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[173764_at]

Description AV201655 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F47A4.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV201655 /WB_GENE_ID=F47A4.2 /WP=CE16058 /CHR=X /FEA=Genomic Cluster /GEN=sop-1 /DEF=Caenorhabditis elegans cDNA clone:yk539g5 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 29      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 40      6grp_total > 27      4grp_total > 39      6grp_highest_sub > De      6grp_cgc > 04      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 732
1 2 3 4 range
A 1100.8
(3)
P 		499
(-2.1)
P 		495.8
(-2.2)
P 		397.3
(-3)
P 		704
B 1073.3
(3)
P 		369
(-3)
P 		389.2
(-2.8)
P 		633.7
(-0.7)
P 		704
C 974.3
(3)
P 		448
(-3)
P 		563.6
(-1.7)
P 		677.7
(-0.4)
P 		526
avr 1049.5
(3) 		438.7
(-3) 		482.9
(-2.6) 		569.6
(-1.7) 		611

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 575
1 2 3 4 5 6 range
A 739.7
(2.3)
P 		785.5
(3)
P 		366.1
(-3)
P 		363.7
(-3)
P 		694.3
(1.7)
P 		551.1
(-0.3)
P 		422
B 875.2
(3)
P 		684.8
(0.1)
P 		479.3
(-3)
P 		591
(-1.3)
P 		529.9
(-2.2)
P 		737.4
(0.9)
P 		396
C 939
(3)
P 		834.4
(1.6)
P 		551.1
(-2.1)
P 		578.7
(-1.7)
P 		483.6
(-3)
P 		572.3
(-1.8)
P 		455
avr 851.3
(3) 		768.2
(1.7) 		465.5
(-3) 		511.1
(-2.3) 		569.3
(-1.4) 		620.3
(-0.6) 		386
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 343
1 2 3 4 range
A 400.8
(3)
P 		108.3
(-2.1)
P 		129.6
(-1.7)
P 		58.1
(-3)
P 		343
B 342.3
(3)
P 		91.1
(-3)
P 		90.2
(-3)
P 		135
(-1.9)
P 		252
C 322.5
(3)
P 		128.8
(-2.6)
P 		196.4
(-0.6)
P 		114.3
(-3)
P 		208
avr 355.2
(3) 		109.4
(-2.8) 		138.7
(-2.1) 		102.5
(-3) 		253

