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[190793_s_at] succinate-CoA ligase

Description F47B10.1 /REP_DB=WormBase Gene ID /WP=CE03351 /TR=SW:P53588 /GB=CAA91981.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=succinate-CoA ligase
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 04      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 02      6grp_total > 15      4grp_total > 59      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3768
1 2 3 4 range
A 3639.7
(1.4)
P 		3627.2
(1.4)
P 		4591.5
(3)
P 		1004.2
(-3)
P 		3587
B 3469.4
(0.9)
P 		4151.3
(2.1)
P 		4655.2
(3)
P 		1190.7
(-3)
P 		3465
C 3414.5
(1.3)
P 		3768.4
(1.9)
P 		4385.8
(3)
P 		886.9
(-3)
P 		3499
avr 3507.9
(1.2) 		3849
(1.8) 		4544.2
(3) 		1027.3
(-3) 		3517

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1946
1 2 3 4 5 6 range
A 3055.8
(3)
P 		2895.7
(2.2)
P 		2133.5
(-1.5)
P 		1884.7
(-2.7)
P 		1978.1
(-2.2)
P 		1820.2
(-3)
P 		1236
B 3344.2
(3)
P 		2957.3
(1.5)
P 		2511.4
(-0.3)
P 		1991.1
(-2.3)
P 		2016.6
(-2.2)
P 		1806.8
(-3)
P 		1537
C 3471.3
(3)
P 		2787.7
(0.9)
P 		2473.4
(-0.1)
P 		1550.6
(-2.9)
P 		2216.8
(-0.9)
P 		1524.9
(-3)
P 		1946
avr 3290.4
(3) 		2880.2
(1.4) 		2372.8
(-0.5) 		1808.8
(-2.7) 		2070.5
(-1.7) 		1717.3
(-3) 		1573
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1382
1 2 3 4 range
A 1325.2
(3)
P 		787.4
(0.3)
P 		1200.3
(2.4)
P 		147
(-3)
P 		1178
B 1106.4
(3)
P 		1025.3
(2.4)
P 		1078.7
(2.8)
P 		253.7
(-3)
P 		853
C 1130.3
(1.3)
P 		1083.5
(1.1)
P 		1528.6
(3)
P 		149.5
(-3)
P 		1379
avr 1187.3
(2.5) 		965.4
(1.3) 		1269.2
(3) 		183.4
(-3) 		1086

