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[190910_at] rRNA methyltransferase

Description E02H1.1 /REP_DB=WormBase Gene ID /WP=CE01536 /TR=SW:Q09522 /GB=CAA87382.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=rRNA methyltransferase
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 95      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 87      6grp_total > 76      4grp_total > 02      6grp_highest_sub > Da      6grp_high1_sub > In      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8701
1 2 3 4 range
A 1754.2
(-2.6)
P 		1409.7
(-2.8)
P 		1166.8
(-3)
P 		9214.2
(3)
P 		8047
B 1653.8
(-2.7)
P 		1630.1
(-2.8)
P 		1280.2
(-3)
P 		9859.4
(3)
P 		8579
C 1913.9
(-2.6)
P 		1337.6
(-3)
P 		1338.4
(-3)
P 		9867.4
(3)
P 		8530
avr 1774
(-2.6) 		1459.1
(-2.9) 		1261.8
(-3) 		9647
(3) 		8385

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 613
1 2 3 4 5 6 range
A 1083.7
(-3)
P 		1188.5
(-0.7)
P 		1130
(-2)
P 		1216.2
(-0.1)
P 		1242.8
(0.5)
P 		1357.7
(3)
P 		274
B 1298.7
(-1.2)
P 		1229.7
(-2.1)
P 		1163.2
(-3)
P 		1619.8
(3)
P 		1190
(-2.6)
P 		1461.6
(0.9)
P 		457
C 1109.3
(-2.1)
P 		1119.8
(-2)
P 		1021.6
(-3)
P 		1220.4
(-1.1)
P 		1183
(-1.4)
P 		1634.5
(3)
P 		613
avr 1163.9
(-2.1) 		1179.3
(-1.8) 		1104.9
(-3) 		1352.1
(0.9) 		1205.3
(-1.4) 		1484.6
(3) 		380
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1804
1 2 3 4 range
A 638.7
(-1.1)
P 		306
(-3)
P 		305
(-3)
P 		1348.8
(3)
P 		1044
B 527.4
(-2.2)
P 		402.6
(-2.6)
P 		296.6
(-3)
P 		2101
(3)
P 		1804
C 633.5
(-1.8)
P 		384.6
(-3)
P 		466.5
(-2.6)
P 		1663.8
(3)
P 		1279
avr 599.9
(-1.9) 		364.4
(-3) 		356
(-3) 		1704.5
(3) 		1349

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 347
1 2 3 4 5 6 range
A 199.8
(-3)
P 		422.7
(3)
P 		246.1
(-1.8)
P 		308.5
(-0.1)
P 		375
(1.7)
P 		330.6
(0.5)
P 		223
B 451.9
(0.9)
P 		409.3
(-0.1)
P 		282.5
(-3)
P 		429
(0.3)
P 		483.5
(1.6)
P 		545
(3)
P 		263
C 411.2
(0.3)
P 		341.7
(-1.1)
P 		260
(-2.7)
P 		245.4
(-3)
P 		382.8
(-0.3)
P 		547.1
(3)
P 		302
avr 354.3
(-0.4) 		391.2
(0.6) 		262.9
(-3) 		327.6
(-1.2) 		413.8
(1.3) 		474.2
(3) 		211
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190910_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3485
Sequence Type Exemplar sequence
Representative Public ID E02H1.1 NCBI
Target Description E02H1.1 /REP_DB=WormBase Gene ID /WP=CE01536 /TR=SW:Q09522 /GB=CAA87382.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=rRNA methyltransferase
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_063660(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063660 NCBI Caenorhabditis elegans E02H1.1 (E02H1.1) mRNA, complete cds. 10/11 None
SNAP00000041920 ENSEMBL cdna:SNAP chromosome:CEL140:II:9589874:9591057:-1 10/11 None
GENEFINDER00000041934 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9589874:9591057:-1 10/11 None
