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[189279_at] YJER protein

Description C08B6.8 /REP_DB=WormBase Gene ID /WP=CE05245 /TR=SW:Q17819 /GB=CAA96590.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=YJER protein
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 74      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 76      6grp_total > 65      4grp_total > 16      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 750
1 2 3 4 range
A 801.1
(-3)
P 		936.5
(-1.9)
P 		957.6
(-1.7)
P 		1509
(3)
P 		708
B 758.9
(-3)
P 		1042.5
(-0.2)
P 		1172.8
(1.1)
P 		1363.5
(3)
P 		605
C 923.8
(-3)
P 		1105.6
(0.4)
P 		1011.8
(-1.4)
P 		1247.1
(3)
P 		323
avr 827.9
(-3) 		1028.2
(-0.8) 		1047.4
(-0.6) 		1373.2
(3) 		545

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 592
1 2 3 4 5 6 range
A 937.4
(-2.3)
P 		917.9
(-2.6)
P 		1314.3
(3)
P 		954
(-2.1)
P 		886.6
(-3)
P 		951.1
(-2.1)
P 		428
B 981.1
(-3)
P 		1041.8
(-2.1)
P 		1364.6
(3)
P 		1022.5
(-2.4)
P 		1103.4
(-1.1)
P 		1262.5
(1.4)
P 		384
C 786.7
(-2.9)
P 		1015.8
(-0.5)
P 		772.6
(-3)
P 		1203.2
(1.4)
P 		846.2
(-2.3)
P 		1362.3
(3)
P 		590
avr 901.7
(-3) 		991.8
(-1.1) 		1150.5
(2.1) 		1059.9
(0.3) 		945.4
(-2.1) 		1192
(3) 		290
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 291.7
(3)
P 		203.3
(-3)
P 		250.3
(0.2)
P 		220.9
(-1.8)
P 		88
B 242
(-3)
P 		257.5
(-1.1)
P 		271.8
(0.7)
P 		290.6
(3)
P 		49
C 305.8
(1)
P 		317.9
(1.5)
P 		352.6
(3)
P 		210.3
(-3)
P 		142
avr 279.8
(1.6) 		259.6
(-0.8) 		291.6
(3) 		240.6
(-3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 298
1 2 3 4 5 6 range
A 172.8
(-3)
P 		326.5
(3)
P 		286.2
(1.4)
P 		242
(-0.3)
P 		267.5
(0.7)
P 		231.6
(-0.7)
P 		154
B 341.4
(-0.9)
P 		346.8
(-0.7)
P 		331.4
(-1.2)
P 		270.8
(-3)
P 		448.3
(2.3)
P 		470.8
(3)
P 		200
C 291.6
(-0.8)
P 		309.9
(-0.4)
P 		196.6
(-3)
P 		242
(-1.9)
P 		273.8
(-1.2)
P 		456
(3)
P 		259
avr 268.6
(-2.2) 		327.7
(0.4) 		271.4
(-2.1) 		251.6
(-3) 		329.9
(0.5) 		386.1
(3) 		135
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189279_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11651
Sequence Type Exemplar sequence
Representative Public ID C08B6.8 NCBI
Target Description C08B6.8 /REP_DB=WormBase Gene ID /WP=CE05245 /TR=SW:Q17819 /GB=CAA96590.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=YJER protein
Cluster Evidence This cluster is supported by a 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_073205(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073205 NCBI Caenorhabditis elegans C08B6.8 (C08B6.8) mRNA, complete cds. 11/11 None
GENEFINDER00000004962 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10137280:10145462:1 11/11 None
C08B6.8 ENSEMBL cdna:known chromosome:CEL140:V:10137242:10145462:1 gene:C08B6.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000004957 7/11 Cross Hyb Matching Probes None
SNAP00000004958 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:10137279-10145462(+) 100.0 100.0
Public Domain and Genome References
Gene Title YJER protein
Ensembl C08B6.8
Entrez Gene 179411 Entrez gene
SwissProt Q17819 EMBL-EBI
WormBase CE05245 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:266306_AT exonuclease family protein at
CANINE:1589225_AT similar to Oligoribonuclease, mitochondrial precursor (Small fragment nuclease) cfa
CANINE_2:CFA.14349.1.A1_AT similar to Oligoribonuclease, mitochondrial precursor (Small fragment nuclease) cfa
CANINE_2:CFAAFFX.20883.1.S1_AT similar to Oligoribonuclease, mitochondrial precursor (Small fragment nuclease) cfa
DROSOPHILA_2:1628044_AT dm
DROSGENOME1:153933_AT dm
CHICKEN:GGA.3122.2.S1_A_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) gga
