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[188846_at] ribonuclease

Description K10C9.3 /REP_DB=WormBase Gene ID /WP=CE18045 /TR=O61887 /GB=AAC17668.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ribonuclease
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 93      4grp_highest_8_8 > 04      4grp_high_8_8 > 37      6grp_highest_nonorm > 85      6grp_total > 95      4grp_total > 42      6grp_high1_sub > 04      6grp_total_sub > Increase      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 332
1 2 3 4 range
A 611.1
(-3)
P 		911
(3)
P 		791.3
(0.6)
P 		794
(0.7)
P 		300
B 683.2
(-3)
P 		931.6
(3)
P 		793.4
(-0.3)
P 		847.1
(1)
P 		248
C 599.6
(-3)
P 		862.6
(3)
P 		739.7
(0.2)
P 		701.5
(-0.7)
P 		263
avr 631.3
(-3) 		901.7
(3) 		774.8
(0.2) 		780.9
(0.3) 		270

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 433
1 2 3 4 5 6 range
A 930.1
(2.2)
P 		554.6
(-3)
P 		648.7
(-1.7)
P 		812
(0.6)
P 		988
(3)
P 		741.3
(-0.4)
P 		433
B 812.4
(0.8)
P 		596.4
(-3)
P 		634
(-2.3)
P 		936.1
(3)
P 		921.1
(2.7)
P 		901
(2.4)
P 		340
C 734.2
(-0.5)
P 		608.6
(-2.7)
P 		589.6
(-3)
P 		934.1
(3)
P 		704.6
(-1)
P 		884.1
(2.1)
P 		345
avr 825.6
(1.7) 		586.5
(-3) 		624.1
(-2.3) 		894.1
(3) 		871.2
(2.6) 		842.1
(2) 		308
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 142
1 2 3 4 range
A 222.5
(3)
P 		197.8
(1.6)
P 		206.9
(2.1)
P 		116.2
(-3)
P 		106
B 217.9
(1.5)
P 		230.1
(3)
P 		183.9
(-2.6)
P 		180.5
(-3)
P 		50
C 198.5
(0.4)
P 		248
(2.6)
P 		257.8
(3)
P 		118.3
(-3)
P 		140
avr 213
(2.2) 		225.3
(3) 		216.2
(2.4) 		138.3
(-3) 		87

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 233
1 2 3 4 5 6 range
A 171.5
(-1.8)
P 		197.3
(-0.9)
P 		141.3
(-3)
P 		205.9
(-0.5)
P 		298.1
(3)
P 		180.5
(-1.5)
P 		157
B 282.7
(0.5)
P 		198.5
(-1.8)
P 		154
(-3)
P 		247.9
(-0.4)
P 		374.2
(3)
P 		336
(2)
P 		220
C 272.1
(2)
P 		185.7
(-1.5)
P 		150.1
(-3)
P 		187.9
(-1.4)
P 		228
(0.2)
P 		296
(3)
P 		146
avr 242.1
(0.7) 		193.8
(-1.2) 		148.5
(-3) 		213.9
(-0.4) 		300.1
(3) 		270.8
(1.8) 		152
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188846_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15477
Sequence Type Exemplar sequence
Representative Public ID K10C9.3 NCBI
Target Description K10C9.3 /REP_DB=WormBase Gene ID /WP=CE18045 /TR=O61887 /GB=AAC17668.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ribonuclease
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_070969(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070969 NCBI Caenorhabditis elegans K10C9.3 (ribonuclease) mRNA, complete cds. 11/11 A 
SNAP00000001030 ENSEMBL cdna:SNAP chromosome:CEL140:V:1061427:1061896:1 11/11 None
GENEFINDER00000001035 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1061427:1065298:1 11/11 None
K10C9.3 ENSEMBL cdna:known chromosome:CEL140:V:1061425:1067689:1 gene:K10C9.3 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
chrV:1061426-1061896(+) 100.0 100.0
Public Domain and Genome References
Gene Title ribonuclease
Ensembl K10C9.3
Entrez Gene 190096 Entrez gene
SwissProt O61887 EMBL-EBI
WormBase CE28601 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1636484_AT Ribonuclease X25 dm
DROSGENOME1:152173_AT Ribonuclease X25 dm
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
4521 endoribonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_503370 K10C9.3 [Caenorhabditis elegans] gb|AAC17670.2| Hypothetical protein K10C9.3 [Caenorhabditis elegans] 1.0E-156
blast NP_503370 K10C9.3 [Caenorhabditis elegans] gb|AAC17670.2| Hypothetical protein K10C9.3 [Caenorhabditis elegans] 1.0E-140
blast CAE71034 Hypothetical protein CBG17875 [Caenorhabditis briggsae] 1.0E-117
blast CAE71034 Hypothetical protein CBG17875 [Caenorhabditis briggsae] 1.0E-110
blast NP_503370 K10C9.3 [Caenorhabditis elegans] gb|AAC17670.2| Hypothetical protein K10C9.3 [Caenorhabditis elegans] 5.0E-78
blast CAE71034 Hypothetical protein CBG17875 [Caenorhabditis briggsae] 3.0E-64
blast BAA09448.1 Sf-RNase precursor [Malus x domestica] 1.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR001568 EMBL-EBI Ribonuclease T2 1.9E-39
Pfam IPR001568 EMBL-EBI Ribonuclease T2 3.7E-26
Sequence
Target Sequence 
>C. ELEGANS:188846_AT
acccctagcctattctcatgatggtgagccatttgactacctaatgttcaccacaatcta
cccaaccgccgtctgccgtgccgatgatgattcagtccctgaatcctgtgagattccaag
tggtacccctcaatggtcaattcacggattgtggccaaactttgagaatggctcgtaccc
acaaaattgtcgtgggactccaagacatttcgatgagaatttgataaaatcaattgaaga
tcgattggtagttgtctggccaaacctctaccctaaaaagacgattcaatccttctggaa
acac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCCCTAGCCTATTCTCATGATGGT 550 89 48 Antisense
GATGGTGAGCCATTTGACTACCTAA 66 407 67 Antisense
TAATGTTCACCACAATCTACCCAAC 210 637 89 Antisense
GCCGTGCCGATGATGATTCAGTCCC 5 285 122 Antisense
TTCAGTCCCTGAATCCTGTGAGATT 690 687 138 Antisense
GTGAGATTCCAAGTGGTACCCCTCA 153 483 155 Antisense
GGTACCCCTCAATGGTCAATTCACG 216 501 169 Antisense
GAGAATGGCTCGTACCCACAAAATT 605 391 211 Antisense
GTGGGACTCCAAGACATTTCGATGA 131 489 239 Antisense
TTGGTAGTTGTCTGGCCAAACCTCT 533 701 292 Antisense
GACGATTCAATCCTTCTGGAAACAC 577 377 327 Antisense
Sequence Source Affymetrix Proprietary Database