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[192492_at] s-adenosylmethionine synthetase

Description C49F5.1 /REP_DB=WormBase Gene ID /WP=CE08852 /TR=SW:O17680 /GB=CAB03975.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=s-adenosylmethionine synthetase
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 21      4grp_highest_8_8 > 18      4grp_high_8_8 > 63      6grp_highest_nonorm > 15      6grp_total > 31      4grp_total > 56      6grp_highest_sub > 02      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_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 9748
1 2 3 4 range
A 6396.7
(-2.1)
P 		8672.6
(-0.5)
P 		13661.4
(3)
P 		5131.4
(-3)
P 		8530
B 8223.7
(-0.1)
P 		8305.4
(-0.1)
P 		12074.5
(3)
P 		4670.2
(-3)
P 		7404
C 6057
(-1.3)
P 		7908.8
(0.1)
P 		11565.5
(3)
P 		3913.4
(-3)
P 		7652
avr 6892.5
(-1.2) 		8295.6
(-0.2) 		12433.8
(3) 		4571.7
(-3) 		7862

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6093
1 2 3 4 5 6 range
A 6696.3
(1.7)
P 		7895.5
(3)
P 		6661.3
(1.7)
P 		5971.7
(0.9)
P 		3567.5
(-1.6)
P 		2295.8
(-3)
P 		5600
B 5929.8
(1)
P 		7399.7
(2.7)
P 		7648.8
(3)
P 		6980.3
(2.2)
P 		2872.5
(-2.5)
P 		2393.6
(-3)
P 		5255
C 5958.6
(0.6)
P 		7314.3
(1.9)
P 		8388.4
(3)
P 		5769
(0.4)
P 		3608.3
(-1.7)
P 		2308.2
(-3)
P 		6080
avr 6194.9
(1.4) 		7536.5
(3) 		7566.2
(3) 		6240.3
(1.5) 		3349.4
(-1.8) 		2332.5
(-3) 		5234
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3371
1 2 3 4 range
A 2329
(0.4)
P 		1882.6
(-0.6)
P 		3571.4
(3)
P 		751.1
(-3)
P 		2820
B 2622.5
(2.4)
P 		2051.2
(0.5)
P 		2797.9
(3)
P 		995.2
(-3)
P 		1803
C 2005.1
(-0.6)
P 		2273.8
(-0.1)
P 		4030.9
(3)
P 		659.9
(-3)
P 		3371
avr 2318.9
(0.4) 		2069.2
(-0.1) 		3466.7
(3) 		802.1
(-3) 		2665

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2249
1 2 3 4 5 6 range
A 1234.4
(-1.2)
P 		2808
(3)
P 		1450.7
(-0.6)
P 		1514.6
(-0.5)
P 		1076.5
(-1.6)
P 		559
(-3)
P 		2249
B 2063.3
(1.5)
P 		2463.1
(3)
P 		1857.4
(0.7)
P 		1848.9
(0.7)
P 		1167.1
(-2)
P 		892.6
(-3)
P 		1571
C 2208.6
(2.9)
P 		2231.8
(3)
P 		2135
(2.6)
P 		1160.2
(-1.4)
P 		1167.6
(-1.4)
P 		772.7
(-3)
P 		1459
avr 1835.4
(0.7) 		2501
(3) 		1814.4
(0.7) 		1507.9
(-0.4) 		1137.1
(-1.7) 		741.4
(-3) 		1760
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192492_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17305
Sequence Type Exemplar sequence
Representative Public ID C49F5.1 NCBI
Target Description C49F5.1 /REP_DB=WormBase Gene ID /WP=CE08852 /TR=SW:O17680 /GB=CAB03975.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=s-adenosylmethionine synthetase
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_077601(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077601 NCBI Caenorhabditis elegans C49F5.1 (C49F5.1) mRNA, complete cds. 11/11 A 
SNAP00000033505 ENSEMBL cdna:SNAP chromosome:CEL140:X:11965949:11967314:1 11/11 None
GENEFINDER00000033516 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11965949:11967314:1 11/11 None
C49F5.1.1 ENSEMBL cdna:known chromosome:CEL140:X:11965883:11968237:1 gene:C49F5.1 11/11 A 
C49F5.1.2 ENSEMBL cdna:known chromosome:CEL140:X:11965902:11969705:1 gene:C49F5.1 11/11 A 
C49F5.1.3 ENSEMBL cdna:known chromosome:CEL140:X:11965902:11968030:1 gene:C49F5.1 11/11 A 
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
chrX:11965948-11967314(+) 100.0 100.0
Public Domain and Genome References
Gene Title s-adenosylmethionine synthetase
Gene Symbol sams-1
Ensembl C49F5.1
Entrez Gene 181370 Entrez gene
SwissProt O17680 EMBL-EBI
WormBase CE08852 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258415_AT S-adenosylmethionine synthetase, putative at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6730 one-carbon compound metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4478 methionine adenosyltransferase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03975 Hypothetical protein C49F5.1 [Caenorhabditis elegans] ref|NP_510002.1| C49F5.1 [Caenorhabditis elegans] sp|O17680|METM_CAEEL Probable S-adenosylmethionine synthetase C49F5.1 (Methionine adenosyltransferase) (AdoMet synthetase) 0.0
blast CAE69397 Hypothetical protein CBG15526 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002133 EMBL-EBI S-adenosylmethionine synthetase 4.4E-64
Pfam IPR002133 EMBL-EBI S-adenosylmethionine synthetase 4.7E-90
Pfam IPR002133 EMBL-EBI S-adenosylmethionine synthetase 2.4E-86
Sequence
Target Sequence 
>C. ELEGANS:192492_AT
caacactctccagatgttactcttgagaaactccgcgagaccatcctcgctgatgttatc
aagaaggtcatcccagcttctcttttggacgagtctactgtcttccacatcaacccatgc
ggaaccttcatcgttggaggaccaatgggagacgcaggagtcaccggacgtaagatcatc
gtcgacacctacggaggatggggagctcacggaggaggtgctttctctggaaaggaccca
accaaggtcgatcgctctgctgcctacgctgcccgttgggtagccacctcattggtcaag
gctggacttgctaagcgcgtcctcgtccaactttcctacgctattggaatcgccaagcca
atctcagttttggtctatgctttcggaacttccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACACTCTCCAGATGTTACTCTTG 574 189 595 Antisense
CAAGAAGGTCATCCCAGCTTCTCTT 701 183 654 Antisense
TTGGACGAGTCTACTGTCTTCCACA 408 709 679 Antisense
TTCCACATCAACCCATGCGGAACCT 33 701 697 Antisense
GCGGAACCTTCATCGTTGGAGGACC 589 293 713 Antisense
GACGCAGGAGTCACCGGACGTAAGA 30 377 745 Antisense
GCCACCTCATTGGTCAAGGCTGGAC 454 279 877 Antisense
AGGCTGGACTTGCTAAGCGCGTCCT 409 51 893 Antisense
CGTCCAACTTTCCTACGCTATTGGA 73 245 918 Antisense
GAATCGCCAAGCCAATCTCAGTTTT 59 331 941 Antisense
TTGGTCTATGCTTTCGGAACTTCCC 604 707 964 Antisense
Sequence Source Affymetrix Proprietary Database