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 268
1 2 3 4 5 6 range
A 136.4
(-1.3)
P 		279.4
(3)
P 		79.7
(-3)
P 		92.2
(-2.6)
P 		209.5
(0.9)
P 		134.2
(-1.4)
P 		200
B 304.5
(3)
P 		227.9
(0.6)
P 		116.4
(-3)
P 		156.5
(-1.7)
P 		215.3
(0.2)
P 		275
(2.1)
P 		188
C 348
(3)
P 		254.6
(0.6)
P 		140.3
(-2.4)
P 		116.4
(-3)
P 		156.5
(-2)
P 		191.6
(-1.1)
P 		232
avr 263
(3) 		254
(2.6) 		112.1
(-3) 		121.7
(-2.6) 		193.8
(0.2) 		200.3
(0.5) 		151
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173764_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25852
Sequence Type Exemplar sequence
Representative Public ID AV201655 NCBI
Target Description AV201655 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F47A4.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV201655 /WB_GENE_ID=F47A4.2 /WP=CE16058 /CHR=X /FEA=Genomic Cluster /GEN=sop-1 /DEF=Caenorhabditis elegans cDNA clone:yk539g5 : 5prime 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_077244(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077244 NCBI Caenorhabditis elegans DumPY : shorter than wild-type family member (dpy-22) (dpy-22) mRNA, complete cds. 11/11 None
F47A4.2 ENSEMBL cdna:known chromosome:CEL140:X:9810162:9822101:-1 gene:F47A4.2 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:9810196-9822102(-) 97.54 100.0
Public Domain and Genome References
Gene Title
Gene Symbol dpy-22
Ensembl F47A4.2
Entrez Gene 181194 Entrez gene
SwissProt Q20497 EMBL-EBI
WormBase CE16058 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1586521_AT similar to Mediator of RNA polymerase II transcription subunit 12 (Thyroid hormone receptor-associated protein complex 230 kDa component) (Trap230) (Activator-recruited cofactor 240 KDa component) (ARC240) (CAG repeat protein 45) (OPA-containing pr... cfa
CANINE_2:CFA.6551.1.A1_AT similar to Mediator of RNA polymerase II transcription subunit 12 (Thyroid hormone receptor-associated protein complex 230 kDa component) (Trap230) (Activator-recruited cofactor 240 KDa component) (ARC240) (CAG repeat protein 45) (OPA-containing pr... cfa
CANINE_2:CFAAFFX.25971.1.S1_S_AT similar to Mediator of RNA polymerase II transcription subunit 12 (Thyroid hormone receptor-associated protein complex 230 kDa component) (Trap230) (Activator-recruited cofactor 240 KDa component) (ARC240) (CAG repeat protein 45) (OPA-containing pr... cfa
CANINE_2:CFAAFFX.25976.1.S1_AT similar to Mediator of RNA polymerase II transcription subunit 12 (Thyroid hormone receptor-associated protein complex 230 kDa component) (Trap230) (Activator-recruited cofactor 240 KDa component) (ARC240) (CAG repeat protein 45) (OPA-containing pr... cfa
CHICKEN:GGA.2403.1.S1_AT similar to TNRC11 gga
CHICKEN:GGAAFFX.26547.1.S1_AT similar to TNRC11 gga
CHICKEN:GGAAFFX.26547.2.S1_S_AT similar to TNRC11 gga
CHICKEN:GGAAFFX.26547.3.S1_S_AT similar to TNRC11 gga
CHICKEN:GGAAFFX.3488.1.S1_S_AT similar to TNRC11 gga
HG-U95AV2:40998_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133_PLUS_2:216071_X_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A_2:216071_X_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A:216071_X_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A_2:203506_S_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-FOCUS:203506_S_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A:203506_S_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133_PLUS_2:203506_S_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133_PLUS_2:211342_X_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A:211342_X_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A_2:211342_X_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HU35KSUBA:D83783_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HUGENEFL:D83783_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
U133_X3P:G4827041_3P_A_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A_2:214275_AT Mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133_PLUS_2:214275_AT Mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U133A:214275_AT Mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
HG-U95AV2:40999_AT Mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
U133_X3P:HS.211607.2.A1_3P_AT Mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) hs
MOE430A:1425585_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) mm
MOUSE430A_2:1425585_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) mm
MOUSE430_2:1425585_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) mm
MU11KSUBB:MSA.1037.0_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) mm
MG-U74AV2:103277_S_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) mm
MU11KSUBA:M16362_RC_AT mediator of RNA polymerase II transcription, subunit 12 homolog (yeast) mm
RAE230B:1396430_AT Similar to mediator of RNA polymerase II transcription, subunit 12 homolog (yeast)-like rn
RAT230_2:1396430_AT Similar to mediator of RNA polymerase II transcription, subunit 12 homolog (yeast)-like rn
Protein Similarities
Method ID Description E-Value
blast CAA90064 Hypothetical protein F47A4.2 [Caenorhabditis elegans] ref|NP_509645.1| DumPY : shorter than wild-type family member (dpy-22) [Caenorhabditis elegans] 0.0
blast CAE58715 Hypothetical protein CBG01900 [Caenorhabditis briggsae] 0.0
blast XP_695002 PREDICTED: similar to thyroid hormone receptor associated protein complex component TRAP230/KIAA0192 [Danio rerio] 4.0E-19
Sequence
Target Sequence 
>C. ELEGANS:173764_AT
aaatcagtactaatcatgtcacaattacatatttatattctttcaatgtaccttctctct
ttttatcatttgtgtcaacatccctttttattttatacccccaagtcgtaatacgtgata
ttgcgttttcaagtcatattttccttcaacaaaaatgttcttccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATCAGTACTAATCATGTCACAAT 318 117 10498 Antisense
TGTCACAATTACATATTTATATTCT 282 559 10514 Antisense
ATATTCTTTCAATGTACCTTCTCTC 397 19 10532 Antisense
CTTCTCTCTTTTTATCATTTGTGTC 333 221 10549 Antisense
ATCATTTGTGTCAACATCCCTTTTT 678 29 10562 Antisense
GTGTCAACATCCCTTTTTATTTTAT 133 485 10569 Antisense
TTATACCCCCAAGTCGTAATACGTG 255 613 10590 Antisense
GTAATACGTGATATTGCGTTTTCAA 708 459 10605 Antisense
TTGCGTTTTCAAGTCATATTTTCCT 422 703 10618 Antisense
TTCAAGTCATATTTTCCTTCAACAA 35 685 10625 Antisense
TCCTTCAACAAAAATGTTCTTCCAA 680 591 10639 Antisense
Sequence Source Affymetrix Proprietary Database