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[190216_s_at] succinyl-CoA ligase

Description F23H11.3 /REP_DB=WormBase Gene ID /WP=CE09611 /TR=O02642 /GB=AAC71132.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=succinyl-CoA ligase
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 95      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 68      6grp_total > 85      4grp_total > 32      6grp_highest_sub > In      6grp_high1_sub > In      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1769
1 2 3 4 range
A 1163.9
(-3)
P 		2475
(2.7)
P 		2553.1
(3)
P 		2192.7
(1.4)
P 		1389
B 1137.9
(-3)
P 		2022.5
(0.1)
P 		2830
(3)
P 		2266.5
(1)
P 		1692
C 1061.2
(-3)
P 		1922.9
(0.8)
P 		2406.4
(3)
P 		2069.4
(1.5)
P 		1345
avr 1121
(-3) 		2140.1
(1.1) 		2596.5
(3) 		2176.2
(1.3) 		1476

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1298
1 2 3 4 5 6 range
A 1495.2
(-2.3)
P 		1357.9
(-3)
P 		1720.6
(-1.2)
P 		2025.3
(0.3)
P 		2121.1
(0.8)
P 		2567.9
(3)
P 		1210
B 1479.5
(-2.4)
P 		1379.9
(-3)
P 		1965.5
(0.6)
P 		1855.5
(-0.1)
P 		2141.6
(1.7)
P 		2356.4
(3)
P 		977
C 1375.1
(-2.8)
P 		1333.5
(-3)
P 		1770.2
(-1)
P 		2051.2
(0.3)
P 		2371.6
(1.8)
P 		2631.8
(3)
P 		1298
avr 1449.9
(-2.5) 		1357.1
(-3) 		1818.8
(-0.6) 		1977.3
(0.2) 		2211.4
(1.4) 		2518.7
(3) 		1162
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 518
1 2 3 4 range
A 423.8
(-1.2)
P 		537.3
(0.7)
P 		667.4
(3)
P 		321
(-3)
P 		346
B 362.9
(-3)
P 		499.5
(-0.2)
P 		655.8
(3)
P 		483
(-0.5)
P 		293
C 351.3
(-3)
P 		552.8
(-0.5)
P 		838.7
(3)
P 		348.9
(-3)
P 		490
avr 379.3
(-3) 		529.9
(-0.4) 		720.6
(3) 		384.3
(-2.9) 		341

