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[173950_at]

Description CE18G4 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y106G6H.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89219 /WB_GENE_ID=Y106G6H.5 /WP=CE20415 /CHR=1 /FEA=Genomic Cluster /DEF=CEL18G4 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm18g4 5prime, mRNA sequence.
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 68      4grp_highest_8_8 > 38      4grp_high_8_8 > 04      6grp_highest_nonorm > 95      6grp_total > 79      4grp_total > 05      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 945
1 2 3 4 range
A 761
(-0.1)
P 		480.1
(-2.8)
P 		461.7
(-3)
P 		1075.7
(3)
P 		614
B 636.2
(-1.6)
P 		417.3
(-3)
P 		481.7
(-2.6)
P 		1362.1
(3)
P 		945
C 753.1
(-0)
P 		448.9
(-3)
P 		586.4
(-1.7)
P 		1060.2
(3)
P 		611
avr 716.8
(-0.8) 		448.8
(-3) 		509.9
(-2.5) 		1166
(3) 		717

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 995
1 2 3 4 5 6 range
A 630.3
(-1.4)
P 		607.6
(-1.7)
P 		588.2
(-2)
P 		514.9
(-3)
P 		681.9
(-0.7)
P 		953.6
(3)
P 		439
B 683.5
(-2.3)
P 		917
(-0.3)
P 		598
(-3)
P 		620.8
(-2.8)
P 		788.4
(-1.4)
P 		1319.5
(3)
P 		722
C 560.4
(-2.3)
P 		1156.5
(1.3)
P 		445.5
(-3)
P 		477.7
(-2.8)
P 		738.5
(-1.2)
P 		1440.2
(3)
P 		995
avr 624.7
(-2.3) 		893.7
(0.1) 		543.9
(-2.9) 		537.8
(-3) 		736.3
(-1.3) 		1237.8
(3) 		700
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 187
1 2 3 4 range
A 277.1
(3)
P 		104.2
(-3)
P 		120.7
(-2.4)
P 		157.5
(-1.2)
P 		173
B 202.9
(0.2)
P 		103.1
(-3)
P 		111.6
(-2.7)
P 		290.3
(3)
P 		187
C 249.3
(3)
P 		129.1
(-3)
P 		204.4
(0.8)
P 		178.8
(-0.5)
P 		120
avr 243.1
(3) 		112.1
(-3) 		145.6
(-1.5) 		208.9
(1.4) 		131

