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[191196_s_at] succinyl-CoA synthetase

Description C05G5.4 /REP_DB=WormBase Gene ID /WP=CE05227 /TR=SW:P53596 /GB=CAA94107.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=succinyl-CoA synthetase
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_highest_8_8 > 09      4grp_high_8_8 > 61      6grp_highest_nonorm > 04      6grp_total > 32      4grp_total > 58      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4585
1 2 3 4 range
A 5197.8
(-1.2)
P 		7396.6
(2.2)
P 		7939.9
(3)
P 		4024.8
(-3)
P 		3915
B 5629.1
(-0.3)
P 		6607.1
(1.1)
P 		7987.7
(3)
P 		3719
(-3)
P 		4269
C 5362.6
(0.1)
P 		7157.6
(3)
P 		7093.2
(2.9)
P 		3403.2
(-3)
P 		3754
avr 5396.5
(-0.5) 		7053.8
(2.1) 		7673.6
(3) 		3715.7
(-3) 		3958

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4133
1 2 3 4 5 6 range
A 5292.8
(0.5)
P 		6406.9
(3)
P 		4887.5
(-0.4)
P 		5329.1
(0.6)
P 		3789.5
(-2.9)
P 		3746.7
(-3)
P 		2660
B 4599.1
(2.2)
P 		4821.4
(3)
P 		4791.3
(2.9)
P 		4549.2
(2)
P 		3691.2
(-1.2)
P 		3210.3
(-3)
P 		1611
C 6006.4
(2)
P 		4580.2
(-0.1)
P 		6710.2
(3)
P 		3344.7
(-1.9)
P 		4943.4
(0.4)
P 		2577.3
(-3)
P 		4133
avr 5299.4
(2.6) 		5269.5
(2.5) 		5463
(3) 		4407.7
(0.2) 		4141.4
(-0.5) 		3178.1
(-3) 		2285
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1898
1 2 3 4 range
A 1892.5
(2.3)
P 		1605.6
(1.1)
P 		2075.6
(3)
P 		589.2
(-3)
P 		1486
B 1795.1
(2.7)
P 		1631.8
(1.8)
P 		1850.9
(3)
P 		792.5
(-3)
P 		1058
C 1775.2
(0.8)
P 		2057.8
(1.7)
P 		2472.2
(3)
P 		573.8
(-3)
P 		1898
avr 1820.9
(1.7) 		1765.1
(1.5) 		2132.9
(3) 		651.8
(-3) 		1481

