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[175841_at]

Description g6010656 /REP_DB=GenBank Identifier /GB=AF181619.1 /PROTEIN_GB=AAF01208.1 /CHR=2 /FEA=Mapped Transcript /DEF=putative ribonuclease H2 large subunit
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 99      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 90      6grp_total > 99      4grp_total > 09      6grp_highest_sub > In      6grp_cgc > 79      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 69.4
(-3)
P 		72.2
(-2.8)
P 		75.2
(-2.6)
P 		159
(3)
P 		90
B 74.1
(-1.7)
P 		64
(-3)
P 		70.7
(-2.2)
P 		112.4
(3)
P 		48
C 62.3
(-3)
P 		106.3
(0.4)
P 		102
(0.1)
P 		140.2
(3)
P 		78
avr 68.6
(-3) 		80.8
(-1.9) 		82.6
(-1.8) 		137.2
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 222
1 2 3 4 5 6 range
A 72.1
(-2.8)
P 		71
(-2.8)
P 		102.9
(-1.7)
P 		66.5
(-3)
P 		240.9
(3)
P 		128
(-0.9)
P 		174
B 80
(-3)
P 		82
(-2.9)
P 		93.3
(-2.6)
P 		123
(-1.8)
P 		223
(1.1)
P 		288.4
(3)
P 		208
C 98.6
(-1.5)
P 		121.6
(-0.2)
P 		71.7
(-3)
P 		114.2
(-0.6)
P 		166.4
(2.3)
P 		179.3
(3)
P 		108
avr 83.6
(-3) 		91.5
(-2.6) 		89.3
(-2.7) 		101.2
(-2.2) 		210.1
(3) 		198.6
(2.5) 		127
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 25.3
(3)
P 		15.7
(-3)
P 		19.7
(-0.5)
P 		23.3
(1.8)
P 		10
B 23.6
(2.8)
P 		15.8
(-3)
P 		16.4
(-2.6)
P 		23.9
(3)
P 		8
C 20.6
(-3)
P 		30.6
(1)
P 		35.5
(3)
P 		23.6
(-1.8)
P 		15
avr 23.2
(1.7) 		20.7
(-3) 		23.9
(3) 		23.6
(2.4) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 13.3
(-3)
P 		25.2
(-1.8)
P 		22.4
(-2.1)
P 		16.9
(-2.6)
P 		72.7
(3)
P 		31.2
(-1.2)
P 		59
B 27.8
(-2.6)
P 		27.3
(-2.7)
P 		22.7
(-3)
P 		32.6
(-2.3)
P 		90.6
(1.8)
P 		107.5
(3)
P 		85
C 36.5
(-0.4)
P 		37.1
(-0.3)
P 		18.2
(-3)
P 		23
(-2.3)
P 		53.9
(2.1)
P 		60
(3)
P 		42
avr 25.9
(-2.4) 		29.9
(-2) 		21.1
(-3) 		24.2
(-2.6) 		72.4
(3) 		66.2
(2.3) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175841_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19727
Sequence Type Exemplar sequence
Representative Public ID 6010656 NCBI
Target Description g6010656 /REP_DB=GenBank Identifier /GB=AF181619.1 /PROTEIN_GB=AAF01208.1 /CHR=2 /FEA=Mapped Transcript /DEF=putative ribonuclease H2 large subunit
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_063395(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063395 NCBI Caenorhabditis elegans RNase H family member (rnh-2) (rnh-2) mRNA, complete cds. 11/11 A 
T13H5.7 ENSEMBL cdna:known chromosome:CEL140:II:8517072:8518334:1 gene:T13H5.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000035141 1/11 Cross Hyb Matching Probes None
GENEFINDER00000035152 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:8517066-8518331(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rnh-2
Ensembl T13H5.7
Entrez Gene 266861 Entrez gene
SwissProt Q9U6P6 EMBL-EBI
WormBase CE28960 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264381_AT ribonuclease HII family protein at