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 396
1 2 3 4 5 6 range
A 116.2
(-3)
P 		216.1
(2.2)
P 		128.1
(-2.4)
P 		130.6
(-2.3)
P 		205.8
(1.6)
P 		232.2
(3)
P 		116
B 237.8
(-1.4)
P 		305.2
(-0.2)
P 		145.2
(-3)
P 		164.4
(-2.7)
P 		320.3
(0)
P 		492.1
(3)
P 		347
C 207.7
(-1.3)
P 		352.9
(1)
P 		113.4
(-2.7)
P 		96.1
(-3)
P 		239
(-0.8)
P 		482.1
(3)
P 		386
avr 187.2
(-1.7) 		291.4
(0.6) 		128.9
(-3) 		130.4
(-3) 		255
(-0.2) 		402.1
(3) 		273
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173950_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23102
Sequence Type Exemplar sequence
Representative Public ID CE18G4 NCBI
Target Description CE18G4 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y106G6H.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89219 /WB_GENE_ID=Y106G6H.5 /WP=CE20415 /CHR=1 /FEA=Genomic Cluster /DEF=CEL18G4 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm18g4 5prime, mRNA sequence.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_060329(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060329 NCBI Caenorhabditis elegans Y106G6H.5 (Y106G6H.5) mRNA, complete cds. 11/11 None
Y106G6H.5.1 ENSEMBL cdna:known chromosome:CEL140:I:10446198:10451686:-1 gene:Y106G6H.5 11/11 None
Y106G6H.5.2 ENSEMBL cdna:known chromosome:CEL140:I:10446201:10451688:-1 gene:Y106G6H.5 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
chrI:10446139-10451600(-) 99.15 100.0
Public Domain and Genome References
Gene Title
Ensembl Y106G6H.5
Entrez Gene 172922 Entrez gene
SwissProt Q9U300 EMBL-EBI
WormBase CE32511 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.30800.1.S1_S_AT similar to pyruvate dehydrogenase phosphatase regulatory subunit cfa
DROSOPHILA_2:1633964_AT dm
DROSGENOME1:144476_AT dm
CHICKEN:GGAAFFX.25584.4.S1_S_AT similar to pyruvate dehydrogenase phosphatase regulatory subunit gga
HG-U133_PLUS_2:220236_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133A:220236_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133A_2:220236_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HU35KSUBB:RC_R09107_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HU35KSUBB:RC_H03940_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HU35KSUBC:RC_F10966_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
U133_X3P:G13775157_3P_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
U133_X3P:HS.170263.2.A2_3P_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
U133_X3P:HS.170263.2.A1_3P_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133_PLUS_2:1558999_X_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133_PLUS_2:224902_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133B:224902_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133_PLUS_2:224904_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U133B:224904_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U95B:44335_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U95B:45865_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U95B:57036_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U95D:77513_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
HG-U95E:84673_AT pyruvate dehydrogenase phosphatase regulatory subunit hs
MG-U74BV2:113318_AT RIKEN cDNA 4930402E16 gene mm
MG-U74BV2:162720_AT RIKEN cDNA 4930402E16 gene mm
MOE430B:1434480_AT RIKEN cDNA 4930402E16 gene mm
MOUSE430_2:1434480_AT RIKEN cDNA 4930402E16 gene mm
MOE430B:1444665_AT RIKEN cDNA 4930402E16 gene mm
MOUSE430_2:1444665_AT RIKEN cDNA 4930402E16 gene mm
MOE430B:1459869_X_AT RIKEN cDNA 4930402E16 gene mm
MOUSE430_2:1459869_X_AT RIKEN cDNA 4930402E16 gene mm
MOE430B:1454980_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MOUSE430_2:1454980_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MG-U74BV2:110054_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MOE430B:1459036_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MOUSE430_2:1459036_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MU19KSUBB:TC28636_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MU19KSUBB:TC28636_G_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
MU19KSUBB:TC31555_AT RIKEN cDNA 4930402E16 gene (4930402E16Rik), mRNA mm
RG-U34B:RC_AI059453_AT similar to pyruvate dehydrogenase phosphatase regulatory subunit (predicted) rn
RAE230B:1392726_AT similar to pyruvate dehydrogenase phosphatase regulatory subunit (predicted) rn
RAT230_2:1392726_AT similar to pyruvate dehydrogenase phosphatase regulatory subunit (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
4047 aminomethyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB63337 Hypothetical protein Y106G6H.5 [Caenorhabditis elegans] ref|NP_492730.2| Y106G6H.5 [Caenorhabditis elegans] 0.0
blast CAE58942 Hypothetical protein CBG02210 [Caenorhabditis briggsae] 0.0
blast AAF45943 CG3626-PA [Drosophila melanogaster] ref|NP_572162.2| CG3626-PA [Drosophila melanogaster] 1.0E-167
Protein Domains
Database ID Description E-Value
Pfam IPR006076 EMBL-EBI FAD dependent oxidoreductase 5.4E-9
Pfam IPR006222 EMBL-EBI Glycine cleavage T protein (aminomethyl transferase) 3.2E-60
Sequence
Target Sequence 
>C. ELEGANS:173950_AT
gaccgactcaatgattgcttcttgccatcttagtgaacatatttagacaacttagctgaa
tccagatgttgaatttagaattcaatttcctactttgtactttttttcttttttgtttct
caatctcgatgccatattggttgtacgataattgtaattgtgacttcatccacccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCGACTCAATGATTGCTTCTTGC 254 381 2619 Antisense
TTGCTTCTTGCCATCTTAGTGAACA 2 701 2633 Antisense
TCTTGCCATCTTAGTGAACATATTT 109 619 2638 Antisense
GAACATATTTAGACAACTTAGCTGA 512 351 2653 Antisense
GACAACTTAGCTGAATCCAGATGTT 647 365 2664 Antisense
GAATTCAATTTCCTACTTTGTACTT 74 325 2696 Antisense
TTCTTTTTTGTTTCTCAATCTCGAT 135 691 2724 Antisense
TGTTTCTCAATCTCGATGCCATATT 548 561 2732 Antisense
ATCTCGATGCCATATTGGTTGTACG 703 31 2741 Antisense
GCCATATTGGTTGTACGATAATTGT 242 281 2749 Antisense
TGTAATTGTGACTTCATCCACCCAG 251 559 2771 Antisense
Sequence Source Affymetrix Proprietary Database