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[193923_s_at] succinate dehydrogenase (ubiquinone) iron sulphur protein

Description F42A8.2 /REP_DB=WormBase Gene ID /WP=CE01579 /TR=SW:Q09545 /GB=CAA87780.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=succinate dehydrogenase (ubiquinone) iron sulphur protein
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 41      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 27      6grp_total > 52      4grp_total > 60      6grp_highest_sub > 03      6grp_cgc > 81      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 5107
1 2 3 4 range
A 7287
(2.6)
P 		6981.3
(2.2)
P 		7626.4
(3)
P 		2918.4
(-3)
P 		4708
B 7045.6
(2.1)
P 		7447.1
(2.6)
P 		7728.9
(3)
P 		2973.9
(-3)
P 		4755
C 6673.9
(2.4)
P 		7102.7
(3)
P 		6627.8
(2.4)
P 		2622.4
(-3)
P 		4480
avr 7002.2
(2.6) 		7177
(2.8) 		7327.7
(3) 		2838.2
(-3) 		4490

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3642
1 2 3 4 5 6 range
A 6121.5
(-1.7)
P 		7197.6
(1.1)
P 		7932.5
(3)
P 		7253.1
(1.2)
P 		5629
(-3)
P 		5717.9
(-2.8)
P 		2304
B 6604.1
(0.8)
P 		6570
(0.7)
P 		7644.1
(3)
P 		6488.2
(0.5)
P 		5654.5
(-1.3)
P 		4861.5
(-3)
P 		2783
C 6576.9
(-0.6)
P 		6229.6
(-1.2)
P 		8503.7
(3)
P 		6515.7
(-0.7)
P 		7134.1
(0.5)
P 		5259.9
(-3)
P 		3244
avr 6434.2
(-0.5) 		6665.7
(0) 		8026.8
(3) 		6752.3
(0.2) 		6139.2
(-1.1) 		5279.8
(-3) 		2747
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2226
1 2 3 4 range
A 2653.2
(3)
P 		1515.5
(-0.1)
P 		1993.7
(1.2)
P 		427.2
(-3)
P 		2226
B 2246.8
(3)
P 		1839.2
(1.5)
P 		1791
(1.3)
P 		633.7
(-3)
P 		1613
C 2209.3
(2.7)
P 		2042.1
(2.1)
P 		2310
(3)
P 		442.2
(-3)
P 		1868
avr 2369.8
(3) 		1798.9
(1.2) 		2031.6
(1.9) 		501
(-3) 		1869

