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[174364_at]

Description C36060_rc /REP_DB=TREMBL Accession /GB=C36060 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk453f3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 41      6grp_high1_10_10 > 03      4grp_highest_8_8 > 60      4grp_high_8_8 > 25      6grp_highest_nonorm > 31      6grp_total > 25      4grp_total > 38      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 959
1 2 3 4 range
A 1417.5
(3)
P 		911.3
(-0.2)
P 		476.1
(-3)
P 		691
(-1.6)
P 		941
B 1353.7
(3)
P 		717.5
(-1.3)
P 		458.6
(-3)
P 		910.5
(0)
P 		895
C 1369.1
(3)
P 		523.6
(-2.6)
P 		463.8
(-3)
P 		804.9
(-0.7)
P 		905
avr 1380.1
(3) 		717.5
(-1.4) 		466.2
(-3) 		802.1
(-0.8) 		914

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1067
1 2 3 4 5 6 range
A 1468.5
(3)
P 		1104.4
(1)
P 		708
(-1.3)
P 		401.6
(-3)
P 		663.1
(-1.5)
P 		695.4
(-1.3)
P 		1067
B 1186.2
(2.5)
P 		1235.2
(2.9)
P 		1244.2
(3)
P 		627.9
(-2)
P 		503.5
(-3)
P 		690.7
(-1.5)
P 		741
C 1371.4
(3)
P 		1123.2
(1.3)
P 		1012.1
(0.5)
P 		626.1
(-2.2)
P 		506.7
(-3)
P 		611.3
(-2.3)
P 		865
avr 1342
(3) 		1154.3
(1.6) 		988.1
(0.3) 		551.9
(-3) 		557.8
(-3) 		665.8
(-2.1) 		790
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 415
1 2 3 4 range
A 516.1
(3)
P 		197.8
(-1.6)
P 		124.5
(-2.7)
P 		101.1
(-3)
P 		415
B 431.7
(3)
P 		177.2
(-1.7)
P 		106.3
(-3)
P 		194
(-1.4)
P 		325
C 453.2
(3)
P 		150.5
(-2.7)
P 		161.7
(-2.5)
P 		135.7
(-3)
P 		318
avr 467
(3) 		175.2
(-2.2) 		130.8
(-3) 		143.6
(-2.8) 		336

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 406
1 2 3 4 5 6 range
A 270.7
(0.5)
P 		392.8
(3)
P 		154.2
(-1.9)
P 		101.9
(-3)
P 		200.1
(-1)
P 		169.3
(-1.6)
P 		291
B 412.7
(3)
P 		411.2
(3)
P 		302.1
(0.3)
P 		166.3
(-3)
P 		204.6
(-2.1)
P 		257.6
(-0.8)
P 		246
C 508.3
(3)
P 		342.7
(0.4)
P 		257.6
(-0.9)
P 		125.9
(-3)
P 		164
(-2.4)
P 		204.6
(-1.8)
P 		382
avr 397.2
(3) 		382.2
(2.7) 		238
(-0.6) 		131.4
(-3) 		189.6
(-1.7) 		210.5
(-1.2) 		266
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174364_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20389
Sequence Type Exemplar sequence
Representative Public ID C36060 NCBI
Target Description C36060_rc /REP_DB=TREMBL Accession /GB=C36060 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk453f3 : 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_182054(11), NM_058947(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182054 NCBI Caenorhabditis elegans Y47D9A.2b (Y47D9A.2) mRNA, complete cds. 11/11 None
NM_058947 NCBI Caenorhabditis elegans Y47D9A.2a (Y47D9A.2) mRNA, complete cds. 11/11 None
Y47D9A.2b ENSEMBL cdna:known chromosome:CEL140:I:4298260:4302243:1 gene:Y47D9A.2 11/11 A 
Y47D9A.2a ENSEMBL cdna:known chromosome:CEL140:I:4298627:4302236:1 gene:Y47D9A.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000009721 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:4301886-4302166(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y47D9A.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAO21411 Hypothetical protein Y47D9A.2b [Caenorhabditis elegans] ref|NP_871854.1| Y47D9A.2b [Caenorhabditis elegans] 0.0
blast AAF60646 Hypothetical protein Y47D9A.2a [Caenorhabditis elegans] ref|NP_491348.1| Y47D9A.2a [Caenorhabditis elegans] 1.0E-167
blast AAF60646 Hypothetical protein Y47D9A.2a [Caenorhabditis elegans] ref|NP_491348.1| Y47D9A.2a [Caenorhabditis elegans] 1.0E-163
blast AAO21411 Hypothetical protein Y47D9A.2b [Caenorhabditis elegans] ref|NP_871854.1| Y47D9A.2b [Caenorhabditis elegans] 1.0E-163
blast CAE66820 Hypothetical protein CBG12185 [Caenorhabditis briggsae] 1.0E-123
Protein Domains
Database ID Description E-Value
Pfam IPR004274 EMBL-EBI NLI interacting factor 1.7E-54
Pfam IPR004274 EMBL-EBI NLI interacting factor 6.2E-58
Sequence
Target Sequence 
>C. ELEGANS:174364_AT
cttccacttattaccttcattgtttgtttcaattttttctttttccttcacagccgtcta
aacccccatacatttaaatgatctgcatacattttcccccaaaaaaccgtctcagatact
ctctccccaataactactcgttttttaatgcacaatgtgccatttatatatcactcatat
tccctctaattttcggtgtcaaagtctccattttaatgcaaccccagtgacgagaacgaa
tc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCCACTTATTACCTTCATTGTTT 394 219 19 Antisense
GTCTAAACCCCCATACATTTAAATG 523 1 74 Antisense
AAATGATCTGCATACATTTTCCCCC 619 119 94 Antisense
AAAAAACCGTCTCAGATACTCTCTC 246 127 119 Antisense
AACTACTCGTTTTTTAATGCACAAT 17 141 150 Antisense
GCACAATGTGCCATTTATATATCAC 614 317 168 Antisense
TATATATCACTCATATTCCCTCTAA 648 661 183 Antisense
ACTCATATTCCCTCTAATTTTCGGT 321 99 191 Antisense
ATTTTCGGTGTCAAAGTCTCCATTT 265 15 207 Antisense
GTCTCCATTTTAATGCAACCCCAGT 303 469 222 Antisense
GCAACCCCAGTGACGAGAACGAATC 100 321 236 Antisense
Sequence Source Affymetrix Proprietary Database