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[188940_at] cytochrome C

Description E04A4.7 /REP_DB=WormBase Gene ID /WP=CE16968 /TR=O44479 /GB=AAB92035.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cytochrome C
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 04      4grp_high_8_8 > 38      6grp_highest_nonorm > 09      6grp_total > 40      4grp_total > 34      6grp_highest_sub > 03_04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8139
1 2 3 4 range
A 23911
(-3)
P 		30529.1
(3)
P 		28451
(1.1)
P 		28404
(1.1)
P 		6618
B 25700.5
(-3)
P 		28068.1
(-0.1)
P 		30528.4
(3)
P 		27126.4
(-1.2)
P 		4828
C 25017.8
(-0.6)
P 		27502.1
(1.7)
P 		22390.1
(-3)
P 		28860.5
(3)
P 		6470
avr 24876.4
(-3) 		28699.8
(3) 		27123.2
(0.5) 		28130.3
(2.1) 		3823

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16456
1 2 3 4 5 6 range
A 25258.6
(0.2)
P 		25407.3
(0.3)
P 		29796.7
(3)
P 		29288.6
(2.7)
P 		19949.8
(-3)
P 		20399.8
(-2.7)
P 		9847
B 21449.1
(-1)
P 		24831.6
(0.2)
P 		32361.8
(3)
P 		24645.1
(0.1)
P 		19944.5
(-1.6)
P 		16143.6
(-3)
P 		16218
C 23519
(-0.7)
P 		26495.5
(0.5)
P 		28965.5
(1.5)
P 		32599.8
(3)
P 		20872.6
(-1.8)
P 		17960
(-3)
P 		14640
avr 23408.9
(-0.4) 		25578.1
(0.6) 		30374.7
(3) 		28844.5
(2.2) 		20255.6
(-2) 		18167.8
(-3) 		12207
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4548
1 2 3 4 range
A 8706
(3)
P 		6627
(0.3)
P 		7437.6
(1.3)
P 		4157.8
(-3)
P 		4548
B 8195.7
(3)
P 		6932.2
(-0.1)
P 		7074.1
(0.2)
P 		5780.6
(-3)
P 		2415
C 8281.6
(3)
P 		7907
(2.3)
P 		7803.7
(2.2)
P 		4866.3
(-3)
P 		3415
avr 8394.4
(3) 		7155.4
(0.9) 		7438.5
(1.3) 		4934.9
(-3) 		3460

