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[181545_s_at]

Description Y53F4B.6 /REP_DB=WormBase Gene ID /WP=CE22394 /TR=Q9NAC3 /GB=CAB61075.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 08      4grp_high_8_8 > 37      6grp_total > 08      4grp_total > 43      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 208
1 2 3 4 range
A 92.7
(-3)
P 		221
(3)
M 		166.8
(0.5)
P 		135.4
(-1)
A 		128
B 158.6
(2.6)
P 		169.6
(3)
A 		13.3
(-3)
A 		164.2
(2.8)
P 		156
C 95.7
(-1.4)
P 		212.8
(3)
P 		169.2
(1.3)
P 		54.6
(-3)
A 		158
avr 115.7
(-3) 		201.1
(3) 		116.4
(-3) 		118.1
(-2.8) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 194
1 2 3 4 5 6 range
A 188.2
(3)
P 		110.7
(-0.4)
P 		71.8
(-2.1)
M 		106.5
(-0.6)
P 		50.2
(-3)
A 		112.1
(-0.3)
P 		138
B 210.7
(3)
P 		58.1
(-2.1)
P 		100.9
(-0.6)
P 		29.5
(-3)
A 		64
(-1.9)
P 		129.9
(0.3)
P 		181
C 223
(3)
P 		92.6
(-1.4)
P 		132.1
(-0)
M 		93.4
(-1.3)
A 		158.9
(0.9)
P 		44
(-3)
P 		179
avr 207.3
(3) 		87.1
(-2.5) 		101.6
(-1.8) 		76.5
(-3) 		91
(-2.3) 		95.3
(-2.1) 		131
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 33.7
(-0)
P 		48
(3)
M 		43.6
(2.1)
P 		19.8
(-3)
A 		28
B 50.6
(3)
P 		41.9
(1.9)
A 		3.1
(-3)
A 		35
(1)
P 		48
C 31.7
(-0.4)
P 		61.2
(3)
P 		59
(2.7)
P 		9.2
(-3)
A 		52
avr 38.7
(0.6) 		50.4
(3) 		35.2
(-0.1) 		21.3
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 34.7
(1.8)
P 		39.4
(3)
P 		15.6
(-2.9)
M 		27
(-0.1)
P 		15.2
(-3)
A 		27.3
(0)
P 		24
B 73.3
(3)
P 		19.3
(-1.9)
P 		24.5
(-1.5)
P 		7.8
(-3)
A 		26
(-1.3)
P 		48.4
(0.7)
P 		66
C 82.7
(3)
P 		28.3
(-1.8)
P 		33.6
(-1.3)
M 		18.8
(-2.6)
A 		51.4
(0.2)
P 		14.7
(-3)
P 		68
avr 63.6
(3) 		29
(-1.5) 		24.6
(-2.1) 		17.9
(-3) 		30.9
(-1.3) 		30.1
(-1.4) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 181545_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3333
Sequence Type Exemplar sequence
Representative Public ID Y53F4B.6 NCBI
Target Description Y53F4B.6 /REP_DB=WormBase Gene ID /WP=CE22394 /TR=Q9NAC3 /GB=CAB61075.1 /SUBMIT=HINXTON /CHR=2 /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_064557(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064557 NCBI Caenorhabditis elegans Y48B6A.3 (Y48B6A.3) mRNA, complete cds. 11/11 A 
SNAP00000022957 ENSEMBL cdna:SNAP chromosome:CEL140:II:14158512:14165807:1 11/11 None
GENEFINDER00000022979 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14162239:14165807:1 11/11 None
SNAP00000043040 ENSEMBL cdna:SNAP chromosome:CEL140:II:14979845:14987115:1 11/11 None
GENEFINDER00000043139 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14985590:14987115:1 11/11 None
Y48B6A.3 ENSEMBL cdna:known chromosome:CEL140:II:14155659:14165909:1 gene:Y48B6A.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_064690 3/11 Cross Hyb Matching Probes A 
Y53F4B.6 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:14985586-14987112(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y48B6A.3
Entrez Gene 175071 Entrez gene
SwissProt Q9U299 EMBL-EBI
WormBase CE22118 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262923_AT 5'-3' exoribonuclease (XRN3) at
CANINE:1591522_S_AT similar to Y48B6A.3 cfa
CANINE:1586416_AT similar to Y48B6A.3 cfa
CANINE_2:CFA.10494.1.A1_S_AT similar to Y48B6A.3 cfa
DROSOPHILA_2:1632904_AT dm
DROSGENOME1:153788_AT dm
CHICKEN:GGAAFFX.12843.1.S1_AT 5'-3' exoribonuclease 2 gga
HG-U133_PLUS_2:233878_S_AT 5'-3' exoribonuclease 2 hs
