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[188683_at] aminomethytransferase

Description F25B4.1 /REP_DB=WormBase Gene ID /WP=CE09620 /GB=AAB37080.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=aminomethytransferase
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 41      4grp_highest_8_8 > 17      4grp_high_8_8 > 60      6grp_highest_nonorm > 33      6grp_total > 52      4grp_total > 59      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1224
1 2 3 4 range
A 1695.5
(0.7)
P 		2032.8
(2.7)
P 		2088.5
(3)
P 		1075.1
(-3)
P 		1013
B 1613.9
(-1.2)
P 		1844.3
(0.2)
P 		2298.7
(3)
P 		1326.4
(-3)
P 		972
C 2060.8
(3)
P 		1876
(1.7)
P 		2008.1
(2.6)
P 		1181.8
(-3)
P 		879
avr 1790.1
(0.8) 		1917.7
(1.6) 		2131.8
(3) 		1194.4
(-3) 		937

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1536
1 2 3 4 5 6 range
A 1134.2
(-2.2)
P 		1840.7
(1)
P 		2278.8
(3)
P 		1654.7
(0.2)
P 		953.7
(-3)
P 		1088.6
(-2.4)
P 		1325
B 1058.5
(-2.9)
P 		1482.6
(-0.4)
P 		2066.9
(3)
P 		1305.3
(-1.4)
P 		1125.8
(-2.5)
P 		1035.2
(-3)
P 		1032
C 1468.8
(-1.5)
P 		1311.6
(-2.2)
P 		2489.9
(3)
P 		1267.5
(-2.4)
P 		1304.8
(-2.2)
P 		1123.4
(-3)
P 		1367
avr 1220.5
(-2.3) 		1545
(-0.7) 		2278.5
(3) 		1409.2
(-1.4) 		1128.1
(-2.8) 		1082.4
(-3) 		1196
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 543
1 2 3 4 range
A 617.3
(3)
P 		441.3
(0.7)
P 		546
(2.1)
P 		157.4
(-3)
P 		460
B 514.7
(2.6)
P 		455.5
(1.1)
P 		532.7
(3)
P 		282.7
(-3)
P 		250
C 682.2
(2.8)
P 		539.3
(1.1)
P 		699.9
(3)
P 		199.3
(-3)
P 		501
avr 604.7
(3) 		478.7
(1.1) 		592.9
(2.8) 		213.1
(-3) 		392

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 446
1 2 3 4 5 6 range
A 209.1
(-3)
P 		654.6
(3)
P 		496.3
(0.9)
P 		419.7
(-0.2)
P 		287.8
(-1.9)
P 		265
(-2.2)
P 		446
B 368.3
(-2.1)
P 		493.5
(2.7)
P 		501.9
(3)
P 		345.7
(-3)
P 		457.4
(1.3)
P 		386
(-1.5)
P 		156
C 544.4
(1.6)
P 		400.2
(-0.7)
P 		633.7
(3)
P 		254.9
(-3)
P 		422.2
(-0.4)
P 		376.1
(-1.1)
P 		379
avr 373.9
(-2) 		516.1
(2.2) 		544
(3) 		340.1
(-3) 		389.1
(-1.6) 		342.4
(-2.9) 		204
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188683_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12486
Sequence Type Exemplar sequence
Representative Public ID F25B4.1 NCBI
Target Description F25B4.1 /REP_DB=WormBase Gene ID /WP=CE09620 /GB=AAB37080.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=aminomethytransferase
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_072101(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072101 NCBI Caenorhabditis elegans F25B4.1 (aminomethytransferase) mRNA, complete cds. 11/11 A 
F25B4.1.1 ENSEMBL cdna:known chromosome:CEL140:V:5715498:5717351:1 gene:F25B4.1 11/11 None
F25B4.1.2 ENSEMBL cdna:known chromosome:CEL140:V:5715514:5717351:1 gene:F25B4.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000008368 8/11 Cross Hyb Matching Probes None
GENEFINDER00000008381 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:5715537-5717211(+) 100.0 100.0
Public Domain and Genome References
Gene Title aminomethytransferase
Ensembl F25B4.1
Entrez Gene 178960 Entrez gene
SwissProt Q22968 EMBL-EBI
WormBase CE09620 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264394_AT aminomethyltransferase, putative at
ATGENOME1:17420_AT aminomethyltransferase, putative at
DROSOPHILA_2:1623839_AT dm
DROSGENOME1:151967_AT dm
HG-U133_PLUS_2:204294_AT aminomethyltransferase (glycine cleavage system protein T) hs
HG-U133A:204294_AT aminomethyltransferase (glycine cleavage system protein T) hs
HG-FOCUS:204294_AT aminomethyltransferase (glycine cleavage system protein T) hs
HG-U133A_2:204294_AT aminomethyltransferase (glycine cleavage system protein T) hs
HU35KSUBD:RC_N59532_S_AT aminomethyltransferase (glycine cleavage system protein T) hs
HUGENEFL:D14686_AT aminomethyltransferase (glycine cleavage system protein T) hs
U133_X3P:G4502082_3P_AT aminomethyltransferase (glycine cleavage system protein T) hs
HG-U95AV2:41120_AT aminomethyltransferase (glycine cleavage system protein T) hs
YEAST_2:1776596_AT T subunit of the mitochondrial glycine decarboxylase complex, required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of levels of 5,10-methylene-THF in the cytoplasm Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6546 glycine catabolism inferred from electronic annotation QuickGO AmiGO
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 AAB37080 Hypothetical protein F25B4.1 [Caenorhabditis elegans] ref|NP_504502.1| F25B4.1 [Caenorhabditis elegans] 0.0
blast CAE64583 Hypothetical protein CBG09336 [Caenorhabditis briggsae] 0.0
blast AAH83400 Zgc:103483 [Danio rerio] gb|AAZ08415.1| glycine cleavage system protein T [Danio rerio] ref|NP_001006021.1| hypothetical protein LOC450000 [Danio rerio] 1.0E-102
Protein Domains
Database ID Description E-Value
Pfam IPR006222 EMBL-EBI Glycine cleavage T protein (aminomethyl transferase) 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:188683_AT
gtgtagagatttccgtggatccaacaaaagccgaacaactcgttgagcgtcttcttgctt
cacaagctggcagtgtgaagcttgccggactcggagctcgtgatgctcttcgtttggaag
caggtctctgtctttatggatctgatatcgaggaaaacacaacaccaatcgaggctggtc
tcgcttttgttgttgccaagcgtcgtcgtgagaccctggatttccctggagctgaacata
ttgtgaagcagctgaaagagaaaagttggccaaaacgccgtgttggtctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTAGAGATTTCCGTGGATCCAAC 483 485 683 Antisense
GGATCCAACAAAAGCCGAACAACTC 90 511 699 Antisense
AACAACTCGTTGAGCGTCTTCTTGC 465 135 716 Antisense
GGCAGTGTGAAGCTTGCCGGACTCG 74 535 751 Antisense
GCTCTTCGTTTGGAAGCAGGTCTCT 76 299 787 Antisense
AGCAGGTCTCTGTCTTTATGGATCT 432 77 801 Antisense
GAAAACACAACACCAATCGAGGCTG 232 355 835 Antisense
ATCGAGGCTGGTCTCGCTTTTGTTG 291 37 850 Antisense
TGTTGCCAAGCGTCGTCGTGAGACC 107 563 873 Antisense
CCTGGATTTCCCTGGAGCTGAACAT 461 265 897 Antisense
TGGCCAAAACGCCGTGTTGGTCTCC 51 543 949 Antisense
Sequence Source Affymetrix Proprietary Database