[Home] | [Total List]

[173951_s_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 > 69      4grp_highest_8_8 > 37      4grp_high_8_8 > 03      6grp_highest_nonorm > 85      6grp_total > 79      4grp_total > 06      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 765
1 2 3 4 range
A 936.5
(0.2)
P 		546
(-3)
P 		577.8
(-2.7)
P 		1278.2
(3)
P 		732
B 1006.8
(1.2)
P 		529.1
(-3)
P 		746.7
(-1.1)
P 		1208.5
(3)
P 		679
C 884.5
(0.7)
P 		513.7
(-3)
P 		705.6
(-1.1)
P 		1111.8
(3)
P 		598
avr 942.6
(0.7) 		529.6
(-3) 		676.7
(-1.7) 		1199.5
(3) 		670

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 504
1 2 3 4 5 6 range
A 735.7
(-1.1)
P 		848.2
(0.9)
P 		632.8
(-3)
P 		692.7
(-1.9)
P 		838
(0.8)
P 		961
(3)
P 		328
B 955.3
(1.1)
P 		938.2
(0.6)
P 		817.8
(-2.2)
P 		786.4
(-3)
P 		880.5
(-0.7)
P 		1036.2
(3)
P 		250
C 788
(0.3)
P 		992.3
(3)
P 		736.7
(-0.3)
P 		532
(-3)
P 		773.1
(0.1)
P 		963.5
(2.6)
P 		460
avr 826.3
(-0) 		926.2
(1.8) 		729.1
(-1.9) 		670.4
(-3) 		830.5
(0) 		986.9
(3) 		317
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 223
1 2 3 4 range
A 341
(3)
P 		118.5
(-3)
P 		151
(-2.1)
P 		187.1
(-1.2)
P 		223
B 321.1
(3)
P 		130.7
(-3)
P 		173
(-1.7)
P 		257.5
(1)
P 		190
C 292.8
(3)
P 		147.7
(-3)
P 		245.9
(1.1)
P 		187.5
(-1.4)
P 		145
avr 318.3
(3) 		132.3
(-3) 		190
(-1.1) 		210.7
(-0.5) 		186

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 279
1 2 3 4 5 6 range
A 135.6
(-3)
P 		301.7
(3)
P 		137.8
(-2.9)
P 		175.7
(-1.6)
P 		252.9
(1.2)
P 		234
(0.6)
P 		166
B 332.4
(1.3)
P 		312.3
(0.6)
P 		198.6
(-3)
P 		208.3
(-2.7)
P 		357.7
(2.1)
P 		386.4
(3)
P 		188
C 292.1
(2.2)
P 		302.8
(2.4)
P 		187.5
(-0.8)
P 		107
(-3)
P 		250.2
(1)
P 		322.6
(3)
P 		216
avr 253.4
(0.6) 		305.6
(2.7) 		174.6
(-2.6) 		163.7
(-3) 		286.9
(1.9) 		314.3
(3) 		151
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173951_s_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
SNAP00000001705 ENSEMBL cdna:SNAP chromosome:CEL140:I:10446411:10451668:-1 11/11 None
GENEFINDER00000001715 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10446411:10454256:-1 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
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
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
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) 1.6E-56
Pfam IPR006076 EMBL-EBI FAD dependent oxidoreductase 5.4E-9
Pfam IPR006222 EMBL-EBI Glycine cleavage T protein (aminomethyl transferase) 3.2E-60
Pfam IPR006222 EMBL-EBI Glycine cleavage T protein (aminomethyl transferase) 3.2E-60
Sequence
Target Sequence 
>C. ELEGANS:173951_S_AT
gcaacagtgacacctgtcgagtgtggacgacttttccgtgttgattttaaaaaggatttc
atagggaaaaaagcacttgaagaacaagttgaacgtggagtttcgaagcgatttgtacaa
ctgcttgttgatggacatgataaggaaactgatccatggcctcaaggaggtgaaactatt
ttgaaagatggacgagctgttgggttgacaacttctgcggcatatggtttcactttggga
tgtcaggtttgcattggctacgtggaaaataaagagtttggagtatcacctgaatttgta
tcatctggacactttgaaattgatatagctggaaaaaggttcacatgccgtctcaacgtt
cattcaccttcacttccaatgatatccagcgagcatccacttcactacagaccgactcaa
tga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAACAGTGACACCTGTCGAGTGTG 513 319 2210 Antisense
GAAACTGATCCATGGCCTCAAGGAG 156 357 2354 Antisense
AAGATGGACGAGCTGTTGGGTTGAC 97 151 2394 Antisense
GTTGGGTTGACAACTTCTGCGGCAT 496 435 2408 Antisense
TCTGCGGCATATGGTTTCACTTTGG 372 609 2423 Antisense
GGGATGTCAGGTTTGCATTGGCTAC 439 495 2446 Antisense
GTATCACCTGAATTTGTATCATCTG 106 455 2492 Antisense
TTCACATGCCGTCTCAACGTTCATT 344 687 2549 Antisense
ATTCACCTTCACTTCCAATGATATC 37 13 2571 Antisense
CAATGATATCCAGCGAGCATCCACT 371 183 2586 Antisense
ACTTCACTACAGACCGACTCAATGA 238 103 2608 Antisense
Sequence Source Affymetrix Proprietary Database