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[193655_s_at] Haemophilus hypothetical protein HI1074 like

Description B0035.16 /REP_DB=WormBase Gene ID /WP=CE26926 /TR=SW:Q17440 /GB=CAA97418.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Haemophilus hypothetical protein HI1074 like
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 04      4grp_high_8_8 > 37      6grp_highest_nonorm > 91      6grp_total > 96      4grp_total > 42      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 130
1 2 3 4 range
A 82.1
(-3)
P 		139
(1.1)
P 		145.2
(1.5)
P 		166.2
(3)
P 		84
B 132.5
(-1.8)
P 		212.3
(3)
P 		112.1
(-3)
P 		121.4
(-2.4)
P 		100
C 118
(-3)
P 		150.8
(2.2)
P 		156.2
(3)
P 		120.6
(-2.6)
P 		38
avr 110.9
(-3) 		167.4
(3) 		137.8
(-0.1) 		136.1
(-0.3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 168
1 2 3 4 5 6 range
A 196.2
(-0.6)
P 		164
(-2.7)
P 		197.7
(-0.5)
P 		159.7
(-3)
P 		250
(3)
P 		196.2
(-0.6)
P 		90
B 159.4
(-2.7)
P 		215.9
(0.5)
P 		153.9
(-3)
P 		238.8
(1.8)
P 		206.4
(-0)
P 		260.2
(3)
P 		106
C 98.3
(-3)
P 		132.2
(-1.8)
P 		151
(-1.1)
P 		152.7
(-1.1)
P 		246.2
(2.3)
P 		266
(3)
P 		168
avr 151.3
(-3) 		170.7
(-1.7) 		167.5
(-1.9) 		183.7
(-0.8) 		234.2
(2.6) 		240.8
(3) 		90
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 29.9
(-0.5)
P 		30.2
(-0.4)
P 		38
(3)
P 		24.3
(-3)
P 		14
B 42.2
(0.7)
P 		52.4
(3)
P 		26
(-3)
P 		25.9
(-3)
P 		27
C 39.1
(0.3)
P 		43.4
(1.1)
P 		54.4
(3)
P 		20.3
(-3)
P 		34
avr 37.1
(1.4) 		42
(3) 		39.5
(2.2) 		23.5
(-3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 36.2
(-3)
P 		58.3
(0.4)
P 		43
(-2)
P 		40.5
(-2.3)
P 		75.4
(3)
P 		47.8
(-1.2)
P 		39
B 55.5
(-1.2)
P 		71.9
(0.5)
P 		37.4
(-3)
P 		63.2
(-0.4)
P 		83.9
(1.7)
P 		97
(3)
P 		60
C 36.4
(-2.4)
P 		40.4
(-2)
P 		38.4
(-2.2)
P 		30.7
(-3)
P 		79.7
(2)
P 		89
(3)
P 		58
avr 42.7
(-2.5) 		56.9
(-0.4) 		39.6
(-3) 		44.8
(-2.2) 		79.7
(3) 		77.9
(2.7) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193655_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9674
Sequence Type Exemplar sequence
Representative Public ID B0035.16 NCBI
Target Description B0035.16 /REP_DB=WormBase Gene ID /WP=CE26926 /TR=SW:Q17440 /GB=CAA97418.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Haemophilus hypothetical protein HI1074 like
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_069719(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069719 NCBI Caenorhabditis elegans B0035.16 (B0035.16) mRNA, complete cds. 11/11 None
SNAP00000035826 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11295120:11296858:-1 11/11 None
GENEFINDER00000035845 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11295120:11296852:-1 10/11 None
B0035.16 ENSEMBL cdna:known chromosome:CEL140:IV:11295119:11296858:-1 gene:B0035.16 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
chrIV:11295125-11296858(-) 100.0 100.0
Public Domain and Genome References
Gene Title Haemophilus hypothetical protein HI1074 like
Ensembl B0035.16
Entrez Gene 178038 Entrez gene
SwissProt Q17440 EMBL-EBI
WormBase CE26926 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:265139_AT tRNA methyl transferase family protein at
ATGENOME1:13455_AT tRNA methyl transferase family protein at
CANINE_2:CFAAFFX.2088.1.S1_AT similar to tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1 isoform a cfa
CANINE_2:CFAAFFX.2090.1.S1_AT similar to tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1 isoform a cfa
DROSOPHILA_2:1632956_AT dm
