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[193869_at] Succinate dehydrogenase cytochrome b chain

Description T07C4.7 /REP_DB=WormBase Gene ID /WP=CE00598 /GEN=mev-1 /TR=SW:P41956 /GB=CAA82572.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Succinate dehydrogenase cytochrome b chain
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 61      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 27      6grp_total > 61      4grp_total > 60      6grp_highest_sub > 04      6grp_cgc > 84      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7443
1 2 3 4 range
A 8768.5
(2.5)
P 		7638.6
(1.6)
P 		9326.5
(3)
P 		2052.2
(-3)
P 		7274
B 8483.1
(2.1)
P 		9495.1
(3)
P 		9016.2
(2.6)
P 		2470.5
(-3)
P 		7025
C 8663.7
(3)
P 		8574.4
(2.9)
P 		7640.2
(2.1)
P 		2138.9
(-3)
P 		6525
avr 8638.4
(3) 		8569.4
(2.9) 		8661
(3) 		2220.5
(-3) 		6441

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3811
1 2 3 4 5 6 range
A 6698.7
(-0.6)
P 		6992.8
(-0)
P 		8573.6
(3)
P 		8091.4
(2.1)
P 		8146.1
(2.2)
P 		5430
(-3)
P 		3144
B 6078.4
(-1)
P 		6521.6
(-0.1)
P 		7948.3
(2.7)
P 		8115.7
(3)
P 		6942.5
(0.7)
P 		5059.7
(-3)
P 		3056
C 7231.9
(0.2)
P 		6366.3
(-1.3)
P 		8870.2
(3)
P 		8781
(2.8)
P 		7493.2
(0.6)
P 		5394.2
(-3)
P 		3476
avr 6669.7
(-0.4) 		6626.9
(-0.5) 		8464
(3) 		8329.4
(2.7) 		7527.3
(1.2) 		5294.6
(-3) 		3169
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2892
1 2 3 4 range
A 3192.6
(3)
P 		1658.1
(-0.2)
P 		2438.1
(1.4)
P 		300.4
(-3)
P 		2892
B 2705.2
(3)
P 		2345.1
(2)
P 		2089.3
(1.3)
P 		526.5
(-3)
P 		2179
C 2867.9
(3)
P 		2465.2
(2)
P 		2662.9
(2.5)
P 		360.7
(-3)
P 		2507
avr 2921.9
(3) 		2156.1
(1.2) 		2396.8
(1.8) 		395.9
(-3) 		2526

