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[172060_x_at]

Description g6714904 /REP_DB=GenBank Identifier /GB=AF117301.1 /PROTEIN_GB=AAF26202.1 /CHR=X /FEA=Mapped Transcript /DEF=G protein-linked acetylcholine receptor GAR-1c
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 18      4grp_highest_8_8 > 53      4grp_high_8_8 > 18      6grp_highest_nonorm > 60      6grp_total > 06      4grp_total > 30      6grp_highest_sub > De      6grp_total_sub > Decrease      6grp_cgc > 12      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 500
1 2 3 4 range
A 641.5
(3)
P 		301.8
(-1.8)
P 		220.8
(-3)
P 		578.8
(2.1)
P 		421
B 700
(3)
P 		314.5
(-2.1)
P 		245.8
(-3)
P 		482.4
(0.1)
P 		454
C 639.5
(3)
P 		337.6
(-1.1)
P 		199.8
(-3)
P 		553.3
(1.8)
P 		440
avr 660.3
(3) 		318
(-1.7) 		222.1
(-3) 		538.2
(1.3) 		438

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 468
1 2 3 4 5 6 range
A 708
(3)
P 		341.5
(-1.9)
P 		296.9
(-2.5)
P 		255.6
(-3)
P 		400.1
(-1.1)
P 		262.8
(-2.9)
P 		452
B 472.1
(3)
P 		372.7
(0.1)
P 		265.3
(-3)
P 		296.1
(-2.1)
P 		276.7
(-2.7)
P 		266.8
(-3)
P 		207
C 392.6
(3)
P 		387.5
(2.8)
P 		301.5
(-0.6)
P 		330
(0.5)
P 		285
(-1.2)
P 		240
(-3)
P 		153
avr 524.2
(3) 		367.2
(-0.5) 		287.9
(-2.3) 		293.9
(-2.2) 		320.6
(-1.6) 		256.5
(-3) 		268
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 177
1 2 3 4 range
A 233.6
(3)
P 		65.5
(-2.7)
P 		57.7
(-3)
P 		84.7
(-2.1)
P 		176
B 223.2
(3)
P 		77.7
(-2.3)
P 		57
(-3)
P 		102.8
(-1.3)
P 		166
C 211.7
(3)
P 		97.1
(-1.8)
P 		69.6
(-3)
P 		93.3
(-2)
P 		142
avr 222.8
(3) 		80.1
(-2.3) 		61.4
(-3) 		93.6
(-1.8) 		161

