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[178611_at]

Description F59C6.4 /REP_DB=WormBase Gene ID /WP=CE11462 /TR=Q93830 /GB=CAB01875.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 68      6grp_high1_10_10 > 85      4grp_highest_8_8 > 22      4grp_high_8_8 > 07      6grp_highest_nonorm > 96      6grp_total > 76      4grp_total > 0      6grp_highest_sub > In      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 442
1 2 3 4 range
A 670
(-1.9)
P 		615.9
(-2.9)
P 		609.9
(-3)
P 		932.8
(3)
P 		323
B 728.4
(-1.6)
P 		632.6
(-3)
P 		774.9
(-1)
P 		1049.5
(3)
P 		417
C 679.1
(-1.9)
P 		608
(-3)
P 		788.1
(-0.1)
P 		981.2
(3)
P 		373
avr 692.5
(-1.8) 		618.8
(-3) 		724.3
(-1.3) 		987.8
(3) 		369

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 816
1 2 3 4 5 6 range
A 560.6
(-3)
P 		740.5
(-0.5)
P 		921.3
(2.1)
P 		720.4
(-0.8)
P 		933.1
(2.2)
P 		987
(3)
P 		426
B 692.6
(-3)
P 		882.5
(-1)
P 		1056
(0.9)
P 		812.9
(-1.7)
P 		947.5
(-0.3)
P 		1249.9
(3)
P 		557
C 580.8
(-3)
P 		797.2
(-1.4)
P 		646.6
(-2.5)
P 		855.5
(-0.9)
P 		926.3
(-0.4)
P 		1376.3
(3)
P 		796
avr 611.3
(-3) 		806.7
(-1) 		874.6
(-0.3) 		796.3
(-1.1) 		935.6
(0.3) 		1204.4
(3) 		593
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 244
(3)
P 		133.7
(-3)
P 		159.4
(-1.6)
P 		136.5
(-2.8)
P 		110
B 232.3
(3)
P 		156.2
(-3)
P 		179.6
(-1.2)
P 		223.7
(2.3)
P 		76
C 224.8
(0.3)
P 		174.8
(-2.5)
P 		274.7
(3)
P 		165.4
(-3)
P 		109
avr 233.7
(3) 		154.9
(-3) 		204.6
(0.8) 		175.2
(-1.5) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 363
1 2 3 4 5 6 range
A 103.3
(-3)
P 		263.4
(2.4)
P 		200.6
(0.3)
P 		182.7
(-0.3)
P 		281.6
(3)
P 		240.3
(1.6)
P 		178
B 241
(-2.4)
P 		293.7
(-1.1)
P 		256.4
(-2)
P 		215.3
(-3)
P 		385
(1.1)
P 		466.1
(3)
P 		251
C 215.3
(-2)
P 		243.2
(-1.4)
P 		164.6
(-3)
P 		172
(-2.9)
P 		299.7
(-0.3)
P 		460.7
(3)
P 		296
avr 186.5
(-3) 		266.8
(-0.6) 		207.2
(-2.4) 		190
(-2.9) 		322.1
(1) 		389
(3) 		203
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178611_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1535
Sequence Type Exemplar sequence
Representative Public ID F59C6.4 NCBI
Target Description F59C6.4 /REP_DB=WormBase Gene ID /WP=CE11462 /TR=Q93830 /GB=CAB01875.1 /SUBMIT=HINXTON /CHR=1 /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_060350(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060350 NCBI Caenorhabditis elegans F59C6.4 (F59C6.4) mRNA, complete cds. 11/11 None
SNAP00000029120 ENSEMBL cdna:SNAP chromosome:CEL140:I:10526502:10527282:1 11/11 None
GENEFINDER00000029131 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10526502:10527282:1 11/11 None
F59C6.4 ENSEMBL cdna:known chromosome:CEL140:I:10526498:10527282:1 gene:F59C6.4 11/11 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
chrI:10526432-10527213(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F59C6.4
Entrez Gene 186604 Entrez gene
SwissProt Q93830 EMBL-EBI
WormBase CE11462 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13929_G_AT exonuclease-related at
ATGENOME1:17712_AT exonuclease-related at
ATH1-121501:265614_AT exonuclease-related at
CANINE_2:CFAAFFX.4443.1.S1_AT similar to Exosome complex exonuclease RRP40 (Ribosomal RNA processing protein 40) (Exosome component 3) (p10) cfa
DROSOPHILA_2:1637923_AT dm
CHICKEN:GGA.5308.1.S1_AT exosome component 3 gga
HG-U133_PLUS_2:223490_S_AT exosome component 3 hs
