[Home] | [Total List]

[191401_at]

Description Y27F2A.3 /REP_DB=WormBase Gene ID /WP=CE26055 /GEN=sri-40 /TR=Q9N549 /GB=AAF60478.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 39      4grp_total > 13      6grp_cgc > 08      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 50.8
(2.7)
A 		13.9
(-3)
A 		52.7
(3)
A 		42.2
(1.4)
A 		39
B 42.3
(0.4)
A 		32.2
(-0.6)
A 		8.9
(-3)
A 		68.2
(3)
A 		59
C 37.5
(-0.2)
A 		52.7
(2.3)
A 		20.8
(-3)
A 		56.6
(3)
A 		36
avr 43.5
(0.4) 		32.9
(-1.9) 		27.5
(-3) 		55.7
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 57.3
(2.6)
A 		23
(-1.3)
A 		45.7
(1.3)
A 		8.2
(-3)
A 		61.1
(3)
A 		52.6
(2)
A 		53
B 33.9
(3)
A 		14.3
(-1)
A 		4.4
(-3)
A 		7.7
(-2.3)
A 		31
(2.4)
A 		29.6
(2.1)
A 		30
C 38.5
(3)
A 		29.8
(1.3)
A 		8.6
(-3)
A 		37.4
(2.8)
A 		21.3
(-0.5)
A 		31.9
(1.7)
A 		30
avr 43.2
(3) 		22.4
(-1.9) 		19.6
(-2.6) 		17.8
(-3) 		37.8
(1.7) 		38
(1.8) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 18.5
(3)
A 		3
(-3)
A 		13.8
(1.2)
A 		6.2
(-1.8)
A 		16
B 13.5
(2.5)
A 		7.9
(-0.2)
A 		2.1
(-3)
A 		14.5
(3)
A 		12
C 12.4
(0.9)
A 		15.1
(3)
A 		7.3
(-3)
A 		9.5
(-1.3)
A 		8
avr 14.8
(3) 		8.7
(-2.2) 		7.7
(-3) 		10.1
(-1) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 10.6
(0.1)
A 		8.2
(-0.8)
A 		10
(-0.1)
A 		2.1
(-3)
A 		18.4
(3)
A 		12.8
(0.9)
A 		16
B 11.8
(2.6)
A 		4.8
(-1.1)
A 		1.1
(-3)
A 		2
(-2.5)
A 		12.6
(3)
A 		11
(2.2)
A 		12
C 14.3
(3)
A 		9.1
(0.4)
A 		2.2
(-3)
A 		7.5
(-0.4)
A 		6.9
(-0.7)
A 		10.7
(1.2)
A 		12
avr 12.2
(2.7) 		7.4
(-0.6) 		4.4
(-2.7) 		3.9
(-3) 		12.6
(3) 		11.5
(2.2) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191401_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4504
Sequence Type Exemplar sequence
Representative Public ID Y27F2A.3 NCBI
Target Description Y27F2A.3 /REP_DB=WormBase Gene ID /WP=CE26055 /GEN=sri-40 /TR=Q9N549 /GB=AAF60478.2 /SUBMIT=ST.LOUIS /CHR=2 /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_001027250(10), NM_001027251(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027250 NCBI Caenorhabditis elegans Serpentine Receptor, class I family member (sri-40) (sri-40) mRNA, complete cds. 10/11 None
NM_001027251 NCBI Caenorhabditis elegans Serpentine Receptor, class I family member (sri-40) (sri-40) mRNA, complete cds. 10/11 None
SNAP00000006767 ENSEMBL cdna:SNAP chromosome:CEL140:II:3178397:3180282:1 9/11 None
GENEFINDER00000006776 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3178156:3180415:1 10/11 None
Y27F2A.3 ENSEMBL cdna:known chromosome:CEL140:II:3177961:3180415:1 gene:Y27F2A.3 10/11 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:3178154-3180160(+) 97.0 100.0
Public Domain and Genome References
Ensembl Y27F2A.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001022422 Serpentine Receptor, class I family member (sri-40) [Caenorhabditis elegans] gb|AAX22282.1| Serpentine receptor, class i protein 40, isoform b [Caenorhabditis elegans] 1.0E-169
