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[187986_s_at]

Description F47A4.2 /REP_DB=WormBase Gene ID /WP=CE16058 /GEN=sop-1 /TR=Q20497 /GB=CAA90064.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 27      4grp_highest_8_8 > 52      4grp_high_8_8 > 17      6grp_highest_nonorm > 70      6grp_total > 17      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 11      6grp_high1_sub > Cu      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 286
1 2 3 4 range
A 509.8
(3)
P 		273
(-2)
P 		223.5
(-3)
P 		350.2
(-0.3)
P 		286
B 449.2
(3)
P 		298.4
(-1.3)
P 		236.5
(-3)
P 		294.9
(-1.4)
P 		213
C 470.1
(3)
P 		267.9
(-2.6)
P 		252.4
(-3)
P 		408
(1.3)
P 		218
avr 476.4
(3) 		279.8
(-1.9) 		237.5
(-3) 		351
(-0.1) 		239

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 287
1 2 3 4 5 6 range
A 354.9
(3)
P 		309
(1.3)
P 		197.1
(-3)
P 		225.3
(-1.9)
P 		245.4
(-1.2)
P 		348.6
(2.8)
P 		158
B 427.1
(3)
P 		337.4
(0.3)
P 		304.7
(-0.7)
P 		316.1
(-0.3)
P 		227
(-3)
P 		270.1
(-1.7)
P 		200
C 456.8
(3)
P 		324.3
(0.2)
P 		388
(1.6)
P 		170.2
(-3)
P 		263.7
(-1)
P 		206.2
(-2.2)
P 		287
avr 412.9
(3) 		323.6
(-0) 		296.6
(-1) 		237.2
(-3) 		245.4
(-2.7) 		275
(-1.7) 		176
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 134
1 2 3 4 range
A 185.6
(3)
P 		59.3
(-2.6)
P 		58.4
(-2.7)
P 		51.3
(-3)
P 		134
B 143.2
(3)
P 		73.7
(-1.7)
P 		54.8
(-3)
P 		62.9
(-2.5)
P 		88
C 155.6
(3)
P 		77
(-2.4)
P 		88
(-1.7)
P 		68.8
(-3)
P 		87
avr 161.5
(3) 		70
(-2.5) 		67.1
(-2.6) 		61
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 65.4
(-1)
P 		109.9
(3)
P 		42.9
(-3)
P 		57.1
(-1.7)
P 		74.1
(-0.2)
P 		84.9
(0.8)
P 		67
B 148.6
(3)
P 		112.3
(0.1)
P 		74
(-3)
P 		83.7
(-2.2)
P 		92.2
(-1.5)
P 		100.7
(-0.9)
P 		75
C 169.3
(3)
P 		98.9
(-0.1)
P 		98.8
(-0.1)
P 		34.2
(-3)
P 		85.3
(-0.7)
P 		69
(-1.5)
P 		135
avr 127.8
(3) 		107
(1.2) 		71.9
(-1.8) 		58.3
(-3) 		83.9
(-0.8) 		84.9
(-0.7) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187986_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17225
Sequence Type Exemplar sequence
Representative Public ID F47A4.2 NCBI
Target Description F47A4.2 /REP_DB=WormBase Gene ID /WP=CE16058 /GEN=sop-1 /TR=Q20497 /GB=CAA90064.1 /SUBMIT=HINXTON /CHR=X /FEA=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_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
SNAP00000039706 ENSEMBL cdna:SNAP chromosome:CEL140:X:9810400:9822591:-1 11/11 None
GENEFINDER00000039710 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9810400:9829773:-1 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:9810399-9822101(-) 97.49 100.0
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 CAA90063 Hypothetical protein F47A4.3a [Caenorhabditis elegans] ref|NP_001024683.1| F47A4.3a [Caenorhabditis elegans] 0.0
blast XP_695002 PREDICTED: similar to thyroid hormone receptor associated protein complex component TRAP230/KIAA0192 [Danio rerio] 4.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR000198 EMBL-EBI RhoGAP domain 1.3E-62
Sequence
Target Sequence 
>C. ELEGANS:187986_S_AT
gcaggtgcaacgtgggatgccaaccggaatgggacaaacaaatatgggacagtctggaat
gggacaatctggaatgggacagaccggcatgagccgctcaggactgggaggtggaattgg
tcaacaaggccagcaatcacagcaaccacagcagccacaagtgtcccaacaacagaacca
gcgtggcatgaaccccggcgcacaacttccaccttactcaacaggccagcaacagcatca
acctcaacaatcccaaatttctcaacaacagcagcaacaggatcaatatcgaagaatgca
ggcggcacaaatgcagcagcaaccaactgcacaaggacaacaaaatcgaatgggaatgcc
ttctcagcagcagtcaggagctgcttatagcaatcaaatgcagtttcaaggagtgagaca
aggacaacaaggaatgggtggaatgggtggctccgggcaacaacagccacaaacgcaacc
gcatggatccaatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGGTGCAACGTGGGATGCCAACC 648 311 9894 Antisense
GGAATGGGACAGACCGGCATGAGCC 146 533 9964 Antisense
GGCATGAGCCGCTCAGGACTGGGAG 647 535 9979 Antisense
AACAAGGCCAGCAATCACAGCAACC 509 133 10016 Antisense
GCCACAAGTGTCCCAACAACAGAAC 23 277 10047 Antisense
ACAGAACCAGCGTGGCATGAACCCC 511 107 10065 Antisense
TACTCAACAGGCCAGCAACAGCATC 277 645 10108 Antisense
CAACCTCAACAATCCCAAATTTCTC 188 185 10132 Antisense
GCCTTCTCAGCAGCAGTCAGGAGCT 671 281 10251 Antisense
GGTGGCTCCGGGCAACAACAGCCAC 635 497 10339 Antisense
AAACGCAACCGCATGGATCCAATCA 94 127 10364 Antisense
Sequence Source Affymetrix Proprietary Database