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 975
1 2 3 4 5 6 range
A 563.3
(-1.8)
P 		1029.8
(3)
P 		464.6
(-2.8)
P 		478
(-2.6)
P 		596.9
(-1.4)
P 		443.2
(-3)
P 		587
B 1163.6
(3)
P 		984.4
(1.3)
P 		609.8
(-2.2)
P 		527.4
(-3)
P 		819.3
(-0.2)
P 		673.8
(-1.6)
P 		636
C 1286.6
(3)
P 		850.6
(0.3)
P 		629.5
(-1)
P 		311.8
(-3)
P 		717.3
(-0.5)
P 		510.5
(-1.8)
P 		975
avr 1004.5
(3) 		954.9
(2.5) 		568
(-1.6) 		439.1
(-3) 		711.2
(-0.1) 		542.5
(-1.9) 		565
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190793_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16657
Sequence Type Exemplar sequence
Representative Public ID F47B10.1 NCBI
Target Description F47B10.1 /REP_DB=WormBase Gene ID /WP=CE03351 /TR=SW:P53588 /GB=CAA91981.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=succinate-CoA ligase
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_077420(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077420 NCBI Caenorhabditis elegans F47B10.1 (F47B10.1) mRNA, complete cds. 11/11 None
SNAP00000040447 ENSEMBL cdna:SNAP chromosome:CEL140:X:10897950:10900029:-1 11/11 None
GENEFINDER00000040455 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10897950:10900029:-1 11/11 None
F47B10.1.1 ENSEMBL cdna:known chromosome:CEL140:X:10897601:10900037:-1 gene:F47B10.1 11/11 None
F47B10.1.2 ENSEMBL cdna:known chromosome:CEL140:X:10897601:10900039:-1 gene:F47B10.1 11/11 None
F47B10.1.3 ENSEMBL cdna:known chromosome:CEL140:X:10897601:10900039:-1 gene:F47B10.1 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
chrX:10897949-10900029(-) 100.0 100.0
Public Domain and Genome References
Gene Title succinate-CoA ligase
Ensembl F47B10.1
Entrez Gene 181280 Entrez gene
SwissProt P53588 EMBL-EBI
WormBase CE03351 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18653_S_AT succinyl-CoA ligase (GDP-forming) beta-chain, mitochondrial, putative / succinyl-CoA synthetase, beta chain, putative / SCS-beta, putative at
ATH1-121501:265257_AT succinyl-CoA ligase (GDP-forming) beta-chain, mitochondrial, putative / succinyl-CoA synthetase, beta chain, putative / SCS-beta, putative at
CANINE:1604335_AT similar to Succinyl-CoA ligase [ADP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaA chain) (SCS-betaA) (ATP-specific succinyl-CoA synthetase beta subunit) cfa
CANINE_2:CFA.20191.1.S1_S_AT similar to Succinyl-CoA ligase [ADP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaA chain) (SCS-betaA) (ATP-specific succinyl-CoA synthetase beta subunit) cfa
CANINE_2:CFAAFFX.7625.1.S1_AT similar to Succinyl-CoA ligase [ADP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaA chain) (SCS-betaA) (ATP-specific succinyl-CoA synthetase beta subunit) cfa
DROSOPHILA_2:1630433_AT dm
DROSGENOME1:152304_AT dm
CHICKEN:GGAAFFX.10881.1.S1_AT succinate-CoA ligase, ADP-forming, beta subunit gga
CHICKEN:GGAAFFX.12279.1.S1_S_AT succinate-CoA ligase, ADP-forming, beta subunit gga
HG-U133_PLUS_2:202930_S_AT succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U133A_2:202930_S_AT succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U133A:202930_S_AT succinate-CoA ligase, ADP-forming, beta subunit hs
HG-FOCUS:202930_S_AT succinate-CoA ligase, ADP-forming, beta subunit hs
HU35KSUBC:RC_N93332_AT succinate-CoA ligase, ADP-forming, beta subunit hs
U133_X3P:G11321582_3P_A_AT succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U95AV2:40893_AT succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U95D:76636_AT Succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U95D:84406_AT Succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U95D:84409_I_AT Succinate-CoA ligase, ADP-forming, beta subunit hs
HG-U95D:84411_F_AT Succinate-CoA ligase, ADP-forming, beta subunit hs
MG-U74AV2:93502_R_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MG-U74AV2:93501_F_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MG-U74CV2:135225_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MOE430A:1452206_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MOUSE430A_2:1452206_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MOUSE430_2:1452206_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MOE430B:1430402_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MOUSE430_2:1430402_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit mm
MU19KSUBB:TC31795_AT ATP-specific succinyl-CoA synthetase beta subunit (Scs) mm
MU19KSUBB:TC34325_AT ATP-specific succinyl-CoA synthetase beta subunit (Scs) mm
MU19KSUBC:TC40397_AT ATP-specific succinyl-CoA synthetase beta subunit (Scs) mm
RG-U34B:RC_AA923982_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RG-U34B:RC_AA923982_G_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RG-U34C:RC_AI169320_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RAE230A:1388975_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RAT230_2:1388975_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RAE230B:1381671_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RAT230_2:1381671_AT succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RAE230A:1383438_AT Succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RAT230_2:1383438_AT Succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
RG-U34A:RC_AA800194_AT Succinate-Coenzyme A ligase, ADP-forming, beta subunit (predicted) rn
YEAST_2:1778290_AT Beta subunit of succinyl-CoA ligase, which is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate Sc
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 CAA91981 Hypothetical protein F47B10.1 [Caenorhabditis elegans] ref|NP_509821.1| F47B10.1 [Caenorhabditis elegans] sp|P53588|SUCB1_CAEEL Probable succinyl-CoA ligase [ADP-forming] beta-chain, mitochondrial precursor (Succinyl-CoA synthetase, betaA chain) (SCS-betaA) (ATP-specific succinyl-CoA synthetase beta subunit) 0.0
blast CAE70799 Hypothetical protein CBG17559 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003135 EMBL-EBI ATP-dependent carboxylate-amine ligase-like, ATP-grasp 8.6E-31
Pfam IPR005811 EMBL-EBI ATP-citrate lyase/succinyl-CoA ligase 2.2E-88
Pfam IPR005811 EMBL-EBI ATP-citrate lyase/succinyl-CoA ligase 3.3E-85
Sequence
Target Sequence 
>C. ELEGANS:190793_S_AT
atgcagaattccgtcaagccaagcttttcgatcttaaggataagaagcaagaggacgagc
tcgagatccgcgccgccgctgccaacctcaactacattcgtcttgatggaaccatcggat
gcatggtcaacggagctggactcgccatggccaccatggacattatcaagttgcacggag
gagaaccagccaacttcctcgacgttggaggtggtgccaccgttgaacaagtcactgaag
ctttcaagatcatcaccgctgacaaggacaaggtctcagccattttggtgaacatctttg
gaggaatcatgagatgcgatgtcattgctcagggaattattcaagctgccagagagttgg
acctcaagatcccaattgttgtcagattgcaaggaacaaaggttgaagacgccaaggctt
tgattgccacctcccaactcagaattcttccatgcgataacctcgacgaagccgccaaga
tggttgtcaagctttccaacattgttgatctcgctcgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCAGAATTCCGTCAAGCCAAGCT 420 43 764 Antisense
GCATGGTCAACGGAGCTGGACTCGC 665 309 884 Antisense
GTGGTGCCACCGTTGAACAAGTCAC 422 487 974 Antisense
AAGCTTTCAAGATCATCACCGCTGA 696 149 1001 Antisense
GGACAAGGTCTCAGCCATTTTGGTG 16 527 1029 Antisense
GGACCTCAAGATCCCAATTGTTGTC 135 523 1122 Antisense
GACGCCAAGGCTTTGATTGCCACCT 595 379 1171 Antisense
CTCCCAACTCAGAATTCTTCCATGC 593 233 1194 Antisense
TCTTCCATGCGATAACCTCGACGAA 585 615 1209 Antisense
CCTCGACGAAGCCGCCAAGATGGTT 288 267 1224 Antisense
TCCAACATTGTTGATCTCGCTCGTG 494 587 1258 Antisense
Sequence Source Affymetrix Proprietary Database