blast NP_001022421 Serpentine Receptor, class I family member (sri-40) [Caenorhabditis elegans] gb|AAF60478.4| Serpentine receptor, class i protein 40, isoform a [Caenorhabditis elegans] 1.0E-166
blast NP_001022422 Serpentine Receptor, class I family member (sri-40) [Caenorhabditis elegans] gb|AAX22282.1| Serpentine receptor, class i protein 40, isoform b [Caenorhabditis elegans] 1.0E-157
blast NP_001022421 Serpentine Receptor, class I family member (sri-40) [Caenorhabditis elegans] gb|AAF60478.4| Serpentine receptor, class i protein 40, isoform a [Caenorhabditis elegans] 1.0E-157
blast NP_001022422 Serpentine Receptor, class I family member (sri-40) [Caenorhabditis elegans] gb|AAX22282.1| Serpentine receptor, class i protein 40, isoform b [Caenorhabditis elegans] 1.0E-102
blast NP_001022421 Serpentine Receptor, class I family member (sri-40) [Caenorhabditis elegans] gb|AAF60478.4| Serpentine receptor, class i protein 40, isoform a [Caenorhabditis elegans] 2.0E-98
Protein Domains
Database ID Description E-Value
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 1.9E-29
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 7.7E-65
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022421.1 7 10-32,45-63,73-95,132-154,189-211,242-264,274-296
NP_001022422.1 8 10-32,45-63,73-95,132-154,169-187,189-211,242-264,277-299
Y27F2A.3 7 10-32,45-63,73-95,132-154,189-211,242-264,274-296
SNAP00000006767 4 4-26,68-90,125-147,178-200
GENEFINDER00000006776 7 10-32,45-63,73-95,132-154,189-211,242-264,274-296
Sequence
Target Sequence 
>C. ELEGANS:191401_AT
gtgaagccgggatcccggttctgccggttgcggtctttgtattgtacagcatggccggaa
tggatcgggaagagcaattgggctatgttctagagaactatccccaattcttcgccggct
tcacctccctctccaattttgcaatttacaccctgaacttttggtttctgctgatcgccg
ccgtttccctcatcggcggcctaatctgtggcctagtttttacctattccacgttggaca
tgttcaaaatgctgagaagcgttcaacgaaggatctccactgctagctataaccgccacg
aggccgccgtaaaaagtctgctggcccagttttcggtgacgtcactgtgtgtggggcctc
cagtgatgttcgtggtggttgtgatgagcaaattccggtatgctcaggtaaccgtgcagc
ttttgctggcgatttttgcgtcacattcgtcggttaatgcgttggtgcttgtggcgacaa
ctcctccgttcaggaattttgttttgagacctatttttatagtaaagcaagtttggacac
tcgtcggctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGAAGCCGGGATCCCGGTTCTGCC 601 459 500 Antisense
TGCCGGTTGCGGTCTTTGTATTGTA 600 583 521 Antisense
CACCCTGAACTTTTGGTTTCTGCTG 46 201 648 Antisense
CATCGGCGGCCTAATCTGTGGCCTA 210 213 690 Antisense
TGGCCTAGTTTTTACCTATTCCACG 647 543 708 Antisense
AGGATCTCCACTGCTAGCTATAACC 329 55 769 Antisense
AAAAGTCTGCTGGCCCAGTTTTCGG 6 133 811 Antisense
GGCCTCCAGTGATGTTCGTGGTGGT 427 537 854 Antisense
CTCAGGTAACCGTGCAGCTTTTGCT 244 227 902 Antisense
TTGCTGGCGATTTTTGCGTCACATT 257 701 922 Antisense
AGCAAGTTTGGACACTCGTCGGCTT 349 27 1025 Antisense
Sequence Source Affymetrix Proprietary Database