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[189129_at] rRNA methylase

Description T14B4.1 /REP_DB=WormBase Gene ID /WP=CE02044 /TR=Q22484 /GB=AAK31550.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=rRNA methylase
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 76      4grp_highest_8_8 > 33      4grp_high_8_8 > 58      6grp_highest_nonorm > 83      6grp_total > 66      4grp_total > 61      6grp_highest_sub > Da      6grp_high1_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 283
1 2 3 4 range
A 627.2
(3)
P 		534
(0.7)
P 		561.2
(1.4)
P 		379.3
(-3)
P 		248
B 516.5
(2.1)
P 		472.7
(0.8)
P 		548
(3)
P 		344.3
(-3)
P 		204
C 604.3
(3)
P 		506.6
(-0.2)
P 		552.1
(1.3)
P 		422.9
(-3)
P 		181
avr 582.7
(3) 		504.4
(0.7) 		553.8
(2.1) 		382.2
(-3) 		201

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 330
1 2 3 4 5 6 range
A 395.3
(-3)
P 		425.5
(-2.1)
P 		394.6
(-3)
P 		430.5
(-1.9)
P 		474.9
(-0.5)
P 		590.6
(3)
P 		196
B 323.6
(-3)
P 		511.4
(0.6)
P 		576
(1.9)
P 		335.3
(-2.8)
P 		372.4
(-2.1)
P 		635.2
(3)
P 		312
C 365.2
(-1.9)
P 		465.1
(-0)
P 		305.7
(-3)
P 		376
(-1.7)
P 		341.9
(-2.3)
P 		626.5
(3)
P 		321
avr 361.4
(-3) 		467.3
(-0.5) 		425.4
(-1.5) 		380.6
(-2.6) 		396.4
(-2.2) 		617.4
(3) 		256
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 173
1 2 3 4 range
A 228.4
(3)
P 		115.9
(-0.9)
P 		146.7
(0.2)
P 		55.5
(-3)
P 		173
B 164.7
(3)
P 		116.7
(-0.2)
P 		127
(0.5)
P 		73.4
(-3)
P 		91
C 200.1
(3)
P 		145.7
(0.5)
P 		192.4
(2.6)
P 		71.3
(-3)
P 		129
avr 197.7
(3) 		126.1
(-0.3) 		155.4
(1.1) 		66.7
(-3) 		131

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 72.9
(-3)
P 		151.3
(3)
P 		85.9
(-2)
P 		109.2
(-0.2)
P 		143.3
(2.4)
P 		143.8
(2.4)
P 		78
B 112.6
(-2)
P 		170.2
(0.3)
P 		139.9
(-0.9)
P 		88.8
(-3)
P 		151.3
(-0.5)
P 		236.9
(3)
P 		148
C 135.3
(-0.3)
P 		141.9
(-0)
P 		77.8
(-2.9)
P 		75.6
(-3)
P 		110.6
(-1.4)
P 		209.7
(3)
P 		134
avr 106.9
(-2.1) 		154.5
(0.6) 		101.2
(-2.4) 		91.2
(-3) 		135.1
(-0.5) 		196.8
(3) 		106
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189129_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5033
Sequence Type Exemplar sequence
Representative Public ID T14B4.1 NCBI
Target Description T14B4.1 /REP_DB=WormBase Gene ID /WP=CE02044 /TR=Q22484 /GB=AAK31550.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=rRNA methylase
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_062974(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062974 NCBI Caenorhabditis elegans T14B4.1 (T14B4.1) mRNA, complete cds. 11/11 None
SNAP00000017937 ENSEMBL cdna:SNAP chromosome:CEL140:II:6739854:6741331:1 11/11 None
GENEFINDER00000017963 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6739854:6741331:1 11/11 None
T14B4.1 ENSEMBL cdna:known chromosome:CEL140:II:6736843:6741404:1 gene:T14B4.1 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:6736839-6741328(+) 100.0 100.0
Public Domain and Genome References
Gene Title rRNA methylase
Ensembl T14B4.1
Entrez Gene 174110 Entrez gene
SwissProt Q22484 EMBL-EBI
WormBase CE32068 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6396 RNA processing inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
8173 RNA methyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_495375 T14B4.1 [Caenorhabditis elegans] gb|AAK31550.2| Hypothetical protein T14B4.1 [Caenorhabditis elegans] 0.0
blast T28895 hypothetical protein T14B4.1 - Caenorhabditis elegans 0.0
blast CAE66024 Hypothetical protein CBG11218 [Caenorhabditis briggsae] 0.0
blast CAE66024 Hypothetical protein CBG11218 [Caenorhabditis briggsae] 1.0E-147
Protein Domains
Database ID Description E-Value
Pfam IPR001537 EMBL-EBI tRNA/rRNA methyltransferase (SpoU) 3.3E-12
Pfam IPR001537 EMBL-EBI tRNA/rRNA methyltransferase (SpoU) 3.3E-12
Sequence
Target Sequence 
>C. ELEGANS:189129_AT
cgaagaatgccagttgtgctccgagcatggagaatgaggatgttggtgaagaagaatctc
caattgaattcgatgaacaacctgaaaataccaatgcatcaacttcgttccaacggaaaa
tcgtcaaggaaaacgagctgaacgacggtggaatttcactgattgttgtggcttctttag
tggataaaccgaacaaccttggtggaatctgtagaacgtctgaaatttttggagttgaca
cacttgtcgttgccgatgttctcgtcgcccaggatgcgaacttcaaagcattgagcatga
gctcagagaattggcagaaaatcgaaggggttaaacgaacaaacttgctcccatatcttc
aaaatcttcgagccaacggatacacagtgatcgcagctgaacagacgactgatagtgtga
tgatgcatgattttgtattcccaaagaaggctgtgattgttatgggcgatgaaaaagaag
gagttccggtgaatctactacgcgcagttgatcaaactgtggaaatcaaacaagttgggc
atactcgaagtttgaatgtgcacgtcacggcggcgcttatgattgcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAAGAATGCCAGTTGTGCTCCGAG 538 253 3002 Antisense
ATACCAATGCATCAACTTCGTTCCA 253 23 3089 Antisense
GATTGTTGTGGCTTCTTTAGTGGAT 471 433 3162 Antisense
TGACACACTTGTCGTTGCCGATGTT 484 571 3237 Antisense
CTCGTCGCCCAGGATGCGAACTTCA 254 233 3262 Antisense
AAACGAACAAACTTGCTCCCATATC 204 127 3334 Antisense
TGCTCCCATATCTTCAAAATCTTCG 514 581 3347 Antisense
GAGCCAACGGATACACAGTGATCGC 379 385 3371 Antisense
AGGAGTTCCGGTGAATCTACTACGC 344 1 3480 Antisense
AGTTTGAATGTGCACGTCACGGCGG 106 63 3550 Antisense
GTCACGGCGGCGCTTATGATTGCTA 582 463 3565 Antisense
Sequence Source Affymetrix Proprietary Database