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[185024_s_at]

Description Y56A3A.33 /REP_DB=WormBase Gene ID /WP=CE24469 /TR=Q9U220 /GB=CAB60521.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 75      6grp_high1_10_10 > 66      6grp_highest_nonorm > 82      6grp_total > 58      4grp_total > 02      6grp_highest_sub > Cu      6grp_high1_sub > Da      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale

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G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8986
1 2 3 4 range
A 455.9
(-2.8)
P
194.8
(-3)
P
255.6
(-3)
A
9156.4
(3)
P
8962
B 427.9
(-2.8)
P
225.3
(-3)
A
209.8
(-3)
A
8368.7
(3)
P
8159
C 388.2
(-2.8)
P
252.2
(-2.9)
A
170
(-3)
A
8587.6
(3)
P
8418
avr 424
(-2.9)
224.1
(-3)
211.8
(-3)
8704.2
(3)
8492

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1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 210
1 2 3 4 5 6 range
A 442.9
(2.3)
P
320.7
(-2.2)
P
393.2
(0.5)
P
299.9
(-3)
P
385.3
(0.2)
P
461.3
(3)
P
161
B 357.8
(-0.7)
P
295.2
(-2.5)
P
278.7
(-3)
P
489
(3)
P
318.7
(-1.9)
P
356.8
(-0.8)
P
210
C 316.2
(-2)
P
318.6
(-1.8)
P
389.8
(3)
P
312
(-2.3)
P
301.4
(-3)
P
366
(1.4)
P
88
avr 372.3
(1.4)
311.5
(-3)
353.9
(0.1)
367
(1)
335.1
(-1.3)
394.7
(3)
83
No Scale

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G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1741
1 2 3 4 range
A 166
(-2.4)
P
42.3
(-3)
P
66.8
(-2.9)
A
1340.3
(3)
P
1298
B 136.4
(-2.7)
P
55.6
(-3)
A
48.6
(-3)
A
1783.4
(3)
P
1735
C 128.5
(-2.7)
P
72.5
(-2.9)
A
59.3
(-3)
A
1448
(3)
P
1389
avr 143.6
(-2.6)
56.8
(-3)
58.2
(-3)
1523.9
(3)
1467

