[Home] | [Total List]

[189231_at]

Description F59A6.6 /REP_DB=WormBase Gene ID /WP=CE01984 /TR=Q21024 /GB=AAK31525.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=ribonuclease H
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 93      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 72      6grp_total > 95      4grp_total > 03      6grp_cgc > 77      6grp_high1_sub > 04      6grp_cgc_sub > 04_05_06      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1126
1 2 3 4 range
A 337.1
(-2.7)
P 		316.6
(-2.9)
P 		292.5
(-3)
P 		1275.9
(3)
P 		983
B 453.5
(-2.1)
P 		385.3
(-2.4)
P 		275.9
(-3)
P 		1402.3
(3)
P 		1126
C 386
(-2.8)
P 		361.3
(-2.9)
P 		347.6
(-3)
P 		1280
(3)
P 		932
avr 392.2
(-2.5) 		354.4
(-2.7) 		305.3
(-3) 		1319.4
(3) 		1014

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 216
1 2 3 4 5 6 range
A 370.6
(-3)
P 		373.6
(-2.9)
P 		464.7
(0.8)
P 		518.9
(3)
P 		399.5
(-1.8)
P 		477
(1.3)
P 		148
B 444.8
(2.7)
P 		399.9
(-1.5)
P 		383.4
(-3)
P 		415.6
(-0)
P 		448.6
(3)
P 		428.1
(1.1)
P 		65
C 494.2
(0.1)
P 		392.8
(-3)
P 		414.5
(-2.3)
P 		455.7
(-1)
P 		586.1
(3)
P 		469.1
(-0.6)
P 		193
avr 436.5
(0.2) 		388.8
(-3) 		420.9
(-0.8) 		463.4
(2) 		478.1
(3) 		458.1
(1.7) 		89
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 235
1 2 3 4 range
A 122.7
(-0.3)
P 		68.7
(-3)
P 		76.5
(-2.6)
P 		186.8
(3)
P 		118
B 144.6
(-0.9)
P 		95.2
(-2.2)
P 		63.9
(-3)
P 		298.8
(3)
P 		235
C 127.8
(-1.7)
P 		103.9
(-3)
P 		121.1
(-2.1)
P 		215.8
(3)
P 		112
avr 131.7
(-1.2) 		89.3
(-2.9) 		87.2
(-3) 		233.8
(3) 		147

