[Home] | [Total List]

[193518_s_at]

Description R11G10.1 /REP_DB=WormBase Gene ID /WP=CE25076 /CHR=5 /FEA=Sanger Annotation /DEF=locus:avr-15 glutamate-gated chloride channel (HINXTON) TR:Q9TW41 protein_id:CAB61029.1
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 36      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 60      6grp_total > 37      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 16      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 917
1 2 3 4 range
A 823
(1.2)
P 		376.3
(-2.5)
P 		313.2
(-3)
P 		1039.2
(3)
P 		726
B 691.1
(-0.1)
P 		326.2
(-2.5)
P 		248.3
(-3)
P 		1165.2
(3)
P 		917
C 727.8
(0.4)
P 		371.5
(-2.4)
P 		300.4
(-3)
P 		1062.3
(3)
P 		762
avr 747.3
(0.4) 		358
(-2.5) 		287.3
(-3) 		1088.9
(3) 		802

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 337
1 2 3 4 5 6 range
A 567.5
(3)
P 		517.5
(2)
P 		335
(-1.6)
P 		262.2
(-3)
P 		291.7
(-2.4)
P 		493.5
(1.5)
P 		305
B 484.8
(3)
P 		411.7
(1)
P 		272.4
(-2.7)
P 		261.2
(-3)
P 		295.7
(-2.1)
P 		468.4
(2.6)
P 		224
C 548.8
(3)
P 		500.2
(2.1)
P 		342.9
(-0.9)
P 		336.2
(-1)
P 		230.5
(-3)
P 		430.7
(0.8)
P 		318
avr 533.7
(3) 		476.5
(1.7) 		316.8
(-2) 		286.5
(-2.7) 		272.6
(-3) 		464.2
(1.4) 		261
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 242
1 2 3 4 range
A 299.7
(3)
P 		81.7
(-3)
P 		81.9
(-3)
P 		152.1
(-1.1)
P 		218
B 220.4
(2.1)
P 		80.6
(-2.3)
P 		57.5
(-3)
P 		248.3
(3)
P 		191
C 240.9
(3)
P 		106.8
(-2.9)
P 		104.7
(-3)
P 		179.1
(0.3)
P 		136
avr 253.7
(3) 		89.7
(-2.7) 		81.4
(-3) 		193.2
(0.9) 		172