DROSGENOME1:154513_AT dm
CHICKEN:GGA.3303.1.S1_S_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase gga
CHICKEN:GGAAFFX.12077.1.S1_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase gga
HG-U133_PLUS_2:213634_S_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase hs
HG-U133A_2:213634_S_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase hs
HG-U133A:213634_S_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase hs
HG-U95AV2:37443_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase hs
HU35KSUBD:RC_AA621329_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase hs
U133_X3P:HS.250671.1.S1_3P_A_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase hs
MG-U74BV2:163062_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase mm
MOE430B:1430828_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase mm
MOUSE430_2:1430828_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase mm
MOE430B:1452786_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase mm
MOUSE430_2:1452786_AT tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase mm
RAE230A:1371917_AT tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1 (predicted) rn
RAT230_2:1371917_AT tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1 (predicted) rn
YEAST_2:1770690_AT tRNA-specific 2-thiouridylase, responsible for 2-thiolation of the wobble base of mitochondrial tRNAs; human ortholog is implicated in myoclonus epilepsy associated with ragged red fibers (MERRF) Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8033 tRNA processing inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4808 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA97418 Hypothetical protein B0035.16 [Caenorhabditis elegans] ref|NP_502120.1| B0035.16 [Caenorhabditis elegans] sp|Q17440|TRMU_CAEEL Probable tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 0.0
blast T18663 hypothetical protein B0035.16 - Caenorhabditis elegans 0.0
blast CAE62046 Hypothetical protein CBG06062 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004506 EMBL-EBI tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1.0E-126
Pfam IPR004506 EMBL-EBI tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1.0E-126
Pfam IPR004506 EMBL-EBI tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:193655_S_AT
gcaatgttcccattaggatctctacaaaaatcagaagtgaagcgaattgcagaagaacag
ggatttcaggaagttgccaaaaaacccgagagcatgggaatttgttttattggaaagaaa
aaacgattttcggattttctagatgaatatatcgaacccaagccaggacgcattttattg
aaaaacggatcagagattgggaatcatcatggaatccatcaattcacaattggaaaacga
ataaatgggaaatatttagaagcacgaagccatttgggatttttcgtatcccatattcat
tcagatacgggggatattatagcatgtgaaggatctcaccatccagatctctatgcttct
agatttctgatcaaccatccaaaatggatccgaacttttgatcctttcaatcgaatatct
tctaataactttctatgtcgaattcaaagaacacatcctccgattccatgtgtcgctgag
aaacaggaacaattcctatcagtgataccacgactagctcttcgtgcaactgcacctggg
cagatgtgcgtcttctacaatacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAATGTTCCCATTAGGATCTCTAC 647 321 505 Antisense
GAACCCAAGCCAGGACGCATTTTAT 230 347 658 Antisense
GATTTTTCGTATCCCATATTCATTC 325 429 782 Antisense
GAAGGATCTCACCATCCAGATCTCT 60 335 832 Antisense
CATCCAGATCTCTATGCTTCTAGAT 406 211 844 Antisense
TCTAGATTTCTGATCAACCATCCAA 392 615 862 Antisense
TTCAAAGAACACATCCTCCGATTCC 355 685 947 Antisense
TCCGATTCCATGTGTCGCTGAGAAA 434 595 963 Antisense
CAGTGATACCACGACTAGCTCTTCG 50 209 1004 Antisense
TCTTCGTGCAACTGCACCTGGGCAG 343 615 1023 Antisense
GCAGATGTGCGTCTTCTACAATACC 243 311 1044 Antisense
Sequence Source Affymetrix Proprietary Database