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 68.3
(-3)
P 		132.9
(3)
P 		101.2
(0.1)
P 		131.6
(2.9)
P 		120.6
(1.9)
P 		116.1
(1.4)
P 		65
B 154.8
(1.2)
P 		133.1
(-0.3)
P 		93.1
(-3)
P 		110.1
(-1.9)
P 		182.2
(3)
P 		159.6
(1.5)
P 		89
C 183.2
(2.6)
P 		119.9
(-1.3)
P 		105.5
(-2.1)
P 		91.6
(-3)
P 		189.6
(3)
P 		157
(1)
P 		98
avr 135.4
(0.3) 		128.6
(-0.3) 		99.9
(-3) 		111.1
(-2) 		164.1
(3) 		144.2
(1.1) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189231_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5896
Sequence Type Exemplar sequence
Representative Public ID F59A6.6 NCBI
Target Description F59A6.6 /REP_DB=WormBase Gene ID /WP=CE01984 /TR=Q21024 /GB=AAK31525.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=ribonuclease H
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_001027046(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027046 NCBI Caenorhabditis elegans F59A6.9 (F59A6.9) mRNA, complete cds. 11/11 None
SNAP00000007643 ENSEMBL cdna:SNAP chromosome:CEL140:II:4995649:4997970:1 11/11 None
GENEFINDER00000007663 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4996423:4997970:1 11/11 None
F59A6.9 ENSEMBL cdna:known chromosome:CEL140:II:4996423:4997970:1 gene:F59A6.9 11/11 None
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:4995646-4997968(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F59A6.9
Entrez Gene 3564823 Entrez gene
SwissProt Q86MG7 EMBL-EBI
WormBase CE33660 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1591932_S_AT similar to Ribonuclease H1 (RNase H1) (Ribonuclease H type II) cfa
CANINE:1591931_AT similar to Ribonuclease H1 (RNase H1) (Ribonuclease H type II) cfa
CANINE:1591658_AT similar to Ribonuclease H1 (RNase H1) (Ribonuclease H type II) cfa
CANINE_2:CFA.6649.1.A1_AT similar to Ribonuclease H1 (RNase H1) (Ribonuclease H type II) cfa
CANINE_2:CFAAFFX.5819.1.S1_AT similar to Ribonuclease H1 (RNase H1) (Ribonuclease H type II) cfa
DROSOPHILA_2:1624030_AT ribonuclease H1 dm
DROSGENOME1:143975_AT ribonuclease H1 dm
CHICKEN:GGA.500.1.S1_AT ribonuclease H1 gga
CHICKEN:GGA.6917.1.A1_AT ribonuclease H1 gga
HG-FOCUS:218497_S_AT ribonuclease H1 hs
HG-U133_PLUS_2:218497_S_AT ribonuclease H1 hs
HG-U133A_2:218497_S_AT ribonuclease H1 hs
HG-U133A:218497_S_AT ribonuclease H1 hs
U133_X3P:G4506554_3P_A_AT ribonuclease H1 hs
HG-U133A_2:218496_AT ribonuclease H1 hs
HG-U133_PLUS_2:218496_AT ribonuclease H1 hs
HG-U133A:218496_AT ribonuclease H1 hs
HG-U95AV2:38563_AT ribonuclease H1 hs
HG-U95E:91326_AT ribonuclease H1 hs
HG-U133_PLUS_2:241343_AT Ribonuclease H1 hs
HG-U133B:241343_AT Ribonuclease H1 hs
HU35KSUBA:RC_AA187151_AT Ribonuclease H1 hs
U133_X3P:HS.292345.0.A1_3P_AT Ribonuclease H1 hs
U133_X3P:HS.285647.0.S1_3P_AT Ribonuclease H1 hs
HG-U133_PLUS_2:229880_AT Ribonuclease H1 hs
HG-U133B:229880_AT Ribonuclease H1 hs
HG-U95C:64092_AT Ribonuclease H1 hs
HG-U95C:64645_AT Ribonuclease H1 hs
HG-U95C:65664_AT Ribonuclease H1 hs
HG-U95E:82581_AT Ribonuclease H1 hs
HG-U95E:85144_AT Ribonuclease H1 hs
HG-U95C:55131_AT Ribonuclease H1 hs
HU35KSUBA:C00219_AT Ribonuclease H1 hs
HU35KSUBA:RC_AA460221_AT Ribonuclease H1 hs
MOUSE430_2:1453833_A_AT ribonuclease H1 mm
MOUSE430A_2:1453833_A_AT ribonuclease H1 mm
MOE430A:1453833_A_AT ribonuclease H1 mm
MG-U74AV2:102031_AT ribonuclease H1 mm
MU19KSUBB:TC32956_AT Ribonuclease H1, mRNA (cDNA clone MGC:30220 IMAGE:5133942) mm
MU19KSUBB:TC34868_AT Ribonuclease H1, mRNA (cDNA clone MGC:30220 IMAGE:5133942) mm
RG-U34B:RC_AI029282_AT ribonuclease H1 (predicted) rn
RAE230A:1373593_AT ribonuclease H1 (predicted) rn
RAT230_2:1373593_AT ribonuclease H1 (predicted) rn
YEAST_2:1776595_AT Ribonuclease H1, removes RNA primers during Okazaki fragment synthesis; degrades RNA attached to the 5'-end of a DNA strand Sc
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid 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 AAO91712 Hypothetical protein F59A6.9 [Caenorhabditis elegans] ref|NP_001022217.1| F59A6.9 [Caenorhabditis elegans] 1.0E-144
blast AAO91712 Hypothetical protein F59A6.9 [Caenorhabditis elegans] ref|NP_001022217.1| F59A6.9 [Caenorhabditis elegans] 1.0E-121
blast CAE65264 Hypothetical protein CBG10155 [Caenorhabditis briggsae] 1.0E-107
blast CAE65264 Hypothetical protein CBG10155 [Caenorhabditis briggsae] 1.0E-85
blast AAO38634 Rnase h protein 1, isoform b [Caenorhabditis elegans] ref|NP_871982.1| RNase H family member (rnh-1) [Caenorhabditis elegans] 7.0E-71
blast AAH19411 Ribonuclease H1 [Mus musculus] 9.0E-50
Protein Domains
Database ID Description E-Value
Pfam IPR002156 EMBL-EBI RNase H 7.1E-44
Pfam IPR002156 EMBL-EBI RNase H 7.1E-44
Sequence
Target Sequence 
>C. ELEGANS:189231_AT
gctgaagctcgtaaattcgttgccgataatatgagtgttccaggatcaaagccggttact
cctgcagtatcaacttcatcggccacaagaaaacggacgcatgaaggaacaaaatttaca
gaagctaagaaaatgaagacagaagaagaagttatcgatcccgaatttgccaatgcacca
gttgtgtacacagacggagcttgctcttccaatggaacaaaaaatgcgaaagccggatgg
ggtgtctactggggagatgacagtgaagacaatgaatttggaccggtgtacggagcacct
accaacaacagaggagaacttattgctgttcagaaagcaattgaaaaagctatagagaag
cgtcttccaaaagttgttatcaaaactgattccaatcttctcgtacagtcaatgaacatt
tggattcatggttggaagcgaaaaggatggaaaacatctacaggatcggaggttctcaat
caggatgttctcatgaaaattgataatttgagacaaaaactcaaggttaaattcctacat
gttcgtggtcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGAAGCTCGTAAATTCGTTGCCG 115 297 496 Antisense
GTTCCAGGATCAAAGCCGGTTACTC 672 439 532 Antisense
CGGTTACTCCTGCAGTATCAACTTC 98 243 548 Antisense
GTATCAACTTCATCGGCCACAAGAA 657 453 562 Antisense
GAAGTTATCGATCCCGAATTTGCCA 49 337 643 Antisense
TTGCCAATGCACCAGTTGTGTACAC 479 699 662 Antisense
CAGACGGAGCTTGCTCTTCCAATGG 57 205 686 Antisense
GAAAGCCGGATGGGGTGTCTACTGG 91 359 723 Antisense
TGGACCGGTGTACGGAGCACCTACC 565 545 774 Antisense
TGATTCCAATCTTCTCGTACAGTCA 409 563 882 Antisense
TAAATTCCTACATGTTCGTGGTCAT 366 639 1023 Antisense
Sequence Source Affymetrix Proprietary Database