[Home] | [Total List]

[191130_at] 7TM chemoreceptor, str family

Description F58G4.2 /REP_DB=WormBase Gene ID /WP=CE25026 /GEN=str-90 /TR=Q9GS08 /GB=AAG24135.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 52      4grp_total > 12      6grp_cgc > 92      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 45.2
(2.4)
A 		35.8
(1.2)
A 		4.4
(-3)
A 		49.5
(3)
A 		45
B 33.4
(-1.2)
A 		9.8
(-2.7)
A 		5.4
(-3)
A 		96.5
(3)
A 		91
C 31.5
(-3)
A 		38
(-1.8)
A 		32.3
(-2.9)
A 		64
(3)
A 		33
avr 36.7
(-0.6) 		27.9
(-1.5) 		14
(-3) 		70
(3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 16.1
(-2)
A 		7.2
(-2.7)
A 		79.2
(3)
A 		21
(-1.6)
A 		34.5
(-0.5)
A 		2.8
(-3)
A 		76
B 38.7
(0.3)
A 		36.5
(0.1)
A 		65
(3)
A 		31.1
(-0.4)
A 		5.7
(-3)
A 		14.6
(-2.1)
A 		59
C 32.5
(0.1)
A 		41.8
(1.2)
A 		40.5
(1.1)
A 		56.9
(3)
A 		5.7
(-3)
A 		29.2
(-0.2)
A 		51
avr 29.1
(-1.2) 		28.5
(-1.3) 		61.6
(3) 		36.3
(-0.3) 		15.3
(-3) 		15.5
(-3) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 16.5
(3)
A 		7.8
(-0.4)
A 		1.1
(-3)
A 		7.2
(-0.6)
A 		15
B 10.7
(-0.1)
A 		2.4
(-2.7)
A 		1.3
(-3)
A 		20.6
(3)
A 		19
C 10.4
(-3)
A 		10.9
(0.8)
A 		11.2
(3)
A 		10.8
(0)
A 		1
avr 12.5
(2.7) 		7
(-1.2) 		4.5
(-3) 		12.9
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 3
(-2.2)
A 		2.6
(-2.3)
A 		17.2
(3)
A 		5.3
(-1.3)
A 		10.4
(0.5)
A 		0.7
(-3)
A 		17
B 13.5
(2)
A 		12.1
(1.4)
A 		15.8
(3)
A 		8.2
(-0.4)
A 		2.3
(-3)
A 		5.4
(-1.6)
A 		14
C 12
(2.6)
A 		12.8
(3)
A 		10.3
(1.6)
A 		11.4
(2.2)
A 		1.8
(-3)
A 		9.8
(1.4)
A 		11
avr 9.5
(-0.1) 		9.2
(-0.3) 		14.4
(3) 		8.3
(-0.8) 		4.8
(-3) 		5.3
(-2.7) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191130_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11358
Sequence Type Exemplar sequence
Representative Public ID F58G4.2 NCBI
Target Description F58G4.2 /REP_DB=WormBase Gene ID /WP=CE25026 /GEN=str-90 /TR=Q9GS08 /GB=AAG24135.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster Evidence This cluster is supported by a 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_072691(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072691 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-90) (str-90) mRNA, complete cds. 11/11 None
SNAP00000010858 ENSEMBL cdna:SNAP chromosome:CEL140:V:8108659:8109496:1 11/11 None
GENEFINDER00000010866 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8108311:8109496:1 11/11 None
F58G4.2 ENSEMBL cdna:known chromosome:CEL140:V:8105856:8109496:1 gene:F58G4.2 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:8105856-8109497(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-90
Ensembl F58G4.2
Entrez Gene 191995 Entrez gene
SwissProt Q9GS08 EMBL-EBI
WormBase CE25026 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAG24135 Seven tm receptor protein 90 [Caenorhabditis elegans] ref|NP_505092.1| Seven TM Receptor family member (str-90) [Caenorhabditis elegans] 0.0
blast CAE66134 Hypothetical protein CBG11362 [Caenorhabditis briggsae] 1.0E-164
blast AAG24135 Seven tm receptor protein 90 [Caenorhabditis elegans] ref|NP_505092.1| Seven TM Receptor family member (str-90) [Caenorhabditis elegans] 1.0E-160
blast CAE66134 Hypothetical protein CBG11362 [Caenorhabditis briggsae] 1.0E-142
blast AAG24135 Seven tm receptor protein 90 [Caenorhabditis elegans] ref|NP_505092.1| Seven TM Receptor family member (str-90) [Caenorhabditis elegans] 1.0E-124
blast CAE66134 Hypothetical protein CBG11362 [Caenorhabditis briggsae] 1.0E-106
blast CAB04535 Hypothetical protein F59A1.3 [Caenorhabditis elegans] ref|NP_507473.1| Seven TM Receptor family member (str-92) [Caenorhabditis elegans] 1.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 5.4E-24
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 3.2E-22
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 3.2E-22
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.1E-11
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 3.2E-22
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505092.1 7 10-30,37-59,88-110,123-145,199-221,244-266,281-302
F58G4.2 7 10-30,37-59,88-110,123-145,199-221,244-266,281-302
SNAP00000010858 4 9-31,79-101,124-146,161-182
GENEFINDER00000010866 5 26-48,61-83,137-159,182-204,219-240
Sequence
Target Sequence 
>C. ELEGANS:191130_AT
tgttttgctccgaaatttcctttgaatggtggattactgcggtgttatttgctggagaaa
ctacaaaaattgatgaactgatcaaagactcaatggaaaccaattacaatttgacaaaag
gagaatttatttatgcagcttctctttattataaaactgatgattccggggccaaagcaa
tttcatggcctgatatattgtttgcagtcaatgtggtcaagcttattagtatctgcatga
tcattgttttattttgcggaatttcaacatttcgaaaacttcgaacacttcgtcattatt
cgaaacgaacgacaaatcttcaaaatcaacttttcaaagctctagtgactcaaaccatta
ttccagtcgtcacaatgttcatacctgcagctgttatgatgttagctccgttgtttgaag
taactctaggatcttacgaagttctggttatgccagtaataacaacatatccgtgtgttg
atccaatagttgtcatattctttgtaaaagattaccgacaagcaatatggcagacgattc
gatgcaaaagatgtctctttagcagaagccgatactctcttcgtggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTTTGCTCCGAAATTTCCTTTGA 54 561 413 Antisense
GGATTACTGCGGTGTTATTTGCTGG 8 509 443 Antisense
ATTTATGCAGCTTCTCTTTATTATA 696 15 541 Antisense
GATTCCGGGGCCAAAGCAATTTCAT 524 409 574 Antisense
AACTTCGAACACTTCGTCATTATTC 447 139 689 Antisense
CTAGTGACTCAAACCATTATTCCAG 119 225 754 Antisense
TTATTCCAGTCGTCACAATGTTCAT 643 677 770 Antisense
CAATGTTCATACCTGCAGCTGTTAT 495 181 785 Antisense
GTTATGATGTTAGCTCCGTTGTTTG 287 447 805 Antisense
AGATGTCTCTTTAGCAGAAGCCGAT 54 67 961 Antisense
AGAAGCCGATACTCTCTTCGTGGAA 708 73 976 Antisense
Sequence Source Affymetrix Proprietary Database