E02H1.1 ENSEMBL cdna:known chromosome:CEL140:II:9589831:9591074:-1 gene:E02H1.1 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:9589870-9591054(-) 100.0 100.0
Public Domain and Genome References
Gene Title rRNA methyltransferase
Ensembl E02H1.1
Entrez Gene 183993 Entrez gene
SwissProt Q09522 EMBL-EBI
WormBase CE30642 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20560_AT dimethyladenosine transferase, putative at
ATH1-121501:245122_AT dimethyladenosine transferase, putative at
DROSOPHILA_2:1631093_AT dm
DROSGENOME1:154750_AT dm
HG-U133_PLUS_2:210802_S_AT dimethyladenosine transferase hs
HG-U133A:210802_S_AT dimethyladenosine transferase hs
HG-U133A_2:210802_S_AT dimethyladenosine transferase hs
HG-U133_PLUS_2:204405_X_AT dimethyladenosine transferase hs
HG-U133A:204405_X_AT dimethyladenosine transferase hs
HG-U133A_2:204405_X_AT dimethyladenosine transferase hs
HG-U133_PLUS_2:210801_AT dimethyladenosine transferase hs
HG-U133A:210801_AT dimethyladenosine transferase hs
HG-U133A_2:210801_AT dimethyladenosine transferase hs
HU35KSUBC:RC_T70038_AT dimethyladenosine transferase hs
U133_X3P:G7657197_3P_A_AT dimethyladenosine transferase hs
U133_X3P:G12803982_3P_AT dimethyladenosine transferase hs
U133_X3P:HS.125819.4.A1_3P_A_AT dimethyladenosine transferase hs
HG-U133A_2:217106_X_AT dimethyladenosine transferase hs
HG-U133_PLUS_2:217106_X_AT dimethyladenosine transferase hs
HG-U133A:217106_X_AT dimethyladenosine transferase hs
HG-U95AV2:39883_AT dimethyladenosine transferase hs
HG-U95AV2:39884_G_AT dimethyladenosine transferase hs
HG-U133A_2:213598_AT Dimethyladenosine transferase hs
HG-FOCUS:213598_AT Dimethyladenosine transferase hs
HG-U133_PLUS_2:213598_AT Dimethyladenosine transferase hs
HG-U133A:213598_AT Dimethyladenosine transferase hs
HG-U133_PLUS_2:226480_AT Dimethyladenosine transferase hs
HG-U133B:226480_AT Dimethyladenosine transferase hs
HG-U95AV2:39885_AT Dimethyladenosine transferase hs
HG-U95C:65494_AT Dimethyladenosine transferase hs
HG-U95D:86215_R_AT Dimethyladenosine transferase hs
HU35KSUBA:R69018_AT Dimethyladenosine transferase hs
HU35KSUBB:RC_W87688_AT Dimethyladenosine transferase hs
HU35KSUBB:RC_W78057_AT Dimethyladenosine transferase hs
U133_X3P:HS.125819.2.A1_3P_AT Dimethyladenosine transferase hs
U133_X3P:HS.125819.3.S1_3P_AT Dimethyladenosine transferase hs
MOUSE430_2:1426290_AT RIKEN cDNA 1500031M22 gene mm
MOE430A:1426290_AT RIKEN cDNA 1500031M22 gene mm
MOUSE430A_2:1426290_AT RIKEN cDNA 1500031M22 gene mm
MG-U74BV2:164032_AT RIKEN cDNA 1500031M22 gene mm
MG-U74BV2:162958_AT RIKEN cDNA 1500031M22 gene mm
MOE430A:1426291_AT RIKEN cDNA 1500031M22 gene mm
MOUSE430A_2:1426291_AT RIKEN cDNA 1500031M22 gene mm
MOUSE430_2:1426291_AT RIKEN cDNA 1500031M22 gene mm
MU19KSUBB:TC32590_AT RIKEN cDNA 1500031M22 gene mm
MU19KSUBC:TC38709_AT RIKEN cDNA 1500031M22 gene (1500031M22Rik), mRNA mm