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1606
1 2 3 4 5 6 range
A 975.7
(-2.7)
P 		2278.6
(3)
P 		1064.4
(-2.3)
P 		1351.6
(-1.1)
P 		1143.5
(-2)
P 		912.2
(-3)
P 		1366
B 1600.3
(2.9)
P 		1604.8
(3)
P 		1163.5
(-3)
P 		1204.9
(-2.4)
P 		1499.7
(1.6)
P 		1197.1
(-2.5)
P 		441
C 2226.3
(3)
P 		1397.6
(-0.2)
P 		1707.9
(1)
P 		672.6
(-3)
P 		1599.6
(0.6)
P 		862.8
(-2.3)
P 		1554
avr 1600.8
(1.8) 		1760.3
(3) 		1311.9
(-0.5) 		1076.4
(-2.3) 		1414.3
(0.3) 		990.7
(-3) 		770
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191196_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17786
Sequence Type Exemplar sequence
Representative Public ID C05G5.4 NCBI
Target Description C05G5.4 /REP_DB=WormBase Gene ID /WP=CE05227 /TR=SW:P53596 /GB=CAA94107.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=succinyl-CoA 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_078049(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078049 NCBI Caenorhabditis elegans C05G5.4 (C05G5.4) mRNA, complete cds. 11/11 None
GENEFINDER00000001560 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14753462:14755734:1 11/11 None
SNAP00000001549 ENSEMBL cdna:SNAP chromosome:CEL140:X:14753950:14755734:1 11/11 None
C05G5.4.1 ENSEMBL cdna:known chromosome:CEL140:X:14753942:14756377:1 gene:C05G5.4 11/11 None
C05G5.4.2 ENSEMBL cdna:known chromosome:CEL140:X:14753944:14756377:1 gene:C05G5.4 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
chrX:14753949-14755734(+) 100.0 100.0
Public Domain and Genome References
Gene Title succinyl-CoA synthetase
Ensembl C05G5.4
Entrez Gene 181570 Entrez gene
SwissProt P53596 EMBL-EBI
WormBase CE05227 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249828_AT succinyl-CoA ligase (GDP-forming) alpha-chain, mitochondrial, putative / succinyl-CoA synthetase, alpha chain, putative / SCS-alpha, putative at
DROSOPHILA_2:1638094_AT dm
DROSGENOME1:152725_AT dm
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 CAA94107 Hypothetical protein C05G5.4 [Caenorhabditis elegans] ref|NP_510450.1| C05G5.4 [Caenorhabditis elegans] sp|P53596|SUCA_CAEEL Probable succinyl-CoA ligase [GDP-forming] alpha-chain, mitochondrial precursor (Succinyl-CoA synthetase, alpha chain) (SCS-alpha) 1.0E-172
blast CAA94107 Hypothetical protein C05G5.4 [Caenorhabditis elegans] ref|NP_510450.1| C05G5.4 [Caenorhabditis elegans] sp|P53596|SUCA_CAEEL Probable succinyl-CoA ligase [GDP-forming] alpha-chain, mitochondrial precursor (Succinyl-CoA synthetase, alpha chain) (SCS-alpha) 1.0E-171
blast CAE63225 Hypothetical protein CBG07585 [Caenorhabditis briggsae] 1.0E-162
blast CAE63225 Hypothetical protein CBG07585 [Caenorhabditis briggsae] 1.0E-161
Protein Domains
Database ID Description E-Value
Pfam IPR003781 EMBL-EBI CoA-binding domain 2.3E-67
Pfam IPR005811 EMBL-EBI ATP-citrate lyase/succinyl-CoA ligase 6.3E-81
Pfam IPR003781 EMBL-EBI CoA-binding domain 2.3E-67
Pfam IPR005811 EMBL-EBI ATP-citrate lyase/succinyl-CoA ligase 6.3E-81
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000001560 1 44-66
Sequence
Target Sequence 
>C. ELEGANS:191196_S_AT
tatggtccgtgttaagtcgcgtcttctcaagcagaacaagacaagacttgttgggccaaa
ctgtccaggaatcatctcggccgatcagtgcaagatcggaatcatgccaggacacattca
caagagaggatgcatcggaatcgtctcccgctcaggaactctcacctatgaagctgtgca
ccagactactcaagtcggattcggacagactttgtgcgtcggaattggaggcgatccatt
caatggaacaaacttcatcgactgcttgaacgtcttccttgaggatccagaaactaaggg
aatcattctcatcggagaaatcggaggatcagctgaagaggaggccgccgcataccttaa
ggagcacaactcgggagccaacaggaagccagtcgtctcattcattgccggagtcacagc
tccaccaggcagaagaatgggacacgccggagccatcatttcgggaggaaagggaaccgc
tgctgacaagatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATGGTCCGTGTTAAGTCGCGTCTT 438 653 399 Antisense
ATCATCTCGGCCGATCAGTGCAAGA 8 31 469 Antisense
GAGGATGCATCGGAATCGTCTCCCG 305 403 524 Antisense
GGAACTCTCACCTATGAAGCTGTGC 27 531 553 Antisense
GAAGCTGTGCACCAGACTACTCAAG 196 343 568 Antisense
GATTCGGACAGACTTTGTGCGTCGG 238 433 596 Antisense
TCATCGACTGCTTGAACGTCTTCCT 527 621 653 Antisense
AGCCAACAGGAAGCCAGTCGTCTCA 157 85 774 Antisense
GTCTCATTCATTGCCGGAGTCACAG 597 469 793 Antisense
TCACAGCTCCACCAGGCAGAAGAAT 315 627 812 Antisense
AAGGGAACCGCTGCTGACAAGATCA 662 159 868 Antisense
Sequence Source Affymetrix Proprietary Database