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[188843_s_at]

Description Y47D3A.6 /REP_DB=WormBase Gene ID /WP=CE25303 /CHR=3 /FEA=Sanger Annotation /DEF=locus:tra-1 (HINXTON) TR:Q9U2C0 protein_id:CAB61040.1
Cluster 6grp_total > 75      4grp_total > 27      6grp_cgc > 66      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 18.2
(-3)
A 		79.2
(1.1)
A 		22.5
(-2.7)
A 		106.6
(3)
A 		88
B 18.4
(-3)
A 		93.6
(2.3)
A 		35.5
(-1.8)
A 		104.1
(3)
A 		86
C 39
(-3)
A 		92
(1.3)
A 		39.2
(-3)
A 		113.4
(3)
A 		74
avr 25.2
(-3) 		88.3
(1.6) 		32.4
(-2.5) 		108
(3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 11.2
(-3)
A 		28.9
(0.8)
A 		14.2
(-2.4)
A 		13.5
(-2.5)
A 		26.2
(0.2)
A 		39.1
(3)
A 		28
B 15.9
(-2.4)
A 		32.1
(-0.4)
A 		16.6
(-2.3)
A 		59.9
(3)
A 		14.9
(-2.5)
A 		11
(-3)
A 		49
C 15.9
(-3)
A 		20.2
(-2)
A 		18.7
(-2.3)
A 		16.1
(-3)
A 		17
(-2.7)
A 		40.5
(3)
A 		25
avr 14.3
(-3) 		27.1
(1.8) 		16.5
(-2.2) 		29.8
(2.8) 		19.4
(-1.1) 		30.2
(3) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 6.6
(-2.6)
A 		17.2
(3)
A 		5.9
(-3)
A 		15.6
(2.2)
A 		11
B 5.9
(-3)
A 		23.1
(3)
A 		8.2
(-2.2)
A 		22.2
(2.7)
A 		17
C 12.9
(-3)
A 		26.5
(3)
A 		13.6
(-2.7)
A 		19.1
(-0.3)
A 		14
avr 8.5
(-3) 		22.3
(3) 		9.2
(-2.7) 		19
(1.6) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 2.1
(-3)
A 		10.3
(3)
A 		3.1
(-2.3)
A 		3.4
(-2)
A 		7.9
(1.2)
A 		9.5
(2.4)
A 		8
B 5.5
(-2.2)
A 		10.7
(0.4)
A 		4
(-3)
A 		15.9
(3)
A 		6.1
(-1.9)
A 		4.1
(-2.9)
A 		12
C 5.9
(-1.4)
A 		6.2
(-1.3)
A 		4.8
(-2.1)
A 		3.2
(-3)
A 		5.5
(-1.7)
A 		13.6
(3)
A 		10
avr 4.5
(-2.4) 		9.1
(3) 		4
(-3) 		7.5
(1.1) 		6.5
(-0.1) 		9.1
(3) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188843_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6150
Sequence Type Exemplar sequence
Representative Public ID Y47D3A.6 NCBI
Target Description Y47D3A.6 /REP_DB=WormBase Gene ID /WP=CE25303 /CHR=3 /FEA=Sanger Annotation /DEF=locus:tra-1 (HINXTON) TR:Q9U2C0 protein_id:CAB61040.1
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_001027709(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027709 NCBI Caenorhabditis elegans TRAnsformer : XX animals transformed into males family member (tra-1) (tra-1) mRNA, complete cds. 11/11 None
SNAP00000007206 ENSEMBL cdna:SNAP chromosome:CEL140:III:11171969:11184191:-1 11/11 None
GENEFINDER00000007272 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11171969:11176699:-1 11/11 None
Y47D3A.6a ENSEMBL cdna:known chromosome:CEL140:III:11171969:11194937:-1 gene:Y47D3A.6 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
176548 2 1 NM_001027709 188843_s_at (11)
NM_001027710 175693_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:11171964-11194933(-) 98.4 100.0
Public Domain and Genome References
Ensembl Y47D3A.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast P34708 Sex-determining transformer protein 1 gb|AAB59181.1| tra-1 0.0
blast CAB61040 Hypothetical protein Y47D3A.6a [Caenorhabditis elegans] ref|NP_001022880.1| TRAnsformer : XX animals transformed into males family member (tra-1) [Caenorhabditis elegans] 0.0
blast T31538 hypothetical protein Y47D3A.6 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.2E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.4E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.5E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.2E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.4E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.5E-6
Sequence
Target Sequence 
>C. ELEGANS:188843_S_AT
tatcctccgatggtggtggtggtagagactgagagtccgcagattgtgagagatcaagaa
atgatgagacaatttgaagaggcgaagaaaaatgttgagacggatgagattaagaagcga
gctgaagctatgcagtttggaacctccagcagccaccatcacacaaaaacgcttcttatt
caacgtgcgttattcgataaaacgagctcagtgcgtcgaagtcttctccaattcatcaca
atctctgttgatcaggaagagctccgtcagagctgccacgcgacgtcggctccgcaggga
gctcatgttgtgcacaatgtggttgatgaattcgacagtatcatgcgtgcacaagaagac
tcgaacaaccgtattcttctttctttggacatccccgctccatcagcagtcacgggagtc
tccggctccattacccatgccgataattcggctctccagctccagcaggagcaaccgaca
tcctcattctcgtcgtggttcccagaagatgatccgatctacgcgttacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATCCTCCGATGGTGGTGGTGGTAG 653 647 2758 Antisense
CCACCATCACACAAAAACGCTTCTT 89 275 2910 Antisense
CGAGCTCAGTGCGTCGAAGTCTTCT 93 251 2960 Antisense
GGAAGAGCTCCGTCAGAGCTGCCAC 510 529 3012 Antisense
TCCGCAGGGAGCTCATGTTGTGCAC 155 597 3048 Antisense
GAATTCGACAGTATCATGCGTGCAC 344 323 3085 Antisense
CTCGAACAACCGTATTCTTCTTTCT 321 233 3117 Antisense
CATCAGCAGTCACGGGAGTCTCCGG 109 213 3158 Antisense
TCCATTACCCATGCCGATAATTCGG 8 591 3184 Antisense
ATTCTCGTCGTGGTTCCCAGAAGAT 707 9 3243 Antisense
AAGATGATCCGATCTACGCGTTACC 398 155 3263 Antisense
Sequence Source Affymetrix Proprietary Database