[Home] | [Total List]

[178036_at]

Description F49C5.6 /REP_DB=WormBase Gene ID /WP=CE16083 /TR=O17880 /GB=CAB04434.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 33      4grp_total > 32      6grp_cgc > 80      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 4.3
(-3)
A 		10.9
(-0.6)
A 		21.1
(3)
A 		12.4
(-0.1)
A 		17
B 4.9
(-3)
A 		10.4
(-2.4)
A 		59.2
(2.8)
A 		61.2
(3)
A 		56
C 41.8
(1.8)
A 		50.9
(3)
A 		5.6
(-3)
A 		13.8
(-1.9)
A 		45
avr 17
(-3) 		24.1
(0.5) 		28.6
(2.8) 		29.1
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 4.3
(-2.4)
A 		3.2
(-2.8)
A 		20.9
(3)
A 		2.5
(-3)
A 		3
(-2.8)
A 		3.5
(-2.7)
A 		18
B 41.2
(3)
A 		8.2
(-2.1)
A 		22.8
(0.2)
A 		2.4
(-3)
A 		2.6
(-3)
A 		12.7
(-1.4)
A 		39
C 2.8
(-3)
A 		9.7
(-0.1)
A 		3.9
(-2.5)
A 		17
(3)
A 		3.4
(-2.7)
A 		2.7
(-3)
A 		14
avr 16.1
(3) 		7
(-1.2) 		15.9
(2.9) 		7.3
(-1) 		3
(-3) 		6.3
(-1.5) 		13
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 1.5
(-3)
A 		2.4
(-1.7)
A 		5.5
(3)
A 		1.8
(-2.6)
A 		4
B 1.6
(-3)
A 		2.6
(-2.5)
A 		13.7
(3)
A 		13
(2.7)
A 		12
C 13.9
(2.7)
A 		14.6
(3)
A 		2
(-3)
A 		2.3
(-2.9)
A 		13
avr 5.7
(-3) 		6.5
(0.4) 		7.1
(3) 		5.7
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 0.8
(-2.7)
A 		1.2
(-2.1)
A 		4.5
(3)
A 		0.6
(-3)
A 		0.9
(-2.5)
A 		0.8
(-2.7)
A 		4
B 14.3
(3)
A 		2.7
(-2.1)
A 		5.5
(-0.9)
A 		0.6
(-3)
A 		1.1
(-2.8)
A 		4.7
(-1.2)
A 		14
C 1.1
(-2.5)
A 		2.9
(1.8)
A 		1
(-2.8)
A 		3.4
(3)
A 		1.1
(-2.5)
A 		0.9
(-3)
A 		3
avr 5.4
(3) 		2.3
(-1.2) 		3.7
(0.7) 		1.5
(-2.3) 		1
(-3) 		2.1
(-1.5) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178036_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3254
Sequence Type Exemplar sequence
Representative Public ID F49C5.6 NCBI
Target Description F49C5.6 /REP_DB=WormBase Gene ID /WP=CE16083 /TR=O17880 /GB=CAB04434.1 /SUBMIT=HINXTON /CHR=2 /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_064280(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064280 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-223) (str-223) mRNA, complete cds. 11/11 None
SNAP00000035417 ENSEMBL cdna:SNAP chromosome:CEL140:II:12564086:12568198:1 10/11 None
GENEFINDER00000035427 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12564086:12565844:1 10/11 None
F49C5.6 ENSEMBL cdna:known chromosome:CEL140:II:12564086:12565844:1 gene:F49C5.6 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
chrII:12564082-12565841(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol str-223
Ensembl F49C5.6
Entrez Gene 186017 Entrez gene
SwissProt O17880 EMBL-EBI
WormBase CE16083 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04434 Hypothetical protein F49C5.6 [Caenorhabditis elegans] ref|NP_496681.1| Seven TM Receptor family member (str-223) [Caenorhabditis elegans] 1.0E-180
blast CAB04434 Hypothetical protein F49C5.6 [Caenorhabditis elegans] ref|NP_496681.1| Seven TM Receptor family member (str-223) [Caenorhabditis elegans] 1.0E-153
blast CAB04434 Hypothetical protein F49C5.6 [Caenorhabditis elegans] ref|NP_496681.1| Seven TM Receptor family member (str-223) [Caenorhabditis elegans] 1.0E-151
blast AAB65377 Seven tm receptor protein 227 [Caenorhabditis elegans] ref|NP_503982.1| Seven TM Receptor family member (str-227) [Caenorhabditis elegans] 1.0E-131
blast NP_503369 Seven TM Receptor family member (str-224) [Caenorhabditis elegans] gb|AAC17674.2| Seven tm receptor protein 224 [Caenorhabditis elegans] 1.0E-125
blast AAB65377 Seven tm receptor protein 227 [Caenorhabditis elegans] ref|NP_503982.1| Seven TM Receptor family member (str-227) [Caenorhabditis elegans] 1.0E-109
blast AAB65377 Seven tm receptor protein 227 [Caenorhabditis elegans] ref|NP_503982.1| Seven TM Receptor family member (str-227) [Caenorhabditis elegans] 1.0E-108
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 2.8E-9
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 4.6E-19
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 4.6E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496681.1 7 10-32,45-64,96-118,123-145,193-215,241-263,278-300
F49C5.6 7 10-32,45-64,96-118,123-145,193-215,241-263,278-300
SNAP00000035417 6 10-32,45-64,96-118,159-181,212-234,241-263
GENEFINDER00000035427 6 10-32,45-64,96-118,159-181,213-235,242-264
Sequence
Target Sequence 
>C. ELEGANS:178036_AT
ttcactggatacgtgctggcgggaccaaatgaatttaccagtcgatttatcagtgccaac
atcaaagaagtgctagatttggaattcgacgactacgtctacttggggccatttctctat
gataaaacgggaaatggaaccgcaattgttcatatcaaaccgtttattgggttgggcatc
atatcgggaacaattgtttcatccattatcattgtgctaacatttggaattctttgctac
cgaagactgaacgcaattgtggttaccacaatgaactcggcaaatctgaaaaatcttcaa
agacaactcttctatgcactcgtcattcaaaccttggtaccgttccttctgatgcacatc
ccagtcggtatcatgtttgcattcgtctttctcgacattgacttgggagtgtacagtgca
atcgtctcaatgacgattgcaatttacccggctgtggatccaattccaaccttggttatt
gtagaaaactacagaaaaactttaattcattaccttcgttgttgcaaaaaaccaacagaa
gttgccgcaacagtcattgagccaacaagatttccgacaaccgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCACTGGATACGTGCTGGCGGGAC 664 681 427 Antisense
TCGACGACTACGTCTACTTGGGGCC 514 565 512 Antisense
TGTTTCATCCATTATCATTGTGCTA 317 561 621 Antisense
AAGACAACTCTTCTATGCACTCGTC 458 153 726 Antisense
ATCCCAGTCGGTATCATGTTTGCAT 255 37 784 Antisense
GCATTCGTCTTTCTCGACATTGACT 355 307 805 Antisense
GGGAGTGTACAGTGCAATCGTCTCA 542 495 831 Antisense
TGCAATTTACCCGGCTGTGGATCCA 164 577 864 Antisense
AATTCATTACCTTCGTTGTTGCAAA 96 177 930 Antisense
GTTGCCGCAACAGTCATTGAGCCAA 689 439 967 Antisense
GCCAACAAGATTTCCGACAACCGTC 634 277 987 Antisense
Sequence Source Affymetrix Proprietary Database