[Home] | [Total List]

[178869_at]

Description T01G5.4 /REP_DB=WormBase Gene ID /WP=CE12980 /TR=Q9XVJ4 /GB=CAB03264.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 91      4grp_total > 09      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 9.4
(-2.8)
A 		5.9
(-3)
A 		23.1
(-2)
A 		105
(3)
A 		99
B 16.4
(-0.9)
A 		38
(3)
A 		21.6
(0)
A 		4.9
(-3)
A 		33
C 6.5
(-2.9)
A 		11.4
(-2.6)
A 		3.9
(-3)
A 		108.3
(3)
M 		104
avr 10.8
(-3) 		18.4
(-2.3) 		16.2
(-2.5) 		72.7
(3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 6.4
(-2.6)
A 		3
(-3)
A 		19.5
(-0.9)
A 		8.4
(-2.3)
A 		49.2
(3)
A 		4.3
(-2.8)
A 		46
B 38.3
(2.5)
A 		41.2
(3)
A 		6.2
(-2.8)
A 		31.2
(1.3)
A 		23.8
(0.1)
A 		5
(-3)
A 		36
C 8.5
(-3)
A 		54.4
(3)
A 		8.9
(-2.9)
A 		46.3
(1.9)
A 		11.2
(-2.6)
A 		22.6
(-1.2)
A 		46
avr 17.7
(-1.1) 		32.9
(3) 		11.5
(-2.8) 		28.6
(1.8) 		28.1
(1.7) 		10.6
(-3) 		22
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 3.4
(-2.1)
A 		1.3
(-3)
A 		6
(-1)
A 		15.4
(3)
A 		14
B 5.2
(0)
A 		9.4
(3)
A 		5
(-0.1)
A 		1
(-3)
A 		8
C 2.2
(-2.7)
A 		3.3
(-2.3)
A 		1.4
(-3)
A 		18.3
(3)
M 		17
avr 3.6
(-3) 		4.7
(-2.2) 		4.1
(-2.6) 		11.6
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 1.2
(-2.9)
A 		1.1
(-3)
A 		4.2
(-1.6)
A 		2.1
(-2.5)
A 		14.8
(3)
A 		1
(-3)
A 		14
B 13.3
(2.8)
A 		13.7
(3)
A 		1.5
(-3)
A 		8.3
(0.3)
A 		9.7
(1)
A 		1.9
(-2.8)
A 		12
C 3.1
(-2.7)
A 		16.6
(3)
A 		2.3
(-3)
A 		9.3
(-0.1)
A 		3.6
(-2.5)
A 		7.6
(-0.8)
A 		14
avr 5.9
(-0.5) 		10.5
(3) 		2.7
(-3) 		6.6
(-0) 		9.4
(2.2) 		3.5
(-2.4) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178869_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12840
Sequence Type Exemplar sequence
Representative Public ID T01G5.4 NCBI
Target Description T01G5.4 /REP_DB=WormBase Gene ID /WP=CE12980 /TR=Q9XVJ4 /GB=CAB03264.1 /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_074330(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074330 NCBI Caenorhabditis elegans Serpentine Receptor, class R family member (srr-7) (srr-7) mRNA, complete cds. 11/11 None
SNAP00000029274 ENSEMBL cdna:SNAP chromosome:CEL140:V:15130224:15132572:1 11/11 None
GENEFINDER00000029280 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15130841:15132572:1 11/11 None
T01G5.4 ENSEMBL cdna:known chromosome:CEL140:V:15130757:15132572:1 gene:T01G5.4 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:15130756-15132572(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol srr-7
Ensembl T01G5.4
Entrez Gene 187957 Entrez gene
SwissProt Q9XVJ4 EMBL-EBI
WormBase CE12980 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03264 Hypothetical protein T01G5.4 [Caenorhabditis elegans] ref|NP_506731.1| Serpentine Receptor, class R family member (srr-7) [Caenorhabditis elegans] 0.0
blast CAE64043 Hypothetical protein CBG08641 [Caenorhabditis briggsae] 1.0E-132
blast CAE64043 Hypothetical protein CBG08641 [Caenorhabditis briggsae] 1.0E-131
blast NP_505000 Serpentine Receptor, class R family member (srr-9) [Caenorhabditis elegans] gb|AAB37067.2| Serpentine receptor, class r protein 9 [Caenorhabditis elegans] 1.0E-124
Protein Domains
Database ID Description E-Value
Pfam IPR004950 EMBL-EBI Caenorhabditis protein of unknown function DUF267 1.0E-126
Pfam IPR004950 EMBL-EBI Caenorhabditis protein of unknown function DUF267 1.0E-126
Pfam IPR004950 EMBL-EBI Caenorhabditis protein of unknown function DUF267 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506731.1 7 66-88,108-130,159-181,201-223,277-299,309-331,382-404
T01G5.4 7 66-88,108-130,159-181,201-223,277-299,309-331,382-404
SNAP00000029274 7 31-53,73-95,124-146,166-188,242-264,274-296,347-369
GENEFINDER00000029280 7 39-61,74-96,131-153,174-196,245-267,280-302,354-376
Sequence
Target Sequence 
>C. ELEGANS:178869_AT
tcatttctaccgtatgccttgcatttttcgtactcgtttttacatctatcaaccgagaag
tgagccatttcaatcaagaattggagaaatccaagaatgaaaaaactctgaaaagtatcg
ggattctggaaaaatttgatttccgtcaaaatgaaattctcgagctgattctgtttgcaa
atcaatcactctcctctttcggatcagtcactccgcttttcctgttctacggactcataa
acggcgtctacttgacttcatttttcgatgaccttccaactttatacaaagttatcttgg
gactcaatctggctgccattatcatttacaattttatcattttatcaaccgcatgtgctc
ttcaggaacatcttgcaacctctaccagaattctcataaatcactatgaatttgaatgct
ccaaggattcaactgtctatcagacttatcgactgatggtagatcgtttccagaaggttg
atactcggatgtatgtcgtatcggcaattccgatcacaagaagtacttttgcggcggctt
cattcattgttccgaatatgggattcttgctcgtgata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATTTCTACCGTATGCCTTGCATT 113 619 644 Antisense
AAATTCTCGAGCTGATTCTGTTTGC 87 117 797 Antisense
CTTTTCCTGTTCTACGGACTCATAA 401 221 859 Antisense
AACGGCGTCTACTTGACTTCATTTT 640 143 883 Antisense
TTTCGATGACCTTCCAACTTTATAC 234 671 906 Antisense
TTGGGACTCAATCTGGCTGCCATTA 462 693 940 Antisense
TTATCAACCGCATGTGCTCTTCAGG 35 679 985 Antisense
ACATCTTGCAACCTCTACCAGAATT 690 105 1011 Antisense
ATGCTCCAAGGATTCAACTGTCTAT 672 41 1059 Antisense
GATGTATGTCGTATCGGCAATTCCG 438 409 1131 Antisense
GAATATGGGATTCTTGCTCGTGATA 11 327 1197 Antisense
Sequence Source Affymetrix Proprietary Database