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1431
1 2 3 4 5 6 range
A 1128.4
(-3)
P 		2559.8
(3)
P 		1727.5
(-0.5)
P 		1839.6
(-0)
P 		1698.6
(-0.6)
P 		1392.1
(-1.9)
P 		1431
B 2297.9
(3)
P 		2186.9
(1.9)
P 		1856.2
(-1.6)
P 		1718.5
(-3)
P 		2297.3
(3)
P 		1812.8
(-2)
P 		579
C 2437.8
(3)
P 		1900.8
(0.1)
P 		2164.3
(1.5)
P 		1310.3
(-3)
P 		2308.5
(2.3)
P 		1760.8
(-0.6)
P 		1128
avr 1954.7
(0.4) 		2215.8
(3) 		1916
(-0) 		1622.8
(-3) 		2101.5
(1.8) 		1655.2
(-2.7) 		593
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193923_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3598
Sequence Type Exemplar sequence
Representative Public ID F42A8.2 NCBI
Target Description F42A8.2 /REP_DB=WormBase Gene ID /WP=CE01579 /TR=SW:Q09545 /GB=CAA87780.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=succinate dehydrogenase (ubiquinone) iron sulphur protein
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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_063591(11), AB008569(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063591 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-55) (tag-55) mRNA, complete cds. 11/11 A 
AB008569 NCBI Caenorhabditis elegans mRNA for iron-sulfur subunit of mitochondrial succinate dehydrogenase, complete cds. 11/11 None
SNAP00000044379 ENSEMBL cdna:SNAP chromosome:CEL140:II:9350782:9352643:-1 11/11 None
GENEFINDER00000044386 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9350782:9352643:-1 11/11 None
F42A8.2.3 ENSEMBL cdna:known chromosome:CEL140:II:9350568:9352643:-1 gene:F42A8.2 11/11 None
F42A8.2.1 ENSEMBL cdna:known chromosome:CEL140:II:9350615:9352643:-1 gene:F42A8.2 11/11 A 
F42A8.2.2 ENSEMBL cdna:known chromosome:CEL140:II:9350615:9352709:-1 gene:F42A8.2 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
chrII:9350778-9352640(-) 100.0 100.0
Public Domain and Genome References
Gene Title succinate dehydrogenase (ubiquinone) iron sulphur protein
Gene Symbol tag-55
Ensembl F42A8.2
Entrez Gene 174482 Entrez gene
SwissProt Q09545 EMBL-EBI
WormBase CE01579 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249343_AT succinate dehydrogenase, iron-sulphur subunit, mitochondrial (SDH2-2) at
CANINE:1584695_AT similar to Succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (Ip) (Iron-sulfur subunit of complex II) cfa
CANINE_2:CFAAFFX.24257.1.S1_S_AT similar to Succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (Ip) (Iron-sulfur subunit of complex II) cfa
CANINE_2:CFAAFFX.3371.1.S1_S_AT similar to Succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (Ip) (Iron-sulfur subunit of complex II) cfa
DROSOPHILA_2:1640632_AT Succinate dehydrogenase B dm
DROSGENOME1:154195_AT Succinate dehydrogenase B dm
HG-U133_PLUS_2:202675_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-U133A:202675_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-FOCUS:202675_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-U133A_2:202675_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HUGENEFL:U17886_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
U133_X3P:G9257241_3P_S_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
U133_X3P:HS.64.1.S1_3P_X_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
U133_X3P:HS.64.1.S1_3P_S_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
U133_X3P:202675_3P_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-U133A_2:214166_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-U133_PLUS_2:214166_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-U133A:214166_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
HG-U95AV2:35751_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) hs
MU11KSUBA:AA245912_F_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) mm
MG-U74AV2:95053_S_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) mm
MG-U74BV2:164293_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) mm
MOE430A:1418005_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) mm
MOUSE430A_2:1418005_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) mm
MOUSE430_2:1418005_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) mm
MU19KSUBA:TC22985_F_AT Succinate dehydrogenase complex, subunit B, iron sulfur (Ip), mRNA (cDNA clone MGC:19177 IMAGE:4225025) mm
MU19KSUBA:TC22985_I_AT Succinate dehydrogenase complex, subunit B, iron sulfur (Ip), mRNA (cDNA clone MGC:19177 IMAGE:4225025) mm
MU19KSUBC:TC36260_AT Succinate dehydrogenase complex, subunit B, iron sulfur (Ip), mRNA (cDNA clone MGC:19177 IMAGE:4225025) mm
MU19KSUBC:TC36271_AT Succinate dehydrogenase complex, subunit B, iron sulfur (Ip), mRNA (cDNA clone MGC:19177 IMAGE:4225025) mm
RG-U34C:RC_AI172320_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) (predicted) rn
RAE230A:1372123_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) (predicted) rn
RAT230_2:1372123_AT succinate dehydrogenase complex, subunit B, iron sulfur (Ip) (predicted) rn
YEAST_2:1777010_AT Iron-sulfur protein subunit of succinate dehydrogenase (Sdh1p, Sdh2p, Sdh3p, Sdh4p), which couples the oxidation of succinate to the transfer of electrons to ubiquinone Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6099 tricarboxylic acid cycle inferred from electronic annotation QuickGO AmiGO
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
5506 iron ion binding inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA87780 Hypothetical protein F42A8.2 [Caenorhabditis elegans] ref|NP_495992.1| Temporarily Assigned Gene name family member (tag-55) [Caenorhabditis elegans] sp|Q09545|DHSB_CAEEL Putative succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (IP) (IP subunit of complex II) 1.0E-165
blast BAA23717.1 iron-sulfur subunit of mitochondrial succinate dehydrogenase [Caenorhabditis elegans] 1.0E-157
blast CAA87780 Hypothetical protein F42A8.2 [Caenorhabditis elegans] ref|NP_495992.1| Temporarily Assigned Gene name family member (tag-55) [Caenorhabditis elegans] sp|Q09545|DHSB_CAEEL Putative succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (IP) (IP subunit of complex II) 1.0E-157
Protein Domains
Database ID Description E-Value
scop a.1.2.Fumarate reductase/Succinate dehydogenase iron-sulfur protein, C-terminal domain All alpha proteins; Globin-like; alpha-helical ferredoxin; Fumarate reductase/Succinate dehydogenase iron-sulfur protein, C-terminal domain 0.0
Pfam IPR001041 EMBL-EBI Ferredoxin 1.6E-4
Pfam IPR001041 EMBL-EBI Ferredoxin 1.6E-4
Sequence
Target Sequence 
>C. ELEGANS:193923_S_AT
gaggtcgatccaactttgactttcagaagaagttgtcgtgaaggaatctgtggatcctgt
gccatgaacatcggaggtcaaaacactttggcttgcatctgcaaaatcgattcggatacc
tcaaagagcaccaaaatctacccacttccacatatgttcgttgtgaaggaccttgtccca
gatatgaacctcttctacgctcaatatgcctctattcaaccatggattcaaaagaagacc
ccattgactcttggagaaaagcagatgcaccaaagtgtggctgaacgtgatcgtcttgat
ggtctctacgagtgtattctctgtgcttgctgctccacgtcatgcccatcctactggtgg
aatgctgataagtacctcggtccagctgttctcatgcaagcctacagatgggtcatcgat
tctcgtgatgactacgccaccgaacgccttcaccgtatgcacgactctttctcagctttc
aagtgccacaccatcatgaattgcacaaagacatgcccaaaacacttgaacccagctaag
gccatcggagagatcaaatcgctgcttactggattcacatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGTCGATCCAACTTTGACTTTCA 358 397 298 Antisense
GATCCAACTTTGACTTTCAGAAGAA 271 415 304 Antisense
GAAGTTGTCGTGAAGGAATCTGTGG 511 337 326 Antisense
ATCTGTGGATCCTGTGCCATGAACA 70 35 343 Antisense
GATCCTGTGCCATGAACATCGGAGG 40 415 350 Antisense
TTTCAAGTGCCACACCATCATGAAT 701 671 774 Antisense
GCCACACCATCATGAATTGCACAAA 425 279 782 Antisense
TGAATTGCACAAAGACATGCCCAAA 277 577 794 Antisense
TGAACCCAGCTAAGGCCATCGGAGA 659 573 824 Antisense
GCCATCGGAGAGATCAAATCGCTGC 636 279 838 Antisense
AATCGCTGCTTACTGGATTCACATC 28 169 854 Antisense
Sequence Source Affymetrix Proprietary Database