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[173555_at]

Description C61992 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R13F6.10 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C61992 /WB_GENE_ID=R13F6.10 /WP=CE25084 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk272d10 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 25      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 75      6grp_total > 03      4grp_total > 60      6grp_high1_sub > 01_02      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1269
1 2 3 4 range
A 1518.6
(2.9)
P 		1541.9
(3)
P 		1372.6
(2.1)
P 		434.9
(-3)
P 		1107
B 1389.3
(2.1)
P 		1587.1
(3)
P 		1153.1
(0.9)
P 		318.2
(-3)
P 		1269
C 1085
(1)
P 		1231.2
(2)
P 		1394
(3)
P 		461.9
(-3)
P 		932
avr 1331
(2.3) 		1453.4
(3) 		1306.6
(2.2) 		405
(-3) 		1048

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 663
1 2 3 4 5 6 range
A 1152.6
(1.7)
P 		826.1
(-1.6)
P 		826.1
(-1.6)
P 		687.8
(-3)
P 		1280.5
(3)
P 		822
(-1.6)
P 		593
B 1067.7
(1.4)
P 		1044.1
(1.2)
P 		617.8
(-3)
P 		1230.3
(3)
P 		796
(-1.3)
P 		1169.2
(2.4)
P 		613
C 824.2
(-0.9)
P 		1199
(3)
P 		809.6
(-1.1)
P 		1044.1
(1.4)
P 		623
(-3)
P 		698.5
(-2.2)
P 		576
avr 1014.8
(2.8) 		1023.1
(3) 		751.2
(-3) 		987.4
(2.2) 		899.8
(0.3) 		896.6
(0.2) 		272
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 489
1 2 3 4 range
A 552.9
(3)
P 		334.7
(0.3)
P 		358.8
(0.6)
P 		63.7
(-3)
P 		489
B 443
(3)
P 		392
(2.2)
P 		267.2
(0.2)
P 		67.8
(-3)
P 		375
C 359.2
(1.1)
P 		354
(1.1)
P 		485.9
(3)
P 		77.9
(-3)
P 		408
avr 451.7
(3) 		360.2
(1.6) 		370.6
(1.7) 		69.8
(-3) 		382