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 605
1 2 3 4 5 6 range
A 275.6
(-3)
P 		482.9
(0.4)
P 		374.7
(-1.4)
P 		513.7
(0.9)
P 		640
(3)
P 		625.2
(2.8)
P 		364
B 514.8
(-2.2)
P 		459.3
(-3)
P 		477.3
(-2.7)
P 		491.4
(-2.5)
P 		870.1
(2.9)
P 		878.7
(3)
P 		419
C 509.7
(-1.7)
P 		406.9
(-3)
P 		450.5
(-2.4)
P 		412.5
(-2.9)
P 		767.4
(1.6)
P 		881
(3)
P 		474
avr 433.4
(-3) 		449.7
(-2.7) 		434.2
(-3) 		472.5
(-2.4) 		759.2
(2.4) 		795
(3) 		362
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190216_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8225
Sequence Type Exemplar sequence
Representative Public ID F23H11.3 NCBI
Target Description F23H11.3 /REP_DB=WormBase Gene ID /WP=CE09611 /TR=O02642 /GB=AAC71132.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=succinyl-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_064887(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064887 NCBI Caenorhabditis elegans F23H11.3 (F23H11.3) mRNA, complete cds. 11/11 None
SNAP00000010293 ENSEMBL cdna:SNAP chromosome:CEL140:III:900268:901386:-1 11/11 None
GENEFINDER00000010300 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:900268:901386:-1 11/11 None
F23H11.3.1 ENSEMBL cdna:known chromosome:CEL140:III:900131:901401:-1 gene:F23H11.3 11/11 None
F23H11.3.2 ENSEMBL cdna:known chromosome:CEL140:III:900192:901401:-1 gene:F23H11.3 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
chrIII:900267-901386(-) 100.0 100.0
Public Domain and Genome References
Gene Title succinyl-CoA ligase
Ensembl F23H11.3
Entrez Gene 175252 Entrez gene
SwissProt O02642 EMBL-EBI
WormBase CE09611 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:12233_AT succinyl-CoA ligase (GDP-forming) alpha-chain, mitochondrial, putative / succinyl-CoA synthetase, alpha chain, putative / SCS-alpha, putative at
ATH1-121501:246035_AT succinyl-CoA ligase (GDP-forming) alpha-chain, mitochondrial, putative / succinyl-CoA synthetase, alpha chain, putative / SCS-alpha, putative at
CANINE:1595650_AT similar to succinate-CoA ligase, GDP-forming, alpha subunit cfa
CANINE:1592397_AT similar to succinate-CoA ligase, GDP-forming, alpha subunit cfa
CANINE_2:CFA.16185.1.S1_AT similar to succinate-CoA ligase, GDP-forming, alpha subunit cfa
CANINE_2:CFAAFFX.12824.1.S1_AT similar to succinate-CoA ligase, GDP-forming, alpha subunit cfa
CANINE_2:CFAAFFX.12846.1.S1_S_AT similar to succinate-CoA ligase, GDP-forming, alpha subunit cfa
DROSOPHILA_2:1638529_AT Succinyl coenzyme A synthetase subunit dm
DROSGENOME1:154303_AT Succinyl coenzyme A synthetase subunit dm
CHICKEN:GGA.16559.1.S1_AT succinate-CoA ligase, GDP-forming, alpha subunit gga
CHICKEN:GGA.6027.1.S1_AT succinate-CoA ligase, GDP-forming, alpha subunit gga
CHICKEN:GGA.6027.1.S1_S_AT succinate-CoA ligase, GDP-forming, alpha subunit gga
HG-U133_PLUS_2:217874_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HG-U133A:217874_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HG-FOCUS:217874_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HG-U133A_2:217874_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HU35KSUBA:AA504692_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HU35KSUBA:RC_AA485965_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HUGENEFL:Z68204_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
U133_X3P:G11321580_3P_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
HG-U95B:46247_AT succinate-CoA ligase, GDP-forming, alpha subunit hs
MOE430A:1415891_AT succinate-CoA ligase, GDP-forming, alpha subunit mm
MOUSE430A_2:1415891_AT succinate-CoA ligase, GDP-forming, alpha subunit mm
MOUSE430_2:1415891_AT succinate-CoA ligase, GDP-forming, alpha subunit mm
MU11KSUBA:AA142482_S_AT succinate-CoA ligase, GDP-forming, alpha subunit mm
MG-U74AV2:96268_AT succinate-CoA ligase, GDP-forming, alpha subunit mm
MU19KSUBB:TC28100_AT Succinate-CoA ligase, GDP-forming, alpha subunit, mRNA (cDNA clone MGC:18990 IMAGE:4012310) mm
RG-U34A:J03621_AT succinate-CoA ligase, GDP-forming, alpha subunit rn
RG-U34A:U75393_S_AT succinate-CoA ligase, GDP-forming, alpha subunit rn
RG-U34C:RC_AI104685_AT succinate-CoA ligase, GDP-forming, alpha subunit rn
RAE230A:1367642_AT succinate-CoA ligase, GDP-forming, alpha subunit rn
RAT230_2:1367642_AT succinate-CoA ligase, GDP-forming, alpha subunit rn
YEAST_2:1778018_AT Alpha 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 AAC71132 Hypothetical protein F23H11.3 [Caenorhabditis elegans] ref|NP_497288.1| F23H11.3 [Caenorhabditis elegans] 1.0E-144
blast CAE69145 Hypothetical protein CBG15175 [Caenorhabditis briggsae] 1.0E-140
Protein Domains
Database ID Description E-Value
Pfam IPR003781 EMBL-EBI CoA-binding domain 1.4E-68
Pfam IPR005811 EMBL-EBI ATP-citrate lyase/succinyl-CoA ligase 4.6E-69
Sequence
Target Sequence 
>C. ELEGANS:190216_S_AT
gcagcaagatatggtccgcgtcaagaatagacttttaaaacaaaacaaatctcgtctact
tgggccaaattgccctggaatcattgcatctggagattgcaagattggaatcatgccagg
gcatattcacaagaagggttgcatcggaattgtgtcccgatcgggaactctaacctacga
agctgttcatcaaacaactaccgtcggacttggacaaacgcgttgcattggaatcggagg
tgatccgttcaacggaactaacttcattgattgtttggaagtgttcttggaggacgaaca
aactaaaggaatcattctgatcggagaaatcggaggacaagccgaggaacaagccgccga
gttcttgaaatctcgcaactctggttccaatgccaagccagttgtttcgttcatcgctgg
agtcactgctccaccaggtcgtagaatgggacacgccggagctatcatcgctggtggaaa
gggtactgctggcgataagatcgaggctcttcgcaatgcgaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGCAAGATATGGTCCGCGTCAAG 284 311 393 Antisense
AATCTCGTCTACTTGGGCCAAATTG 563 167 440 Antisense
GGCCAAATTGCCCTGGAATCATTGC 664 541 455 Antisense
CGGGAACTCTAACCTACGAAGCTGT 272 239 554 Antisense
TCATCAAACAACTACCGTCGGACTT 635 619 579 Antisense
GGAACAAGCCGCCGAGTTCTTGAAA 331 529 738 Antisense
TGAAATCTCGCAACTCTGGTTCCAA 221 573 758 Antisense
ATGCCAAGCCAGTTGTTTCGTTCAT 428 41 782 Antisense
TTTCGTTCATCGCTGGAGTCACTGC 134 671 797 Antisense
CACTGCTCCACCAGGTCGTAGAATG 190 199 816 Antisense
GATCGAGGCTCTTCGCAATGCGAAT 573 417 891 Antisense
Sequence Source Affymetrix Proprietary Database