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 104.6
(-1.1)
P 		184.1
(3)
P 		73
(-2.7)
P 		66.5
(-3)
P 		88
(-1.9)
P 		120.2
(-0.3)
P 		118
B 168.7
(2.7)
P 		137
(0.9)
P 		66.2
(-3)
P 		69.2
(-2.8)
P 		120.1
(-0)
P 		174.7
(3)
P 		109
C 203.4
(3)
P 		152.6
(0.8)
P 		87.3
(-2.1)
P 		67.6
(-3)
P 		74.6
(-2.7)
P 		144.2
(0.4)
P 		136
avr 158.9
(3) 		157.9
(2.9) 		75.5
(-2.5) 		67.8
(-3) 		94.2
(-1.3) 		146.4
(2.2) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193518_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13503
Sequence Type Exemplar sequence
Representative Public ID R11G10.1 NCBI
Target Description R11G10.1 /REP_DB=WormBase Gene ID /WP=CE25076 /CHR=5 /FEA=Sanger Annotation /DEF=locus:avr-15 glutamate-gated chloride channel (HINXTON) TR:Q9TW41 protein_id:CAB61029.1
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_001028906(11), NM_001028905(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028906 NCBI Caenorhabditis elegans altered AVeRmectin sensitivity family member (avr-15) (avr-15) mRNA, complete cds. 11/11 None
NM_001028905 NCBI Caenorhabditis elegans altered AVeRmectin sensitivity family member (avr-15) (avr-15) mRNA, complete cds. 11/11 None
SNAP00000037920 ENSEMBL cdna:SNAP chromosome:CEL140:V:13501531:13504986:-1 11/11 None
GENEFINDER00000037926 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13501531:13504761:-1 11/11 None
R11G10.1b.1 ENSEMBL cdna:known chromosome:CEL140:V:13501385:13505173:-1 gene:R11G10.1 11/11 None
R11G10.1a ENSEMBL cdna:known chromosome:CEL140:V:13501408:13514309:-1 gene:R11G10.1 11/11 None
R11G10.1b.2 ENSEMBL cdna:known chromosome:CEL140:V:13501531:13505334:-1 gene:R11G10.1 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:13501530-13514216(-) 94.98 100.0
Public Domain and Genome References
Ensembl R11G10.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03329 Hypothetical protein R11G10.1b [Caenorhabditis elegans] ref|NP_001024077.1| altered AVeRmectin sensitivity family member (avr-15) [Caenorhabditis elegans] 0.0
blast CAA04170 GluClalpha2B protein [Caenorhabditis elegans] 0.0
blast CAB61029 Hypothetical protein R11G10.1a [Caenorhabditis elegans] emb|CAB61021.1| Hypothetical protein R11G10.1a [Caenorhabditis elegans] ref|NP_001024076.1| altered AVeRmectin sensitivity family member (avr-15) [Caenorhabditis elegans] 0.0
blast CAA04171 GluClalpha2A protein [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.3E-31
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.3E-5
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.2E-76
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.3E-31
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.3E-5
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.2E-76
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.3E-31
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.3E-5
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.2E-76
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.3E-31
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.3E-5
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.2E-76
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024077.1 4 289-311,318-337,352-374,448-470
NP_001024076.1 5 9-31,468-490,497-516,531-553,627-649
R11G10.1b.1 4 289-311,318-337,352-374,448-470
R11G10.1a 5 9-31,468-490,497-516,531-553,627-649
R11G10.1b.2 4 289-311,318-337,352-374,448-470
SNAP00000037920 4 271-293,300-319,334-356,430-452
GENEFINDER00000037926 4 266-288,295-314,329-351,425-447
Sequence
Target Sequence 
>C. ELEGANS:193518_S_AT
gacagttcagttattatcttctccaactctacattccatcatgcatgttagtcatcgtat
cctgggtttcattctggatcgatcgtacagctgttccggctcgtgtcacacttggagtta
ccacattgctcacaatgacaacacaatcatctggtatcaatgcaaaacttccgccagttg
cctacatcaaggctattgatgtatggattggagcctgtatgacattcattttctgcgcgt
tgttggagttcgcctgggtgacttatattgcaaacaagcaagatgctaataagagggctc
gaactgaaagagagaaagctgaacttccattccttcaaaattcacataacgatgtgtggg
taccacgagaagttgctgaacaagaacgagaagtaatgacagttcgaatgaatcgccgtc
aaacaaatagcgtctggaaatggatcaaaacaaagactgaatggaatgacaagtcgaaaa
gagcagatcttatatctcgagtcatgttccctgtactatttctcacgtttaacatctcct
attggac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAGTTCAGTTATTATCTTCTCCA 267 369 1403 Antisense
CTGGGTTTCATTCTGGATCGATCGT 643 239 1464 Antisense
TGGATCGATCGTACAGCTGTTCCGG 242 551 1477 Antisense
GGCTCGTGTCACACTTGGAGTTACC 181 537 1500 Antisense
GGTATCAATGCAAAACTTCCGCCAG 431 503 1555 Antisense
TTCCGCCAGTTGCCTACATCAAGGC 279 697 1571 Antisense
GTTCGCCTGGGTGACTTATATTGCA 459 439 1650 Antisense
AAAGCTGAACTTCCATTCCTTCAAA 322 125 1717 Antisense
TTATATCTCGAGTCATGTTCCCTGT 215 679 1892 Antisense
TCCCTGTACTATTTCTCACGTTTAA 485 595 1910 Antisense
TCACGTTTAACATCTCCTATTGGAC 217 627 1925 Antisense
Sequence Source Affymetrix Proprietary Database