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 286
1 2 3 4 5 6 range
A 212.5
(-1.9)
P 		293.8
(0.4)
P 		179.9
(-2.8)
P 		174.5
(-3)
P 		386.4
(3)
P 		200.1
(-2.3)
P 		212
B 371.5
(1.6)
P 		347.6
(1.1)
P 		150
(-3)
P 		325.9
(0.7)
P 		323.4
(0.6)
P 		436
(3)
P 		286
C 305.5
(0.8)
P 		365.9
(3)
P 		206.1
(-2.8)
P 		210
(-2.7)
P 		201.6
(-3)
P 		233.8
(-1.8)
P 		164
avr 296.5
(1.5) 		335.8
(3) 		178.7
(-3) 		236.8
(-0.8) 		303.8
(1.8) 		290
(1.3) 		157
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173555_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24106
Sequence Type Exemplar sequence
Representative Public ID C61992 NCBI
Target Description C61992 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R13F6.10 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C61992 /WB_GENE_ID=R13F6.10 /WP=CE25084 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk272d10 : 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_066093(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066093 NCBI Caenorhabditis elegans R13F6.10 (R13F6.10) mRNA, complete cds. 11/11 None
R13F6.10 ENSEMBL cdna:known chromosome:CEL140:III:6865154:6869354:-1 gene:R13F6.10 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
chrIII:6865163-6869315(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R13F6.10
Entrez Gene 175956 Entrez gene
SwissProt Q21986 EMBL-EBI
WormBase CE31579 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.13942.1.S1_AT similar to CG4845-PA cfa
CANINE_2:CFAAFFX.13944.1.S1_S_AT similar to CG4845-PA cfa
DROSOPHILA_2:1638158_AT dm
DROSGENOME1:150239_AT dm
HG-U133_PLUS_2:227245_AT hypothetical protein FLJ13089 hs
HG-U133B:227245_AT hypothetical protein FLJ13089 hs
HU35KSUBA:RC_AA149585_AT hypothetical protein FLJ13089 hs
HU35KSUBC:RC_N35258_AT hypothetical protein FLJ13089 hs
HU35KSUBC:RC_AA286941_AT hypothetical protein FLJ13089 hs
U133_X3P:HS.314063.0.A1_3P_AT hypothetical protein FLJ13089 hs
U133_X3P:HS.285711.1.A1_3P_AT hypothetical protein FLJ13089 hs
U133_X3P:HS.285711.0.A1_3P_AT hypothetical protein FLJ13089 hs
HG-U133_PLUS_2:225888_AT hypothetical protein FLJ13089 hs
HG-U133B:225888_AT hypothetical protein FLJ13089 hs
HG-U133_PLUS_2:236816_AT hypothetical protein FLJ13089 hs
HG-U133B:236816_AT hypothetical protein FLJ13089 hs
HG-U95B:47493_AT hypothetical protein FLJ13089 hs
HG-U95C:63077_AT hypothetical protein FLJ13089 hs
HG-U95C:64382_AT hypothetical protein FLJ13089 hs
HG-U95E:85746_AT Hypothetical protein FLJ13089 hs
MG-U74BV2:104921_AT RIKEN cDNA C330023M02 gene mm
MG-U74BV2:115877_AT RIKEN cDNA C330023M02 gene mm
MG-U74BV2:163287_AT RIKEN cDNA C330023M02 gene mm
MG-U74BV2:162674_AT RIKEN cDNA C330023M02 gene mm
MOE430B:1433766_AT RIKEN cDNA C330023M02 gene mm
MOUSE430_2:1433766_AT RIKEN cDNA C330023M02 gene mm
MOE430B:1439027_AT RIKEN cDNA C330023M02 gene mm
MOUSE430_2:1439027_AT RIKEN cDNA C330023M02 gene mm
MOE430B:1445212_AT RIKEN cDNA C330023M02 gene, mRNA (cDNA clone IMAGE:4458590) mm
MOUSE430_2:1445212_AT RIKEN cDNA C330023M02 gene, mRNA (cDNA clone IMAGE:4458590) mm
RAE230B:1378980_AT similar to hypothetical protein FLJ13089 (predicted) rn
RAT230_2:1378980_AT similar to hypothetical protein FLJ13089 (predicted) rn
RAE230B:1383446_AT similar to hypothetical protein FLJ13089 (predicted) rn
RAT230_2:1383446_AT similar to hypothetical protein FLJ13089 (predicted) rn
RAE230B:1384553_AT similar to hypothetical protein FLJ13089 (predicted) rn
RAT230_2:1384553_AT similar to hypothetical protein FLJ13089 (predicted) rn
RAE230B:1385066_A_AT Similar to hypothetical protein FLJ13089 (predicted) rn
RAT230_2:1385066_A_AT Similar to hypothetical protein FLJ13089 (predicted) rn
RAE230B:1395524_AT Similar to hypothetical protein FLJ13089 (predicted) rn
RAT230_2:1395524_AT Similar to hypothetical protein FLJ13089 (predicted) rn
RG-U34B:RC_AI044779_AT Similar to hypothetical protein FLJ13089 (predicted) rn
RG-U34C:RC_AI178736_AT Similar to hypothetical protein FLJ13089 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast NP_498494 R13F6.10 [Caenorhabditis elegans] gb|AAC47049.3| Hypothetical protein R13F6.10 [Caenorhabditis elegans] sp|Q21986|YNQA_CAEEL Hypothetical protein R13F6.10 in chromosome III 0.0
blast T16751 hypothetical protein R13F6.10 - Caenorhabditis elegans 0.0
blast CAE70097 Hypothetical protein CBG16540 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.ArsR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; ArsR-like transcriptional regulators 6.09999990463257
Sequence
Target Sequence 
>C. ELEGANS:173555_AT
gtttcagaatatttagacgttgttttttgttcatctaggctccttattttttaggctcct
tatttattaatttgttcttttttttttcaaatttgtagtagctccccgaattgtttgtcc
ccatctctaaacataatcatttgagttcatcatcgttggatctctacagatcaatctttc
gccttttctttcttcccccgatgacgtttttcttcctccaaaataccgatttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTCAGAATATTTAGACGTTGTTT 18 449 2850 Antisense
TTTAGACGTTGTTTTTTGTTCATCT 627 673 2861 Antisense
TTTTGTTCATCTAGGCTCCTTATTT 186 679 2874 Antisense
GCTCCTTATTTTTTAGGCTCCTTAT 609 297 2888 Antisense
ATTGTTTGTCCCCATCTCTAAACAT 81 3 2959 Antisense
GTCCCCATCTCTAAACATAATCATT 40 477 2966 Antisense
TAATCATTTGAGTTCATCATCGTTG 270 635 2983 Antisense
GTTCATCATCGTTGGATCTCTACAG 23 445 2994 Antisense
ATCTCTACAGATCAATCTTTCGCCT 164 33 3009 Antisense
TACAGATCAATCTTTCGCCTTTTCT 707 643 3014 Antisense
TTCTTCCTCCAAAATACCGATTTCA 70 681 3059 Antisense
Sequence Source Affymetrix Proprietary Database