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[175842_s_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_high1_10_10 > 98      6grp_total > 95      4grp_total > 40      6grp_cgc > 78      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 121
1 2 3 4 range
A 161.7
(-2)
A 		210.7
(1.6)
A 		228.8
(3)
A 		148.7
(-3)
P 		80
B 142.4
(0.6)
P 		130.2
(-2.2)
A 		153.1
(3)
P 		126.6
(-3)
P 		27
C 107.7
(-3)
P 		113.8
(-2.6)
A 		132.9
(-1.5)
A 		206.3
(3)
P 		99
avr 137.3
(-3) 		151.6
(-0.5) 		171.6
(3) 		160.5
(1.1) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 412
1 2 3 4 5 6 range
A 79.8
(-3)
A 		77.5
(-3)
P 		119
(-2.4)
P 		199.7
(-1.1)
P 		246.2
(-0.4)
P 		462.1
(3)
P 		385
B 110.8
(-3)
A 		168.7
(-2.1)
M 		147.9
(-2.4)
M 		209.8
(-1.4)
P 		485.4
(3)
P 		361.7
(1)
P 		375
C 73.2
(-3)
P 		137.5
(-1.9)
P 		235.1
(-0.3)
P 		136.1
(-2)
P 		433.7
(3)
P 		285.2
(0.5)
P 		361
avr 87.9
(-3) 		127.9
(-2.2) 		167.3
(-1.4) 		181.9
(-1.1) 		388.4
(3) 		369.7
(2.6) 		301
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 58.9
(2.9)
A 		45.7
(0.8)
A 		59.8
(3)
A 		21.8
(-3)
P 		38
B 45.4
(3)
P 		32.2
(-1.3)
A 		35.5
(-0.2)
P 		27
(-3)
P 		18
C 35.7
(-1.7)
P 		32.7
(-3)
A 		46.3
(3)
A 		34.8
(-2.1)
P 		14
avr 46.7
(2.8) 		36.9
(-0.2) 		47.2
(3) 		27.9
(-3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 14.7
(-3)
A 		27.6
(-2.2)
P 		25.9
(-2.3)
P 		50.7
(-0.8)
P 		74.3
(0.7)
P 		112.5
(3)
P 		98
B 38.6
(-2.9)
A 		56.2
(-2.2)
M 		35.9
(-3)
M 		55.6
(-2.3)
P 		197.2
(3)
P 		134.9
(0.7)
P 		161
C 27.1
(-3)
P 		41.9
(-2.2)
P 		59.8
(-1.3)
P 		27.4
(-3)
P 		140.3
(3)
P 		95.5
(0.6)
P 		113
avr 26.8
(-3) 		41.9
(-2.2) 		40.5
(-2.3) 		44.6
(-2) 		137.3
(3) 		114.3
(1.8) 		111
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175842_s_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 
SNAP00000035141 ENSEMBL cdna:SNAP chromosome:CEL140:II:8517075:8518123:1 11/11 None
GENEFINDER00000035152 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8515012:8518123:1 11/11 None
T13H5.7 ENSEMBL cdna:known chromosome:CEL140:II:8517072:8518334:1 gene:T13H5.7 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
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 CAA91418 Hypothetical protein T13H5.2 [Caenorhabditis elegans] ref|NP_495795.1| T13H5.2 [Caenorhabditis elegans] 0.0
blast CAE61014 Hypothetical protein CBG04752 [Caenorhabditis briggsae] 0.0
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 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-169
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
Pfam IPR001251 EMBL-EBI Cellular retinaldehyde-binding)/triple function, C-terminal 4.0E-15
Pfam IPR001352 EMBL-EBI Ribonuclease HII/HIII 3.9E-54
Sequence
Target Sequence 
>C. ELEGANS:175842_S_AT
aaagctgattcactttttcctatcgtcagtgcagcttccattgccgccaaagtcacgaga
gactcgcgtttgagaaattggcaatttagagagaaaaatattaaagttccagatgctgga
tatggaagtggatatcctggagatccaaacacaaagaagttccttcaattaagtgtggaa
ccagttttcggcttctgctcactcgttcgatcatcctggaaaacagccagtactatcgtt
gagaagagatgtgttccaggcagttgggaagatgacgaggaagaagggaaatcacaaagc
aaaagaatgacttcatggatggttccga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGCTGATTCACTTTTTCCTATCG 136 125 507 Antisense
CACTTTTTCCTATCGTCAGTGCAGC 401 197 517 Antisense
CCATTGCCGCCAAAGTCACGAGAGA 675 269 544 Antisense
GTCACGAGAGACTCGCGTTTGAGAA 650 465 558 Antisense
GGAAGTGGATATCCTGGAGATCCAA 27 533 630 Antisense
GATCCAAACACAAAGAAGTTCCTTC 453 415 648 Antisense
CTCACTCGTTCGATCATCCTGGAAA 261 229 704 Antisense
GAAAACAGCCAGTACTATCGTTGAG 459 355 725 Antisense
GAAGAGATGTGTTCCAGGCAGTTGG 391 339 749 Antisense
GGCAGTTGGGAAGATGACGAGGAAG 122 533 765 Antisense
AGAATGACTTCATGGATGGTTCCGA 438 73 810 Antisense
Sequence Source GenBank