HG-U133B:223490_S_AT exosome component 3 hs
U133_X3P:G8927587_3P_A_AT exosome component 3 hs
U133_X3P:HS.177677.2.A1_3P_X_AT exosome component 3 hs
U133_X3P:HS.177677.0.S1_3P_X_AT exosome component 3 hs
U133_X3P:HS.177677.0.S1_3P_A_AT exosome component 3 hs
HG-U133_PLUS_2:223489_X_AT exosome component 3 hs
HG-U133B:223489_X_AT exosome component 3 hs
HG-U133_PLUS_2:227916_X_AT exosome component 3 hs
HG-U133B:227916_X_AT exosome component 3 hs
HG-U95C:49319_S_AT exosome component 3 hs
HG-U95C:63613_AT exosome component 3 hs
HG-U95E:86699_AT exosome component 3 hs
HG-U133_PLUS_2:233495_AT exosome component 3 hs
HG-U133B:233495_AT exosome component 3 hs
HG-U133_PLUS_2:227912_S_AT Exosome component 3 hs
HG-U133B:227912_S_AT Exosome component 3 hs
HG-U133_PLUS_2:227913_AT Exosome component 3 hs
HG-U133B:227913_AT Exosome component 3 hs
HG-U95C:49312_AT Exosome component 3 hs
HG-U95C:49313_G_AT Exosome component 3 hs
HU35KSUBA:AA477676_AT Exosome component 3 hs
HU35KSUBB:RC_AA057832_AT Exosome component 3 hs
HU35KSUBC:RC_AA486084_AT Exosome component 3 hs
U133_X3P:HS.177677.1.A1_3P_AT Exosome component 3 hs
MOUSE430_2:1431502_A_AT exosome component 3 mm
MOE430B:1431502_A_AT exosome component 3 mm
MG-U74BV2:110303_AT exosome component 3 mm
MU19KSUBB:TC27718_AT Exosome component 3, mRNA (cDNA clone MGC:29324 IMAGE:5012335) mm
RG-U34B:RC_AI007868_AT exosome component 3 (predicted) rn
RAE230B:1392111_AT exosome component 3 (predicted) rn
RAT230_2:1392111_AT exosome component 3 (predicted) rn
RAE230B:1392665_AT exosome component 3 (predicted) rn
RAT230_2:1392665_AT exosome component 3 (predicted) rn
YEAST_2:1771372_AT Protein involved in rRNA processing; component of the exosome 3->5 exonuclease complex Sc
Protein Similarities
Method ID Description E-Value
blast CAB01875 Hypothetical protein F59C6.4 [Caenorhabditis elegans] ref|NP_492751.1| F59C6.4 [Caenorhabditis elegans] 1.0E-113
blast CAE58956 Hypothetical protein CBG02224 [Caenorhabditis briggsae] 1.0E-101
blast XP_421510 PREDICTED: similar to Exosome complex exonuclease RRP40 (Ribosomal RNA processing protein 40) (Exosome component 3) (p10) (CGI-102) [Gallus gallus] 4.0E-37
Sequence
Target Sequence 
>C. ELEGANS:178611_AT
cgagaattgccactcaacctggagctttccacaacgatgatggaaaagtctggttaaatg
ttcacagcaaaagatatataccacaggaaggagaccgagtaatcgctattgtcacttcaa
aaactggtgatttctttcgtttggacataggaactgccgaatacgccatgatcaacttta
ctaacttcgaaggtgctactaaaaggaataggccgaatctaaaaactggagatattattt
atgcaacagttttcgacacaactccaagaactgaagcagagcttacctgtgtggatgacg
agaaacgagcacgtggaatgggacagctaaatggaggattcatgttcaaagtctccttga
atcattgtcgtcgactaatcaacccatcttgcaaaattcttcaaactgttggcaagttct
tcaaattcgaaatcactgttggaatgaacggaagaatctggattagtgcttcgacttctg
atgatattatcaagattcacgatattatcaataaatcagagtttatcactgacgaagatg
agcttatcaccctggttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAGAATTGCCACTCAACCTGGAGC 638 249 104 Antisense
CAACCTGGAGCTTTCCACAACGATG 218 187 118 Antisense
GACCGAGTAATCGCTATTGTCACTT 189 381 196 Antisense
ACTGGTGATTTCTTTCGTTTGGACA 393 95 226 Antisense
GGAACTGCCGAATACGCCATGATCA 356 529 253 Antisense
GCAACAGTTTTCGACACAACTCCAA 558 319 346 Antisense
GAAGCAGAGCTTACCTGTGTGGATG 8 341 376 Antisense
AAGTCTCCTTGAATCATTGTCGTCG 445 157 452 Antisense
ATTGTCGTCGACTAATCAACCCATC 223 5 467 Antisense
GAATCTGGATTAGTGCTTCGACTTC 331 329 557 Antisense
GAAGATGAGCTTATCACCCTGGTTC 176 339 637 Antisense
Sequence Source Affymetrix Proprietary Database