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1586
1 2 3 4 5 6 range
A 1234.9
(-3)
P 		2487
(3)
P 		1867.2
(0)
P 		2052.2
(0.9)
P 		2458.1
(2.9)
P 		1322
(-2.6)
P 		1252
B 2115
(-1.5)
P 		2170.8
(-1.2)
P 		1930.1
(-2.7)
P 		2149.6
(-1.3)
P 		2820.6
(3)
P 		1886.7
(-3)
P 		934
C 2680.6
(3)
P 		1942.5
(-1.8)
P 		2257.6
(0.2)
P 		1765.9
(-3)
P 		2424.7
(1.3)
P 		1805.7
(-2.7)
P 		915
avr 2010.2
(-0.7) 		2200.1
(0.5) 		2018.3
(-0.7) 		1989.2
(-0.9) 		2567.8
(3) 		1671.5
(-3) 		896
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193869_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6768
Sequence Type Exemplar sequence
Representative Public ID T07C4.7 NCBI
Target Description T07C4.7 /REP_DB=WormBase Gene ID /WP=CE00598 /GEN=mev-1 /TR=SW:P41956 /GB=CAA82572.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Succinate dehydrogenase cytochrome b 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_066882(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066882 NCBI Caenorhabditis elegans abnormal MEthyl Viologen sensitivity family member (mev-1) (mev-1) mRNA, complete cds. 11/11 None
SNAP00000030154 ENSEMBL cdna:SNAP chromosome:CEL140:III:10334164:10334876:1 11/11 None
GENEFINDER00000030172 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10334164:10334876:1 11/11 None
T07C4.7.2 ENSEMBL cdna:known chromosome:CEL140:III:10334153:10335595:1 gene:T07C4.7 11/11 None
T07C4.7.1 ENSEMBL cdna:known chromosome:CEL140:III:10334163:10335595:1 gene:T07C4.7 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:10334159-10334872(+) 100.0 100.0
Public Domain and Genome References
Gene Title Succinate dehydrogenase cytochrome b chain
Gene Symbol mev-1
Ensembl T07C4.7
Entrez Gene 260040 Entrez gene
SwissProt P41956 EMBL-EBI
WormBase CE00598 Wormbase
Functional Annotations
Ortholog
ID Title Organism
YEAST_2:1777334_AT Cytochrome b 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 Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
104 succinate dehydrogenase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA82572 Hypothetical protein T07C4.7 [Caenorhabditis elegans] ref|NP_499283.1| abnormal MEthyl Viologen sensitivity family member (mev-1) [Caenorhabditis elegans] gb|AAA20081.1| CYT-1 [Caenorhabditis elegans] sp|P41956|C560_CAEEL Succinate dehydrogenase cytochrome b560 subunit, mitochondrial precursor 1.0E-100
blast P41955 Succinate dehydrogenase cytochrome b560 subunit, mitochondrial precursor emb|CAE56795.1| Hypothetical protein CBG24607 [Caenorhabditis briggsae] gb|AAA20078.1| CDS structure deduced from alignment with C. elegans cyt-1 gene 6.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR000701 EMBL-EBI Succinate dehydrogenase, cytochrome b subunit 1.0E-43
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499283.1 3 72-94,107-129,149-171
T07C4.7.2 3 72-94,107-129,149-171
T07C4.7.1 3 72-94,107-129,149-171
SNAP00000030154 3 72-94,107-129,149-171
GENEFINDER00000030172 3 72-94,107-129,149-171
Sequence
Target Sequence 
>C. ELEGANS:193869_AT
aacattccaactgcgattctgtgccgcttgggcgccagatcgtcgatttcccgctccttt
ggaacatcgatcgtcaccaagtccgaggcaaagacgccaatccagaagttcggatgggaa
tacctgttgaagcagcgctccaagaatcgcccaatcgctccacatctcaccgtctaccag
ccacaattgacctggatgctctccggattccatagaatcagcggttgtgtaatggccgga
acccttctcgtcggaggaatcggattcgcagttttgccgttcgatttcaccgcttttgtg
gatttcatccgtagctggaacttaccatgcgcggtgaccgctgtcttcaagtacatcatt
gctttccccatcattttccatactcttaacggaattcgcttcttaggattcgatttggct
aagggagtcaataatgttggacagatctacaaatcgggatatctcgtatctggactttcg
gcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACATTCCAACTGCGATTCTGTGCC 395 137 19 Antisense
AACATCGATCGTCACCAAGTCCGAG 74 137 81 Antisense
GAATACCTGTTGAAGCAGCGCTCCA 139 327 136 Antisense
GCCACAATTGACCTGGATGCTCTCC 592 277 198 Antisense
GATGCTCTCCGGATTCCATAGAATC 531 413 213 Antisense
ATCGGATTCGCAGTTTTGCCGTTCG 254 35 277 Antisense
GTTCGATTTCACCGCTTTTGTGGAT 530 441 297 Antisense
GTAGCTGGAACTTACCATGCGCGGT 484 457 329 Antisense
GTGACCGCTGTCTTCAAGTACATCA 274 483 352 Antisense
TCAAGTACATCATTGCTTTCCCCAT 298 633 365 Antisense
TATCTCGTATCTGGACTTTCGGCTA 521 659 478 Antisense
Sequence Source Affymetrix Proprietary Database