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1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 81.7
(-2.2)
P
114
(2.7)
P
85.6
(-1.6)
P
76
(-3)
P
116.3
(3)
P
112.3
(2.4)
P
40
B 124.5
(2.2)
P
98.3
(-0.2)
P
67.7
(-3)
P
129.5
(2.7)
P
129.5
(2.7)
P
133
(3)
P
65
C 117.2
(2.5)
P
97.2
(0.5)
P
99.2
(0.7)
P
62.7
(-3)
P
97.5
(0.5)
P
122.5
(3)
P
60
avr 107.8
(0.7)
103.2
(-0)
84.2
(-3)
89.4
(-2.2)
114.4
(1.7)
122.6
(3)
38
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 185024_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7238
Sequence Type Exemplar sequence
Representative Public ID Y56A3A.33 NCBI
Target Description Y56A3A.33 /REP_DB=WormBase Gene ID /WP=CE24469 /TR=Q9U220 /GB=CAB60521.1 /SUBMIT=HINXTON /CHR=3 /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_067164(11)
Transcript Assignments
Representative
Transcript
Description Matching Probes Related Probesets by Grade
NM_067164 NCBI Caenorhabditis elegans Y56A3A.33 (Y56A3A.33) mRNA, complete cds. 11/11 A 
SNAP00000035206 ENSEMBL cdna:SNAP chromosome:CEL140:III:11968379:12002816:-1 11/11 None
GENEFINDER00000035215 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11999485:12002826:-1 11/11 None
Y56A3A.33 ENSEMBL cdna:known chromosome:CEL140:III:11999373:12002826:-1 gene:Y56A3A.33 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:11999368-12002812(-) 97.18 100.0
Public Domain and Genome References
Gene Title
Ensembl Y56A3A.33
Entrez Gene 176636 Entrez gene
SwissProt Q9U220 EMBL-EBI
WormBase CE24469 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.29755.1.S1_S_AT similar to transcription elongation factor B polypeptide 3 binding protein 1 cfa
DROSOPHILA_2:1628011_A_AT dm
DROSGENOME1:150748_AT dm
CHICKEN:GGA.19551.1.A1_AT similar to transcription elongation factor B polypeptide 3 binding protein 1; elongin A binding protein 1 gga
CHICKEN:GGA.5256.1.S1_AT similar to transcription elongation factor B polypeptide 3 binding protein 1; elongin A binding protein 1 gga
CHICKEN:GGAAFFX.22959.1.S1_S_AT similar to transcription elongation factor B polypeptide 3 binding protein 1; elongin A binding protein 1 gga
HU35KSUBB:RC_H00278_F_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HU35KSUBD:RC_AA608832_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HU35KSUBD:RC_AA437388_F_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HU35KSUBD:RC_AA437388_I_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
U133_X3P:HS.115726.0.S1_3P_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:226144_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HG-U133B:226144_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HG-U95C:59379_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HG-U95D:84024_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:233939_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
HG-U133B:233939_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) hs
MOUSE430_2:1457116_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MOE430B:1457116_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MU11KSUBA:AA185145_S_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MU11KSUBB:MSA.22459.0_S_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MU11KSUBB:MSA.21997.0_F_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MG-U74AV2:102268_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MG-U74CV2:132883_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MOE430A:1429124_S_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MOUSE430A_2:1429124_S_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MOUSE430_2:1429124_S_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MOE430B:1429489_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MOUSE430_2:1429489_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) mm
MU19KSUBA:TC23854_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) (Rexo1), transcript variant 1, mRNA mm
MU19KSUBC:TC41973_AT REX1, RNA exonuclease 1 homolog (S. cerevisiae) (Rexo1), transcript variant 1, mRNA mm
RG-U34C:RC_AI236603_AT transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RG-U34C:RC_AI071194_AT transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RAE230A:1375372_AT transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RAT230_2:1375372_AT transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RAE230A:1372738_AT transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RAT230_2:1372738_AT transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RAE230B:1378917_AT Transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RAT230_2:1378917_AT Transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
RG-U34B:RC_AI043962_AT Transcription elongation factor B polypeptide 3 binding protein 1 (predicted) rn
YEAST_2:1775381_AT RNA exonuclease; required for maturation of the RNA component of RNase MRP; functions redundantly with Rnh70p and Rex2p in processing of U5 snRNA and RNase P RNA; member of RNase D family of exonucleases Sc
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4527 exonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60521 Hypothetical protein Y56A3A.33 [Caenorhabditis elegans] ref|NP_499565.1| Y56A3A.33 [Caenorhabditis elegans] 0.0
blast CAB60506 Hypothetical protein Y56A3A.30 [Caenorhabditis elegans] ref|NP_499562.1| Y56A3A.30 [Caenorhabditis elegans] 0.0
blast AAF39778 Hypothetical protein C51G7.1 [Caenorhabditis elegans] 1.0E-177
blast AAF39778 Hypothetical protein C51G7.1 [Caenorhabditis elegans] 1.0E-176
blast AAF39778 Hypothetical protein C51G7.1 [Caenorhabditis elegans] 1.0E-174
blast CAE67756 Hypothetical protein CBG13331 [Caenorhabditis briggsae] 1.0E-111
Protein Domains
Database ID Description E-Value
Pfam IPR006055 EMBL-EBI Exonuclease 5.6E-21
Pfam IPR005122 EMBL-EBI Uracil-DNA glycosylase superfamily 2.7E-62
Pfam IPR006055 EMBL-EBI Exonuclease 5.6E-21
Sequence
Target Sequence
>C. ELEGANS:185024_S_AT
cggcgatttcattggaagcgtgtcgcctgcagctcttccaactcatcaactctgaaaccc
tgctcgtcggtcactccctggaatcggatctgaaagctctccgccttgtccaccacaatg
tcatcgacactgcagtcctgttctcgatcgtcgatccatccagatcctacattctcaagt
tgtcccttcagaatcttgcgaagaaatatctgtgtaaggatgttcagtcggaagcgtcgg
gtcattcgtcgattgaggatagccata


BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position
Strandedness
CGGCGATTTCATTGGAAGCGTGTCG 287 241 725 Antisense
TCATTGGAAGCGTGTCGCCTGCAGC 415 619 733 Antisense
GTCACTCCCTGGAATCGGATCTGAA 201 465 794 Antisense
AATCGGATCTGAAAGCTCTCCGCCT 588 169 806 Antisense
CTTGTCCACCACAATGTCATCGACA 581 217 829 Antisense
CAATGTCATCGACACTGCAGTCCTG 412 183 840 Antisense
TCCTGTTCTCGATCGTCGATCCATC 103 595 860 Antisense
TCTCGATCGTCGATCCATCCAGATC 607 609 866 Antisense
ACATTCTCAAGTTGTCCCTTCAGAA 524 103 893 Antisense
AAGTTGTCCCTTCAGAATCTTGCGA 367 155 901 Antisense
CATTCGTCGATTGAGGATAGCCATA 200 217 967 Antisense
Sequence Source Affymetrix Proprietary Database