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[175621_at]

Description g156469 /REP_DB=GenBank Identifier /GB=M93256.1 /PROTEIN_GB=AAB59181.1 /CHR=3 /FEA=Mapped Transcript
Cluster 6grp_total > 76      4grp_total > 25      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 692
1 2 3 4 range
A 293.5
(-3)
A 		687.1
(3)
P 		409.8
(-1.2)
P 		563.8
(1.1)
A 		394
B 244.7
(-3)
A 		562.3
(1.3)
A 		389.3
(-1.1)
P 		690
(3)
A 		445
C 93.6
(-3)
A 		529.2
(0.8)
A 		600.4
(1.4)
P 		785.6
(3)
A 		692
avr 210.6
(-3) 		592.9
(1.9) 		466.5
(0.3) 		679.8
(3) 		469

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 624
1 2 3 4 5 6 range
A 296.4
(-3)
A 		486.4
(1.8)
A 		436.1
(0.5)
M 		465.7
(1.3)
A 		434.9
(0.5)
A 		533.7
(3)
A 		237
B 258.8
(-3)
A 		440.4
(-0.4)
A 		330.1
(-2)
A 		382.7
(-1.2)
A 		298.5
(-2.4)
A 		671.9
(3)
P 		413
C 47.9
(-3)
A 		306.4
(0)
A 		548.4
(2.9)
M 		275.3
(-0.3)
A 		559.2
(3)
A 		490.6
(2.2)
A 		511
avr 201
(-3) 		411.1
(0.5) 		438.2
(0.9) 		374.6
(-0.1) 		430.9
(0.8) 		565.4
(3) 		364
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 178
1 2 3 4 range
A 106.9
(-0.8)
A 		149.2
(3)
P 		107.1
(-0.8)
P 		82.5
(-3)
A 		67
B 78
(-3)
A 		138.9
(2.3)
A 		90.2
(-1.9)
P 		147
(3)
A 		69
C 31
(-3)
A 		152.2
(1.1)
A 		209.3
(3)
P 		132.5
(0.4)
A 		178
avr 72
(-3) 		146.8
(3) 		135.5
(2.1) 		120.7
(0.9) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 233
1 2 3 4 5 6 range
A 54.6
(-3)
A 		173
(3)
A 		95
(-1)
M 		118.1
(0.2)
A 		131.2
(0.9)
A 		129.9
(0.8)
A 		118
B 90
(-2.7)
A 		146.6
(-0.7)
A 		80.2
(-3)
A 		101.4
(-2.3)
A 		121.3
(-1.6)
A 		250.5
(3)
P 		170
C 17.8
(-3)
A 		93.5
(-0.2)
A 		139.6
(1.5)
M 		55.4
(-1.6)
A 		181
(3)
A 		164.2
(2.4)
A 		163
avr 54.1
(-3) 		137.7
(0.9) 		104.9
(-0.6) 		91.6
(-1.2) 		144.5
(1.3) 		181.5
(3) 		127
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175621_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19769
Sequence Type Exemplar sequence
Representative Public ID 156469 NCBI
Target Description g156469 /REP_DB=GenBank Identifier /GB=M93256.1 /PROTEIN_GB=AAB59181.1 /CHR=3 /FEA=Mapped Transcript
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001027709, NM_001027710
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027710 NCBI Caenorhabditis elegans TRAnsformer : XX animals transformed into males family member (tra-1) (tra-1) mRNA, complete cds. None
GENEFINDER00000007275 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11191159:11193614:-1 None
GENEFINDER00000007278 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11194515:11195184:-1 None
NM_001027709 NCBI Caenorhabditis elegans TRAnsformer : XX animals transformed into males family member (tra-1) (tra-1) mRNA, complete cds. None
Y47D3A.6a ENSEMBL cdna:known chromosome:CEL140:III:11171969:11194937:-1 gene:Y47D3A.6 A 
Y47D3A.6b ENSEMBL cdna:known chromosome:CEL140:III:11181903:11195077:-1 gene:Y47D3A.6 None
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
chrIII:11170759-11195080(-) 91.86 100.0
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
blast AAA91281 transformer protein 1.0E-148
blast CAC42377 Hypothetical protein Y47D3A.6b [Caenorhabditis elegans] ref|NP_001022881.1| TRAnsformer : XX animals transformed into males family member (tra-1) [Caenorhabditis elegans] 1.0E-148
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
Sequence
Target Sequence 
>C. ELEGANS:175621_AT
cgcccaccacttgcaacaaatttgtttttattttcttttttattttttatttttttgttt
tttaattctccccaaaaaatctcgctctctatcccaattcttaaccgttttctatccgag
ccgcccgaaaattgtgctccgtccatttttttttctatgaattgaattttttttcttctc
aaaaaacccccatgattcgttttttcgtatctctgcatctctctccccgttctctgcaaa
atttgaacaaaattgtatatcccccaccgctgaaatagttttcaaaaaacatcacccccc
tccactcactagttttccattagattcaccccctgtttttttcctggaaaatcgataatt
ttcgaggttggaatttcctcgaaaattatcgattttccactgtttccagtctgtcacaac
atatctgtcactctctgtcctttcccaatttttctgaaaatttcaaattttctacgcact
tttttaaatttttttttctctgtccccccgtctcccgtgatgttccaaatattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCCCACCACTTGCAACAAATTTGT 91 257 4131 Antisense
CGAGCCGCCCGAAAATTGTGCTCCG 493 251 4247 Antisense
TTTCTTCTCAAAAAACCCCCATGAT 650 671 4302 Antisense
ATTCGTTTTTTCGTATCTCTGCATC 623 9 4325 Antisense
TGAACAAAATTGTATATCCCCCACC 446 573 4374 Antisense
TCCCCCACCGCTGAAATAGTTTTCA 192 597 4390 Antisense
CTCCACTCACTAGTTTTCCATTAGA 492 235 4430 Antisense
AATTATCGATTTTCCACTGTTTCCA 378 175 4514 Antisense
CACTGTTTCCAGTCTGTCACAACAT 106 199 4528 Antisense
CACAACATATCTGTCACTCTCTGTC 361 195 4545 Antisense
GTCTCCCGTGATGTTCCAAATATTT 699 469 4640 Antisense
Sequence Source GenBank