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[192995_at] succinyl-CoA synthetase beta chain

Description C50F7.4 /REP_DB=WormBase Gene ID /WP=CE04242 /TR=SW:P53589 /GB=AAA83304.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=succinyl-CoA synthetase beta chain
Cluster 6grp_highest_10_10 > 58      6grp_high1_10_10 > 85      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 97      6grp_total > 76      4grp_total > 56      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 891
1 2 3 4 range
A 818.9
(-2.3)
P 		1128.1
(1.2)
P 		1287.1
(3)
P 		759.4
(-3)
P 		528
B 717.7
(-2.5)
P 		1069.1
(-0.1)
P 		1507.8
(3)
P 		649
(-3)
P 		859
C 689.4
(-2.5)
P 		1008.9
(-0.2)
P 		1443
(3)
P 		616.9
(-3)
P 		826
avr 742
(-2.5) 		1068.7
(0.2) 		1412.6
(3) 		675.1
(-3) 		738

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 798
1 2 3 4 5 6 range
A 668.2
(-3)
P 		766.8
(-1.9)
P 		1070.6
(1.3)
P 		936.8
(-0.1)
P 		933.9
(-0.1)
P 		1223.8
(3)
P 		556
B 774.9
(-3)
P 		1009.4
(-0.7)
P 		1000.6
(-0.8)
P 		1032.2
(-0.5)
P 		1091.1
(0.1)
P 		1382.3
(3)
P 		607
C 613.3
(-3)
P 		871.6
(-1.1)
P 		895.2
(-0.9)
P 		1234.6
(1.7)
P 		865.7
(-1.1)
P 		1411
(3)
P 		798
avr 685.5
(-3) 		882.6
(-1.2) 		988.8
(-0.2) 		1067.9
(0.5) 		963.6
(-0.4) 		1339
(3) 		654
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 399
1 2 3 4 range
A 298.2
(2)
P 		244.9
(0.6)
P 		336.5
(3)
P 		111.2
(-3)
P 		225
B 228.9
(-0.4)
P 		264
(0.6)
P 		349.4
(3)
P 		138.3
(-3)
P 		211
C 228.2
(-1.1)
P 		290.1
(-0.2)
P 		502.9
(3)
P 		104
(-3)
P 		399
avr 251.8
(-0.1) 		266.3
(0.2) 		396.3
(3) 		117.8
(-3) 		279