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4380
1 2 3 4 5 6 range
A 4656.2
(-3)
P 		9036.1
(3)
P 		6489.1
(-0.5)
P 		7428.3
(0.8)
P 		6020
(-1.1)
P 		4966.7
(-2.6)
P 		4380
B 7463.2
(0.9)
P 		8265.4
(3)
P 		7858.4
(1.9)
P 		6527.6
(-1.6)
P 		8103.2
(2.6)
P 		6019.9
(-3)
P 		2246
C 8717.5
(3)
P 		8084.6
(1.6)
P 		7372.2
(0)
P 		6555.9
(-1.8)
P 		6754.1
(-1.4)
P 		6012.3
(-3)
P 		2705
avr 6945.6
(-0.3) 		8462
(3) 		7239.9
(0.4) 		6837.3
(-0.5) 		6959.1
(-0.2) 		5666.3
(-3) 		2796
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188940_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10565
Sequence Type Exemplar sequence
Representative Public ID E04A4.7 NCBI
Target Description E04A4.7 /REP_DB=WormBase Gene ID /WP=CE16968 /TR=O44479 /GB=AAB92035.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cytochrome C
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_068228(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068228 NCBI Caenorhabditis elegans E04A4.7 (E04A4.7) mRNA, complete cds. 11/11 None
SNAP00000038153 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4748046:4748432:-1 11/11 None
GENEFINDER00000038159 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4748046:4748432:-1 11/11 None
E04A4.7.5 ENSEMBL cdna:known chromosome:CEL140:IV:4747453:4748444:-1 gene:E04A4.7 11/11 None
E04A4.7.4 ENSEMBL cdna:known chromosome:CEL140:IV:4747453:4749003:-1 gene:E04A4.7 11/11 None
E04A4.7.3 ENSEMBL cdna:known chromosome:CEL140:IV:4747892:4748445:-1 gene:E04A4.7 11/11 None
E04A4.7.2 ENSEMBL cdna:known chromosome:CEL140:IV:4747892:4748445:-1 gene:E04A4.7 11/11 None
E04A4.7.1 ENSEMBL cdna:known chromosome:CEL140:IV:4747892:4748440:-1 gene:E04A4.7 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
chrIV:4748051-4748438(-) 100.0 100.0
Public Domain and Genome References
Gene Title cytochrome C
Ensembl E04A4.7
Entrez Gene 177243 Entrez gene
SwissProt P19974 EMBL-EBI
WormBase CE16968 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264727_AT cytochrome c, putative at
ATGENOME1:19623_AT cytochrome c, putative at
CANINE:1585500_AT similar to Cytochrome c, somatic cfa
CANINE_2:CFA.379.1.S1_AT similar to Cytochrome c, somatic cfa
CANINE_2:CFAAFFX.5204.1.S1_S_AT similar to Cytochrome c, somatic cfa
DROSOPHILA_2:1641049_AT Cytochrome c proximal dm
DROSGENOME1:143115_AT Cytochrome c proximal dm
CHICKEN:GGA.5919.1.S1_AT cytochrome c, somatic gga
CHICKEN:GGA.5919.2.S1_A_AT cytochrome c, somatic gga
HG-U133A:208905_AT cytochrome c, somatic hs
HG-U133_PLUS_2:208905_AT cytochrome c, somatic hs
HG-FOCUS:208905_AT cytochrome c, somatic hs
HG-U133A_2:208905_AT cytochrome c, somatic hs
HU35KSUBA:HUM_ALU_AT cytochrome c, somatic hs
HU35KSUBB:HUM_ALU_AT cytochrome c, somatic hs
HU35KSUBC:HUM_ALU_AT cytochrome c, somatic hs
HU35KSUBD:HUM_ALU_AT cytochrome c, somatic hs
HUGENEFL:HUM_ALU_AT cytochrome c, somatic hs
HC-G110:HUM_ALU_AT cytochrome c, somatic hs
HUGENEFL:M22877_AT cytochrome c, somatic hs
U133_X3P:G13529022_3P_AT cytochrome c, somatic hs
U133_X3P:HS.205711.0.A1_3P_AT cytochrome c, somatic hs
U133_X3P:HS.157301.0.A1_3P_AT cytochrome c, somatic hs
HG-U133_PLUS_2:229415_AT cytochrome c, somatic hs
HG-U133B:229415_AT cytochrome c, somatic hs
HG-U133_PLUS_2:244546_AT cytochrome c, somatic hs
HG-U133B:244546_AT cytochrome c, somatic hs
HG-U95AV2:35818_AT cytochrome c, somatic hs
HG-U95E:70396_AT cytochrome c, somatic hs
HG-U95E:83749_AT cytochrome c, somatic hs
MOE430A:1422483_A_AT cytochrome c, somatic mm
MOUSE430A_2:1422483_A_AT cytochrome c, somatic mm
MOUSE430_2:1422483_A_AT cytochrome c, somatic mm
MOE430A:1422484_AT cytochrome c, somatic mm
MOUSE430A_2:1422484_AT cytochrome c, somatic mm
MOUSE430_2:1422484_AT cytochrome c, somatic mm
MOUSE430A_2:1456071_A_AT cytochrome c, somatic mm
MOE430A:1456071_A_AT cytochrome c, somatic mm
MOUSE430_2:1456071_A_AT cytochrome c, somatic mm
MU11KSUBB:X01756_F_AT cytochrome c, somatic mm
MU11KSUBB:MSA.2245.0_S_AT cytochrome c, somatic mm
MG-U74AV2:98132_AT cytochrome c, somatic mm
MOE430B:1445484_AT Cytochrome c, somatic, mRNA (cDNA clone MGC:6857 IMAGE:2650742) mm
MOUSE430_2:1445484_AT Cytochrome c, somatic, mRNA (cDNA clone MGC:6857 IMAGE:2650742) mm
RT-U34:K00750EXON#2-3_AT cytochrome c, somatic rn
RG-U34A:K00750EXON#2-3_AT cytochrome c, somatic rn
RT-U34:K00750EXON#2-3_G_AT cytochrome c, somatic rn
RG-U34A:K00750EXON#2-3_G_AT cytochrome c, somatic rn
RG-U34A:RC_AI008815_S_AT cytochrome c, somatic rn
RAE230A:1369939_AT cytochrome c, somatic rn
RAT230_2:1369939_AT cytochrome c, somatic rn
RAE230A:1387773_AT cytochrome c, somatic rn
RAT230_2:1387773_AT cytochrome c, somatic rn
YEAST_2:1774137_AT Cytochrome c isoform 2, expressed under hypoxic conditions; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5746 mitochondrial electron transport chain 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
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB92035 Hypothetical protein E04A4.7 [Caenorhabditis elegans] ref|NP_500629.1| E04A4.7 [Caenorhabditis elegans] 4.0E-59
blast P19974 Cytochrome c 9.0E-59
Protein Domains
Database ID Description E-Value
scop a.3.1.monodomain cytochrome c All alpha proteins; Cytochrome c; Cytochrome c; monodomain cytochrome c 0.0
Pfam IPR003088 EMBL-EBI Cytochrome c, class I 6.6E-27
Pfam IPR003088 EMBL-EBI Cytochrome c, class I 7.4E-8
Pfam IPR003088 EMBL-EBI Cytochrome c, class I 1.2E-12
Sequence
Target Sequence 
>C. ELEGANS:188940_AT
atgtccgatatcccagctggagattacgaaaagggaaagaaggtgtacaagcagagatgc
ttgcagtgccacgtcgttgactcgaccgccacaaagaccggaccaaccctccacggagtt
atcggacgtacatcaggaactgtgtctggattcgactattccgctgctaacaagaacaag
ggagtcgtctggacccgcgagaccctcttcgagtacctcctcaacccaaagaagtacatc
ccaggaaccaagatggtgttcgctggactcaagaaggctgacgagcgtgcagatctcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTCCGATATCCCAGCTGGAGATT 128 49 13 Antisense
AGCAGAGATGCTTGCAGTGCCACGT 660 75 62 Antisense
CAACCCTCCACGGAGTTATCGGACG 267 187 116 Antisense
GACGTACATCAGGAACTGTGTCTGG 5 379 137 Antisense
CTGTGTCTGGATTCGACTATTCCGC 671 239 152 Antisense
ATTCGACTATTCCGCTGCTAACAAG 440 7 162 Antisense
GAACAAGGGAGTCGTCTGGACCCGC 472 351 186 Antisense
ACCTCCTCAACCCAAAGAAGTACAT 260 81 227 Antisense
AGAAGTACATCCCAGGAACCAAGAT 4 73 242 Antisense
CAAGATGGTGTTCGCTGGACTCAAG 582 181 261 Antisense
GGCTGACGAGCGTGCAGATCTCATC 130 541 288 Antisense
Sequence Source Affymetrix Proprietary Database