RG-U34C:RC_AI236342_AT similar to RIKEN cDNA 1500031M22 (predicted) rn
RAE230B:1385711_AT similar to RIKEN cDNA 1500031M22 (predicted) rn
RAT230_2:1385711_AT similar to RIKEN cDNA 1500031M22 (predicted) rn
RAE230B:1391427_AT Similar to RIKEN cDNA 1500031M22 (predicted) rn
RAT230_2:1391427_AT Similar to RIKEN cDNA 1500031M22 (predicted) rn
RAE230B:1381248_AT Similar to RIKEN cDNA 1500031M22 (predicted) rn
RAT230_2:1381248_AT Similar to RIKEN cDNA 1500031M22 (predicted) rn
RG-U34B:RC_AI043960_AT Similar to RIKEN cDNA 1500031M22 (predicted) rn
YEAST_2:1775233_AT Essential 18S rRNA dimethylase, responsible for conserved m6(2)Am6(2)A dimethylation in 3'-terminal loop of 18 S rRNA, part of 90S and 40S pre-particles in nucleolus, involved in pre-ribosomal RNA processing Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
154 rRNA modification inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
179 rRNA (adenine-N6,N6-)-dimethyltransferase activity inferred from electronic annotation QuickGO AmiGO
8649 rRNA methyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA87382 Hypothetical protein E02H1.1 [Caenorhabditis elegans] ref|NP_496061.2| E02H1.1 [Caenorhabditis elegans] sp|Q09522|DIMI_CAEEL Probable dimethyladenosine transferase (S-adenosylmethionine-6-N',N'-adenosyl(rRNA) dimethyltransferase) (18S rRNA dimethylase) 1.0E-173
blast T20417 hypothetical protein E02H1.1 - Caenorhabditis elegans 1.0E-169
blast CAE57911 Hypothetical protein CBG00961 [Caenorhabditis briggsae] 1.0E-168
Protein Domains
Database ID Description E-Value
Pfam IPR001737 EMBL-EBI Ribosomal RNA adenine dimethylase 6.8E-66
Sequence
Target Sequence 
>C. ELEGANS:190910_AT
atggccattctttgacgtttgtgttgccaatcttccatatcaaatctcatctccttttgt
gcaaaaattgttattacatagaccacttccaagatacgcagttctcatgttccaaaaaga
gtttgctgaccggctagttgctcgaccgggagataaagattacagtagactttctgttaa
tgttcagctattggctaaagttgagatgctgatgaaagtgaagagaaccgaattcagacc
accgccaaaagttgattcagcagtcgtcagaatcgctcccaagaatccaccaccgccaga
atgggaaggacttcttcgtttgtgcttcatgcgaaaaaacaagacactgatggctatttt
ccgactttctaatgttattgaggttatcgaggataatttcagaaaagtatgcagtttcaa
aaacaaaccaattccaaaggatcttaacatgaaaaaggttattgaagagacattaacagc
ttcgggatatggagaaagccgcgctcgaaaaatgagagttgaggattttttggcacttct
tctcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCCATTCTTTGACGTTTGTGTT 234 51 348 Antisense
GTTTGTGTTGCCAATCTTCCATATC 96 453 364 Antisense
AAATCTCATCTCCTTTTGTGCAAAA 642 117 389 Antisense
GACCACTTCCAAGATACGCAGTTCT 682 381 428 Antisense
AAAGAGTTTGCTGACCGGCTAGTTG 448 87 463 Antisense
GGCTAGTTGCTCGACCGGGAGATAA 194 529 479 Antisense
TTCAGCAGTCGTCAGAATCGCTCCC 669 683 603 Antisense
AATCCACCACCGCCAGAATGGGAAG 562 165 631 Antisense
GAAGGACTTCTTCGTTTGTGCTTCA 46 335 652 Antisense
TGATGGCTATTTTCCGACTTTCTAA 45 567 695 Antisense
GAGGATTTTTTGGCACTTCTTCTCG 582 403 868 Antisense
Sequence Source Affymetrix Proprietary Database