTATCATCTACACAGA 438 595 282 Antisense
TAATATTCTCAGCCGCATTCAATCA 309 635 341 Antisense
ATATTGCGGCAACTCCATAGATGTG 101 19 381 Antisense
GACTGTTATTTTATGTGCTCGGTTA 447 375 504 Antisense
TATTCATAATGTACCTCACTGCCAA 563 663 527 Antisense
CTCCTGGACTCGCTTACAATTTTTA 425 235 595 Antisense
TCCCATCATTTGCCTATGCTCAATT 692 597 632 Antisense
TCAATTTCCTGCAACCGATTTCGAA 614 633 651 Antisense
GCACTGTTCAAACGTGTCGGAGCAC 670 313 694 Antisense
Sequence Source Affymetrix Proprietary Database