HG-U133B:233878_S_AT 5'-3' exoribonuclease 2 hs
HG-U133B:223002_S_AT 5'-3' exoribonuclease 2 hs
HG-U133_PLUS_2:223002_S_AT 5'-3' exoribonuclease 2 hs
HU35KSUBA:RC_AA621790_AT 5'-3' exoribonuclease 2 hs
U133_X3P:G12053188_3P_S_AT 5'-3' exoribonuclease 2 hs
U133_X3P:HS.268555.1.S1_3P_S_AT 5'-3' exoribonuclease 2 hs
HG-U95B:45825_AT 5'-3' exoribonuclease 2 hs
HG-U95E:77664_AT 5'-3' exoribonuclease 2 hs
HG-U95E:80109_AT 5'-3' exoribonuclease 2 hs
HG-U95D:91901_AT 5'-3' exoribonuclease 2 hs
MU11KSUBA:D38517_S_AT 5'-3' exoribonuclease 2 mm
MG-U74AV2:97475_AT 5'-3' exoribonuclease 2 mm
MOE430A:1422842_AT 5'-3' exoribonuclease 2 mm
MOUSE430A_2:1422842_AT 5'-3' exoribonuclease 2 mm
MOUSE430_2:1422842_AT 5'-3' exoribonuclease 2 mm
MOE430A:1450777_AT 5'-3' exoribonuclease 2 mm
MOUSE430A_2:1450777_AT 5'-3' exoribonuclease 2 mm
MOUSE430_2:1450777_AT 5'-3' exoribonuclease 2 mm
MOE430A:1422843_AT 5'-3' exoribonuclease 2 mm
MOUSE430A_2:1422843_AT 5'-3' exoribonuclease 2 mm
MOUSE430_2:1422843_AT 5'-3' exoribonuclease 2 mm
MU19KSUBA:TC20988_S_AT 5'-3' exoribonuclease 2, mRNA (cDNA clone MGC:7624 IMAGE:3495063) mm
MU19KSUBB:TC33805_AT 5'-3' exoribonuclease 2, mRNA (cDNA clone MGC:7624 IMAGE:3495063) mm
MU19KSUBC:TC36783_S_AT 5'-3' exoribonuclease 2, mRNA (cDNA clone MGC:7624 IMAGE:3495063) mm
MU19KSUBC:TC42080_AT 5'-3' exoribonuclease 2, mRNA (cDNA clone MGC:7624 IMAGE:3495063) mm
RG-U34A:RC_AA891938_AT 5'-3' exoribonuclease 2 (predicted) rn
RAE230A:1391412_AT 5'-3' exoribonuclease 2 (predicted) rn
RAT230_2:1391412_AT 5'-3' exoribonuclease 2 (predicted) rn
RAE230B:1393702_AT 5'-3' exoribonuclease 2 (predicted) rn
RAT230_2:1393702_AT 5'-3' exoribonuclease 2 (predicted) rn
YEAST_2:1776801_AT Nuclear 5' to 3' single-stranded RNA exonuclease, involved in RNA metabolism, including rRNA and snRNA processing as well as mRNA transcription termination Sc
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4527 exonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB54449 Hypothetical protein Y48B6A.3 [Caenorhabditis elegans] ref|NP_496958.1| Y48B6A.3 [Caenorhabditis elegans] 0.0
blast CAE73451 Hypothetical protein CBG20900 [Caenorhabditis briggsae] 0.0
blast XP_856061 PREDICTED: similar to Y48B6A.3 isoform 10 [Canis familiaris] 0.0
blast CAE73451 Hypothetical protein CBG20900 [Caenorhabditis briggsae] 1.0E-174
Protein Domains
Database ID Description E-Value
Pfam IPR004859 EMBL-EBI Putative 5-3 exonuclease domain 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:181545_S_AT
tccgtctcgacggagccaaggagcccgagaaaacgctgaaacccgacgactggaacgata
gacgagacgggtggtatcagccacaagcgggctttaatcgaaacgcgccacgtggaagtc
tggatcaatcgggccatcgacaagtgcatcactatgtgagaggtggtgatggcggcggcg
gataccgaggatacagctatgatgatcggagaggcggtggcagtggtggtggtggataca
acgatcgtcaagatttcggccgaaactatggaggaagagacggtggaggtccccagagat
accatgatcagcagcgtcaaggaggctatcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCGTCTCGACGGAGCCAAGGAGCC 472 595 383 Antisense
GGAGCCAAGGAGCCCGAGAAAACGC 618 521 394 Antisense
AGAAAACGCTGAAACCCGACGACTG 376 73 410 Antisense
GTGCATCACTATGTGAGAGGTGGTG 232 479 526 Antisense
GGTGGTGGTGGATACAACGATCGTC 689 497 607 Antisense
CAACGATCGTCAAGATTTCGGCCGA 637 185 621 Antisense
GATCGTCAAGATTTCGGCCGAAACT 403 407 625 Antisense
GGAAGAGACGGTGGAGGTCCCCAGA 402 529 655 Antisense
GGAGGTCCCCAGAGATACCATGATC 4 515 667 Antisense
CCCCAGAGATACCATGATCAGCAGC 261 261 673 Antisense
CAGCAGCGTCAAGGAGGCTATCAAG 152 205 691 Antisense
Sequence Source Affymetrix Proprietary Database