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[175291_at]

Description AV200729_rc /REP_DB=TREMBL Accession /GB=AV200729 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk579f3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 20      6grp_total > 06      4grp_total > 52      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1303
1 2 3 4 range
A 1254.8
(2.7)
P 		1303.9
(3)
P 		1155.3
(2.2)
P 		222.8
(-3)
P 		1081
B 1267.2
(2)
P 		1473.6
(3)
P 		1084
(1.1)
P 		261.1
(-3)
P 		1213
C 1200.8
(2.8)
P 		1228.4
(3)
P 		1086.9
(2.2)
P 		170.8
(-3)
P 		1058
avr 1240.9
(2.5) 		1335.3
(3) 		1108.7
(1.8) 		218.2
(-3) 		1117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1492
1 2 3 4 5 6 range
A 1994.1
(3)
P 		1453
(0.7)
P 		897.2
(-1.6)
P 		635.5
(-2.7)
P 		880.6
(-1.7)
P 		574
(-3)
P 		1420
B 1442
(3)
P 		1339.5
(2.3)
P 		903.3
(-0.9)
P 		1071.2
(0.3)
P 		603.2
(-3)
P 		632.3
(-2.8)
P 		839
C 1821.4
(3)
P 		1251.6
(0.4)
P 		1178.3
(0.1)
P 		734.3
(-1.9)
P 		834.7
(-1.5)
P 		501.7
(-3)
P 		1320
avr 1752.5
(3) 		1348
(0.9) 		992.9
(-0.9) 		813.7
(-1.8) 		772.8
(-2) 		569.3
(-3) 		1183
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 428
1 2 3 4 range
A 456.9
(3)
P 		283
(0.5)
P 		302
(0.8)
P 		32.6
(-3)
P 		424
B 404.1
(3)
P 		363.9
(2.3)
P 		251.2
(0.4)
P 		55.7
(-3)
P 		348
C 397.5
(3)
P 		353.2
(2.3)
P 		378.8
(2.7)
P 		28.8
(-3)
P 		369
avr 419.5
(3) 		333.4
(1.6) 		310.7
(1.3) 		39
(-3) 		381

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 535
1 2 3 4 5 6 range
A 367.6
(0.6)
P 		516.8
(3)
P 		195.4
(-2.1)
P 		161.2
(-2.7)
P 		265.7
(-1)
P 		139.8
(-3)
P 		377
B 501.8
(3)
P 		445.9
(1.8)
P 		219.3
(-3)
P 		283.7
(-1.6)
P 		245.1
(-2.5)
P 		235.8
(-2.6)
P 		283
C 675.1
(3)
P 		381.9
(-0.3)
P 		299.9
(-1.3)
P 		147.7
(-3)
P 		270.1
(-1.6)
P 		167.9
(-2.8)
P 		527
avr 514.8
(3) 		448.2
(1.8) 		238.2
(-2) 		197.5
(-2.7) 		260.3
(-1.6) 		181.2
(-3) 		334
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175291_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20203
Sequence Type Exemplar sequence
Representative Public ID AV200729 NCBI
Target Description AV200729_rc /REP_DB=TREMBL Accession /GB=AV200729 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk579f3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_001026682(11), NM_001026686(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026682 NCBI Caenorhabditis elegans Variable ABnormal morphology family member (vab-10) (vab-10) mRNA, complete cds. 11/11 None
NM_001026686 NCBI Caenorhabditis elegans Variable ABnormal morphology family member (vab-10) (vab-10) mRNA, complete cds. 11/11 None
ZK1151.1a ENSEMBL cdna:known chromosome:CEL140:I:11772417:11800240:-1 gene:ZK1151.1 11/11 A 
ZK1151.1e ENSEMBL cdna:known chromosome:CEL140:I:11772438:11800188:-1 gene:ZK1151.1 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173058 7 2 NM_001026682 175291_at (11), 182228_s_at (11)
NM_001026683 191942_s_at (11), 194232_x_at (11)
NM_001026684 191942_s_at (11), 194232_x_at (11)
NM_001026685 182228_s_at (11)
NM_001026686 175291_at (11), 182228_s_at (11)
NM_001026687 182228_s_at (11)
NM_001026688 191942_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:11772378-11772740(-) 100.0 100.0
Public Domain and Genome References
Ensembl ZK1151.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH04740 Hypothetical protein ZK1151.1d [Caenorhabditis elegans] emb|CAH04708.1| Hypothetical protein ZK1151.1d [Caenorhabditis elegans] ref|NP_001021856.1| Variable ABnormal morphology family member (vab-10) [Caenorhabditis elegans] 0.0
blast CAH04742 Hypothetical protein ZK1151.1f [Caenorhabditis elegans] emb|CAH04710.1| Hypothetical protein ZK1151.1f [Caenorhabditis elegans] ref|NP_001021858.1| Variable ABnormal morphology family member (vab-10) [Caenorhabditis elegans] 0.0
blast CAH04741 Hypothetical protein ZK1151.1e [Caenorhabditis elegans] emb|CAH04709.1| Hypothetical protein ZK1151.1e [Caenorhabditis elegans] ref|NP_001021857.1| Variable ABnormal morphology family member (vab-10) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.3.1.Quinohemoprotein amine dehydrogenase A chain, domains 1 and 2 All alpha proteins; Cytochrome c; Cytochrome c; Quinohemoprotein amine dehydrogenase A chain, domains 1 and 2 5.80000019073486
scop a.2.7.Seryl-tRNA synthetase (SerRS) All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Seryl-tRNA synthetase (SerRS) 0.340000003576279
scop a.2.7.Seryl-tRNA synthetase (SerRS) All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Seryl-tRNA synthetase (SerRS) 0.25
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 5.8E-34
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 1.6E-34
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.45
Pfam IPR002017 EMBL-EBI Spectrin repeat 2.1E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.067
Pfam IPR002017 EMBL-EBI Spectrin repeat 1.1E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.0011
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.45
Pfam IPR002017 EMBL-EBI Spectrin repeat 2.1E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.067
Pfam IPR002017 EMBL-EBI Spectrin repeat 1.1E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.0011
Sequence
Target Sequence 
>C. ELEGANS:175291_AT
tgctcattttccatttacttttattatatatttttgtaccctcaaatccaagttcagccc
ctggtctctggggttctgtgaaagttttcatcgcgcgccccaaattccatcttttgttgg
aattttcacggagctctggctctactcaggctgaattttgaacaacaaatcgccatgtac
ttctgatgcccacccccatacttactttctggagtttcttgctcaatcaatatcatttta
ttgtgattttctcaatgtataattccatattttttcctcccaccactctctgtgattata
caaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTCATTTTCCATTTACTTTTATT 422 579 32 Antisense
TTATTATATATTTTTGTACCCTCAA 131 679 52 Antisense
TGTACCCTCAAATCCAAGTTCAGCC 154 559 66 Antisense
CTGGTCTCTGGGGTTCTGTGAAAGT 391 241 92 Antisense
CTGTGAAAGTTTTCATCGCGCGCCC 114 241 107 Antisense
CGCCCCAAATTCCATCTTTTGTTGG 74 255 127 Antisense
GAATTTTCACGGAGCTCTGGCTCTA 701 323 151 Antisense
CTCTGGCTCTACTCAGGCTGAATTT 41 233 165 Antisense
CAAATCGCCATGTACTTCTGATGCC 532 193 197 Antisense
GTGATTTTCTCAATGTATAATTCCA 375 485 274 Antisense
CACCACTCTCTGTGATTATACAAAT 108 203 312 Antisense
Sequence Source Affymetrix Proprietary Database