HG-U133_PLUS_2:223989_S_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133B:223989_S_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:218194_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133A:218194_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133A_2:218194_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HU35KSUBA:RC_AA261907_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HU35KSUBB:RC_H83283_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
U133_X3P:G7661645_3P_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
U133_X3P:G13097554_3P_A_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
U133_X3P:HS.296737.0.S1_3P_S_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
U133_X3P:HS.133556.0.S1_3P_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:239616_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133B:239616_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U95B:46268_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
U133_X3P:HS.296737.0.S1_3P_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:233613_X_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U133B:233613_X_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U95B:46056_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HG-U95D:78502_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
HU35KSUBC:RC_AA256468_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) hs
MU11KSUBB:W33720_S_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) mm
MG-U74AV2:94034_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) mm
MOE430A:1451259_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) mm
MOUSE430A_2:1451259_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) mm
MOUSE430_2:1451259_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) mm
MU19KSUBA:TC22811_AT REX2, RNA exonuclease 2 homolog (S. cerevisiae) (Rexo2), mRNA mm
RAE230A:1371724_AT small fragment nuclease (predicted) rn
RAT230_2:1371724_AT small fragment nuclease (predicted) rn
RG-U34B:RC_AA998151_AT small fragment nuclease (predicted) rn
RG-U34C:H31620_AT small fragment nuclease (predicted) rn
RAE230A:1398679_AT Small fragment nuclease (predicted) rn
RAT230_2:1398679_AT Small fragment nuclease (predicted) rn
RG-U34B:RC_AA997519_AT Small fragment nuclease (predicted) rn
RG-U34A:RC_AI639098_AT Small fragment nuclease (predicted) rn
YEAST_2:1775645_AT RNA exonuclease, required for U4 snRNA maturation; functions redundantly with Rnh70p in 5.8S rRNA maturation, and with Rnh70p and Rex3p 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 CAA96590 Hypothetical protein C08B6.8 [Caenorhabditis elegans] ref|NP_505606.1| C08B6.8 [Caenorhabditis elegans] sp|Q17819|ORN_CAEEL Probable oligoribonuclease 1.0E-110
blast CAE64740 Hypothetical protein CBG09528 [Caenorhabditis briggsae] 4.0E-98
blast XP_417900 PREDICTED: similar to CGI-114 protein [Gallus gallus] 2.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR006055 EMBL-EBI Exonuclease 2.9E-32
Sequence
Target Sequence 
>C. ELEGANS:189279_AT
tctacactctaccatacctgtgacaaaatcgagcaacgaatcatttggatcgactgtgaa
atgacaggcctggacgttgaaaagcagacactctgtgagattgctttgatcgtgacagac
tcagaattgaatacaattgcgactgggccagatattgttattcatcagccaaaagaagtt
cttgacaacatggaagaatggccaagaaatacgtttcatgaaaatggtttaatggaaaaa
ataattgcaagcaagtactcaatggctgatgctgaaaacgaagtgatcgattttctcaaa
ttgcacgctcttcccggtaaaagcccgattgccggaaattccatttatatggatcgtctt
ttcatcaagaagtacatgccaaagctcgataagtttgctcactacagatgtatagatgtc
tcaactatcaaaggacttgtacagagatggtatcctgattataaacatccaaaaaaacag
tgtacccaccgtgcattcgacgatatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTACACTCTACCATACCTGTGACA 27 615 16 Antisense
ATGACAGGCCTGGACGTTGAAAAGC 275 43 76 Antisense
GCAGACACTCTGTGAGATTGCTTTG 382 313 99 Antisense
GATTGCTTTGATCGTGACAGACTCA 554 433 114 Antisense
GAATACAATTGCGACTGGGCCAGAT 348 327 144 Antisense
GGCCAGATATTGTTATTCATCAGCC 39 545 161 Antisense
GATTTTCTCAAATTGCACGCTCTTC 373 429 304 Antisense
GCTCTTCCCGGTAAAAGCCCGATTG 437 259 322 Antisense
GCTCGATAAGTTTGCTCACTACAGA 710 297 399 Antisense
AAAAACAGTGTACCCACCGTGCATT 582 129 488 Antisense
TACCCACCGTGCATTCGACGATATT 370 649 498 Antisense
Sequence Source Affymetrix Proprietary Database