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 130.5
(3)
P 		121.5
(2.2)
P 		64.7
(-2.9)
P 		64.8
(-2.9)
P 		120.7
(2.1)
P 		64
(-3)
P 		67
B 164.3
(3)
P 		124
(0.6)
P 		64.4
(-3)
P 		78.4
(-2.2)
P 		112.4
(-0.1)
P 		99.5
(-0.9)
P 		100
C 145.5
(3)
P 		118.2
(0.9)
P 		76.7
(-2.2)
P 		66.4
(-3)
P 		92.2
(-1)
P 		80.4
(-1.9)
P 		79
avr 146.8
(3) 		121.2
(1) 		68.6
(-3) 		69.9
(-2.9) 		108.4
(0.1) 		81.3
(-2) 		78
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172060_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19966
Sequence Type Exemplar sequence
Representative Public ID 6714904 NCBI
Target Description g6714904 /REP_DB=GenBank Identifier /GB=AF117301.1 /PROTEIN_GB=AAF26202.1 /CHR=X /FEA=Mapped Transcript /DEF=G protein-linked acetylcholine receptor GAR-1c
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_001029232(11), NM_001029230(11), NM_001029231(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029232 NCBI Caenorhabditis elegans G-protein-linked Acetylcholine Receptor family member (gar-1) (gar-1) mRNA, complete cds. 11/11 None
NM_001029230 NCBI Caenorhabditis elegans G-protein-linked Acetylcholine Receptor family member (gar-1) (gar-1) mRNA, complete cds. 11/11 None
NM_001029231 NCBI Caenorhabditis elegans G-protein-linked Acetylcholine Receptor family member (gar-1) (gar-1) mRNA, complete cds. 11/11 None
SNAP00000029084 ENSEMBL cdna:SNAP chromosome:CEL140:X:6479593:6484765:-1 11/11 None
GENEFINDER00000029091 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6479593:6484765:-1 11/11 None
C15B12.5c ENSEMBL cdna:known chromosome:CEL140:X:6479593:6484765:-1 gene:C15B12.5 11/11 None
C15B12.5b ENSEMBL cdna:known chromosome:CEL140:X:6479593:6484765:-1 gene:C15B12.5 11/11 A 
C15B12.5a ENSEMBL cdna:known chromosome:CEL140:X:6479593:6484765:-1 gene:C15B12.5 11/11 A 
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
chrX:6479592-6484765(-) 100.0 100.0
Public Domain and Genome References
Ensembl C15B12.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL32211 G-protein-linked acetylcholine receptor protein 1, isoform c [Caenorhabditis elegans] ref|NP_001024403.1| G-protein-linked Acetylcholine Receptor family member (gar-1) [Caenorhabditis elegans] gb|AAF26202.1| G protein-linked acetylcholine receptor GAR-1c [Caenorhabditis elegans] 0.0
blast CAE61268 Hypothetical protein CBG05078 [Caenorhabditis briggsae] 0.0
blast T15504 hypothetical protein C15B12.5 - Caenorhabditis elegans 0.0
blast AAL32209 G-protein-linked acetylcholine receptor protein 1, isoform a [Caenorhabditis elegans] ref|NP_001024401.1| G-protein-linked Acetylcholine Receptor family member (gar-1) [Caenorhabditis elegans] gb|AAD13747.1| G protein-linked acetylcholine receptor GAR-1b [Caenorhabditis elegans] 0.0
blast AAL32210 G-protein-linked acetylcholine receptor protein 1, isoform b [Caenorhabditis elegans] ref|NP_001024402.1| G-protein-linked Acetylcholine Receptor family member (gar-1) [Caenorhabditis elegans] gb|AAF26201.1| G protein-linked acetylcholine receptor GAR-1a [Caenorhabditis elegans] sp|Q18007|ACM1_CAEEL Probable muscarinic acetylcholine receptor gar-1 (G-protein linked acetylcholine receptor 1) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 6.3E-52
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 1.5E-53
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 2.6E-53
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 3.8E-31
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 6.8E-17
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024403.1 7 20-42,63-85,100-122,143-165,192-214,543-565,580-602
NP_001024401.1 7 20-42,63-85,100-122,143-165,192-214,603-625,640-662
NP_001024402.1 7 20-42,63-85,100-122,143-165,192-214,634-656,671-693
C15B12.5c 7 20-42,63-85,100-122,143-165,192-214,543-565,580-602
C15B12.5b 7 20-42,63-85,100-122,143-165,192-214,634-656,671-693
C15B12.5a 7 20-42,63-85,100-122,143-165,192-214,603-625,640-662
SNAP00000029084 7 20-42,63-85,100-122,143-165,192-214,603-625,640-662
GENEFINDER00000029091 7 20-42,63-85,100-122,143-165,192-214,618-640,655-677
Sequence
Target Sequence 
>C. ELEGANS:172060_X_AT
aagcgaccacgatcaagccgtcgttctgaacattccactccaaggcaaattgcaaaggtg
aaacaggccgagggaactgctgcacagctcattgaggaaagtgtaccggatgatgaccaa
actgaaaccatcgaagtgaaacgcacagatcgatgggttgtctcaatgaaaaaacgaatt
gcaagagcattgatacgtcgacgaagtacgacgaggccagaaagaggaagtagcagcaac
agcgaaaaaatttcgacaatctccacggtcatcacaagggagaaggtcatttcttcaatt
tttgcaccgattgccgtcttcaacagaggaagaaaacagacaaaagctgaaaagagggct
cataaagcattcagaacaatcacatttatcgtaggatttttcgcaattctttggtcaccg
tattacataatggcaacagtgtatggtttctgtaaaggcgaatgcataccatcatttctg
tacactctatcgtattacatgtgttacctgaacagtagtggtaacccatttgcctacgct
cttgccaatcgtcaattccgttcagcgttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCGACCACGATCAAGCCGTCGTT 232 145 1273 Antisense
AAGCCGTCGTTCTGAACATTCCACT 150 149 1287 Antisense
GAACATTCCACTCCAAGGCAAATTG 405 351 1300 Antisense
GAGGGAACTGCTGCACAGCTCATTG 702 401 1342 Antisense
AATTTCGACAATCTCCACGGTCATC 218 175 1521 Antisense
GTCATTTCTTCAATTTTTGCACCGA 502 467 1558 Antisense
CCGATTGCCGTCTTCAACAGAGGAA 341 259 1579 Antisense
TTTTCGCAATTCTTTGGTCACCGTA 205 677 1670 Antisense
CCATCATTTCTGTACACTCTATCGT 134 271 1741 Antisense
GTAGTGGTAACCCATTTGCCTACGC 192 309 1787 Antisense
CAATCGTCAATTCCGTTCAGCGTTT 449 181 1818 Antisense
Sequence Source GenBank