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 392
1 2 3 4 5 6 range
A 123.2
(-3)
P 		272.7
(2.1)
P 		233.1
(0.8)
P 		237.6
(0.9)
P 		281.8
(2.4)
P 		298
(3)
P 		175
B 269.6
(-2.4)
P 		336
(-1)
P 		243
(-3)
P 		273.4
(-2.3)
P 		443.3
(1.4)
P 		515.4
(3)
P 		272
C 227.3
(-3)
P 		266
(-2.1)
P 		227.8
(-3)
P 		248.3
(-2.5)
P 		280.1
(-1.7)
P 		472.4
(3)
P 		245
avr 206.7
(-3) 		291.6
(-0.7) 		234.6
(-2.2) 		253.1
(-1.7) 		335.1
(0.5) 		428.6
(3) 		222
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192995_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9237
Sequence Type Exemplar sequence
Representative Public ID C50F7.4 NCBI
Target Description C50F7.4 /REP_DB=WormBase Gene ID /WP=CE04242 /TR=SW:P53589 /GB=AAA83304.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=succinyl-CoA synthetase beta chain
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_068865(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068865 NCBI Caenorhabditis elegans C50F7.4 (C50F7.4) mRNA, complete cds. 11/11 None
SNAP00000024188 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7728903:7730454:1 11/11 None
GENEFINDER00000024196 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7728903:7730454:1 11/11 None
C50F7.4 ENSEMBL cdna:known chromosome:CEL140:IV:7728903:7730585:1 gene:C50F7.4 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:7728908-7730460(+) 100.0 100.0
Public Domain and Genome References
Gene Title succinyl-CoA synthetase beta chain
Ensembl C50F7.4
Entrez Gene 177555 Entrez gene
SwissProt P53589 EMBL-EBI
WormBase CE04242 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604009_AT similar to Succinyl-CoA ligase [GDP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaG chain) (SCS-betaG) (GTP-specific succinyl-CoA synthetase beta subunit) cfa
CANINE:1604132_AT similar to Succinyl-CoA ligase [GDP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaG chain) (SCS-betaG) (GTP-specific succinyl-CoA synthetase beta subunit) cfa
CANINE_2:CFA.1485.1.S1_AT similar to Succinyl-CoA ligase [GDP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaG chain) (SCS-betaG) (GTP-specific succinyl-CoA synthetase beta subunit) cfa
CANINE_2:CFAAFFX.10899.1.S1_S_AT similar to Succinyl-CoA ligase [GDP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaG chain) (SCS-betaG) (GTP-specific succinyl-CoA synthetase beta subunit) cfa
DROSOPHILA_2:1626745_AT dm
DROSGENOME1:142911_AT dm
DROSOPHILA_2:1637251_A_AT dm
DROSOPHILA_2:1635682_AT dm
CHICKEN:GGA.2557.1.S1_AT succinate-CoA ligase, GDP-forming, beta subunit gga
CHICKEN:GGAAFFX.12000.1.S1_AT succinate-CoA ligase, GDP-forming, beta subunit gga
CHICKEN:GGAAFFX.20374.1.S1_AT succinate-CoA ligase, GDP-forming, beta subunit gga
CHICKEN:GGAAFFX.20374.1.S1_S_AT succinate-CoA ligase, GDP-forming, beta subunit gga
HU35KSUBA:RC_AA599472_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HU35KSUBA:D79276_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HU35KSUBD:RC_AA465233_S_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133_PLUS_2:214835_S_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133A_2:214835_S_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133A:214835_S_AT succinate-CoA ligase, GDP-forming, beta subunit hs
U133_X3P:HS.247309.1.S1_3P_A_AT succinate-CoA ligase, GDP-forming, beta subunit hs
U133_X3P:HS.247309.0.A1_3P_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
U133_X3P:HS.247309.0.A1_3P_A_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133A_2:212459_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133_PLUS_2:212459_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133A:212459_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133A_2:215772_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133_PLUS_2:215772_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133A:215772_X_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U95AV2:39252_AT succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U133_PLUS_2:1566666_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U95B:48153_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U95C:53617_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U95B:55270_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HG-U95C:66795_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
U133_X3P:HS.247309.2.A1_3P_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HU35KSUBB:RC_N53076_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HU35KSUBC:RC_N71303_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
HU35KSUBC:RC_W78167_AT Succinate-CoA ligase, GDP-forming, beta subunit hs
MU11KSUBA:AA500353_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MU11KSUBA:AA500353_G_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MG-U74AV2:160428_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MG-U74CV2:169372_I_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MOE430A:1427441_A_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MOUSE430A_2:1427441_A_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MOUSE430_2:1427441_A_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MOE430B:1435841_S_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MOUSE430_2:1435841_S_AT succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MG-U74CV2:169372_I_AT similar to Succinate-Coenzyme A ligase, GDP-forming, beta subunit mm
MOUSE430_2:1444309_AT Succinate-Coenzyme A ligase, GDP-forming, beta subunit, mRNA (cDNA clone IMAGE:5003997) mm
MOE430B:1444309_AT Succinate-Coenzyme A ligase, GDP-forming, beta subunit, mRNA (cDNA clone IMAGE:5003997) mm
MU19KSUBB:TC33203_AT PREDICTED: similar to Succinate-Coenzyme A ligase, GDP-forming, beta subunit [Mus musculus], mRNA sequence mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA83304 Hypothetical protein C50F7.4 [Caenorhabditis elegans] ref|NP_501266.1| C50F7.4 [Caenorhabditis elegans] sp|P53589|SUCB2_CAEEL Probable succinyl-CoA ligase [GDP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, beta chain) (SCS-beta) 0.0
blast CAE57489 Hypothetical protein CBG00458 [Caenorhabditis briggsae] 0.0
blast EAA09142 ENSANGP00000013032 [Anopheles gambiae str. PEST] ref|XP_313633.2| ENSANGP00000013032 [Anopheles gambiae str. PEST] 1.0E-133
Protein Domains
Database ID Description E-Value
Pfam IPR003135 EMBL-EBI ATP-dependent carboxylate-amine ligase-like, ATP-grasp 2.0E-29
Pfam IPR005811 EMBL-EBI ATP-citrate lyase/succinyl-CoA ligase 1.5E-86
Sequence
Target Sequence 
>C. ELEGANS:192995_AT
tggacgtgttttctgtgtcgatgccaaaatgaactttgacgacagtgcggcttatcgaca
aaaagaaatctttgcttatgaaaccttcgaggaacatgatccacgtgaagtcgatgctca
ccaattcaacctaaattacattggaatggatggaaatattgcttgtcttgtgaatggagc
cggtctcgcaatggcaaccatggatctcatcaaacttcacggaggtgaaccagcaaactt
cctcgacgtcggtggagcagtcacagaggatgctgttttcaacgcagtccgaattattac
ttctgatccacgtgtaaaatgtgttcttatcaacattttcggaggaattgtcaactgtgc
caccattgcaaatggtgttgttagtgcagtgaacaaaattggattaaatgtgccgatggt
tgttcgtttggaaggaactaacgttgatgccgctaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGACGTGTTTTCTGTGTCGATGCC 190 549 714 Antisense
GACGACAGTGCGGCTTATCGACAAA 580 379 751 Antisense
GAAGTCGATGCTCACCAATTCAACC 649 331 820 Antisense
GTCTTGTGAATGGAGCCGGTCTCGC 203 457 878 Antisense
CCGGTCTCGCAATGGCAACCATGGA 444 265 893 Antisense
CCATGGATCTCATCAAACTTCACGG 74 273 911 Antisense
TTCCTCGACGTCGGTGGAGCAGTCA 638 699 952 Antisense
GGATGCTGTTTTCAACGCAGTCCGA 229 513 981 Antisense
GGAGGAATTGTCAACTGTGCCACCA 517 515 1054 Antisense
ATGTGCCGATGGTTGTTCGTTTGGA 597 49 1121 Antisense
GGAACTAACGTTGATGCCGCTAAAC 425 527 1147 Antisense
Sequence Source Affymetrix Proprietary Database