CANINE_2:CFAAFFX.26253.1.S1_AT similar to Ribonuclease HI large subunit (RNase HI large subunit) (RNase H(35)) (Ribonuclease H2) (RNase H2) cfa
DROSOPHILA_2:1633171_AT dm
DROSGENOME1:145527_AT dm
HU35KSUBA:RC_AA262477_AT ribonuclease H2, large subunit hs
HG-U133A:203022_AT ribonuclease H2, large subunit hs
HG-U133_PLUS_2:203022_AT ribonuclease H2, large subunit hs
HG-FOCUS:203022_AT ribonuclease H2, large subunit hs
HG-U133A_2:203022_AT ribonuclease H2, large subunit hs
U133_X3P:G5454009_3P_AT ribonuclease H2, large subunit hs
HG-U95AV2:35141_AT ribonuclease H2, large subunit hs
MU11KSUBA:AA061099_S_AT ribonuclease H2, large subunit mm
MG-U74AV2:96106_AT ribonuclease H2, large subunit mm
MOE430B:1452725_A_AT ribonuclease H2, large subunit mm
MOUSE430_2:1452725_A_AT ribonuclease H2, large subunit mm
RG-U34A:RC_AA892777_AT ribonuclease H2, large subunit (predicted) rn
RAE230A:1371451_AT ribonuclease H2, large subunit (predicted) rn
RAT230_2:1371451_AT ribonuclease H2, large subunit (predicted) rn
YEAST_2:1775076_AT Ribonuclease H2 catalytic subunit, removes RNA primers during Okazaki fragment synthesis; cooperates with Rad27p nuclease Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
16070 RNA metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
4523 ribonuclease H activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAC70103 Hypothetical protein T13H5.7 [Caenorhabditis elegans] ref|NP_495796.1| RNase H family member (rnh-2) [Caenorhabditis elegans] gb|AAF01208.1| putative ribonuclease H2 large subunit [Caenorhabditis elegans] sp|Q9U6P6|RNHL_CAEEL Ribonuclease HI large subunit (RNase HI large subunit) (RNase H(35)) 1.0E-170
blast CAE61013 Hypothetical protein CBG04751 [Caenorhabditis briggsae] 1.0E-146
blast NP_081463 ribonuclease H2, large subunit [Mus musculus] dbj|BAE27230.1| unnamed protein product [Mus musculus] gb|AAH38158.1| Ribonuclease H2, large subunit [Mus musculus] 6.0E-68
Protein Domains
Database ID Description E-Value
Pfam IPR001352 EMBL-EBI Ribonuclease HII/HIII 3.9E-54
Sequence
Target Sequence 
>C. ELEGANS:175841_AT
tatgagcaatattctaactttttgaattataacgaaatacttacatttttcaatatcacc
attcatttttattttaccattttctttaacgcgtttctgatctcctcatatctccctcta
aatatttcatcactttggttgtatacctcaatttacttgtagtatattcattttctctta
ctttttctggtgaacttttcttagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATGAGCAATATTCTAACTTTTTGA 431 655 887 Antisense
AATACTTACATTTTTCAATATCACC 63 173 922 Antisense
CAATATCACCATTCATTTTTATTTT 190 181 937 Antisense
TACCATTTTCTTTAACGCGTTTCTG 221 649 961 Antisense
TCCTCATATCTCCCTCTAAATATTT 189 593 989 Antisense
ATCTCCCTCTAAATATTTCATCACT 547 33 996 Antisense
ATTTCATCACTTTGGTTGTATACCT 589 15 1010 Antisense
GGTTGTATACCTCAATTTACTTGTA 125 505 1023 Antisense
CTTGTAGTATATTCATTTTCTCTTA 412 217 1042 Antisense
TCTCTTACTTTTTCTGGTGAACTTT 681 611 1060 Antisense
TTTTTCTGGTGAACTTTTCTTAGAT 339 675 1068 Antisense
Sequence Source GenBank