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[187671_at]

Description C41D11.5 /REP_DB=WormBase Gene ID /WP=CE27841 /TR=SW:O01975 /GB=AAK68240.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 39      6grp_high1_10_10 > 82      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 57      6grp_total > 73      4grp_total > 02      6grp_highest_sub > 04      6grp_cgc > 86      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5467
1 2 3 4 range
A 2092.5
(-2.7)
P 		2508.2
(-2.1)
P 		1834.7
(-3)
P 		6328.2
(3)
P 		4494
B 2092.7
(-2.6)
P 		1863.3
(-2.8)
P 		1696.3
(-3)
P 		6989.4
(3)
P 		5293
C 2175.6
(-2.7)
P 		1914.6
(-3)
P 		1985.3
(-2.9)
P 		7163.6
(3)
P 		5249
avr 2120.3
(-2.7) 		2095.4
(-2.7) 		1838.8
(-3) 		6827.1
(3) 		4988

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1261
1 2 3 4 5 6 range
A 2491.4
(-2)
P 		2405.3
(-3)
P 		2742.6
(0.7)
P 		2948.7
(3)
P 		2618.8
(-0.6)
P 		2566.3
(-1.2)
P 		543
B 1927.3
(-3)
P 		2251.1
(-1.5)
P 		2196.5
(-1.7)
P 		3188.4
(3)
P 		2767.6
(1)
P 		2451.3
(-0.5)
P 		1261
C 2102.3
(-3)
P 		2197.1
(-2.3)
P 		2635
(1.1)
P 		2880.4
(3)
P 		2573.5
(0.6)
P 		2383.4
(-0.8)
P 		778
avr 2173.7
(-3) 		2284.5
(-2.2) 		2524.7
(-0.5) 		3005.8
(3) 		2653.3
(0.5) 		2467
(-0.9) 		832
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1096
1 2 3 4 range
A 761.9
(0.8)
P 		544.5
(-2.1)
P 		479.6
(-3)
P 		926.3
(3)
P 		447
B 667.4
(-1.5)
P 		460.2
(-2.6)
P 		393.1
(-3)
P 		1489.4
(3)
P 		1096
C 720.2
(-1.5)
P 		550.5
(-3)
P 		692
(-1.7)
P 		1207.9
(3)
P 		657
avr 716.5
(-1.3) 		518.4
(-3) 		521.6
(-3) 		1207.9
(3) 		690

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 665
1 2 3 4 5 6 range
A 459.3
(-3)
P 		855.4
(3)
P 		597.3
(-0.9)
P 		747.9
(1.4)
P 		790.2
(2)
P 		624.8
(-0.5)
P 		396
B 670.6
(-1.6)
P 		749.3
(-0.8)
P 		533.4
(-3)
P 		844.5
(0.2)
P 		1124.4
(3)
P 		914.1
(0.9)
P 		591
C 779.2
(1.7)
P 		670.4
(-0.8)
P 		670.7
(-0.8)
P 		579.2
(-3)
P 		832.8
(3)
P 		797.9
(2.2)
P 		254
avr 636.4
(-2.3) 		758.4
(0) 		600.5
(-3) 		723.9
(-0.7) 		915.8
(3) 		778.9
(0.4) 		315
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187671_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2071
Sequence Type Exemplar sequence
Representative Public ID C41D11.5 NCBI
Target Description C41D11.5 /REP_DB=WormBase Gene ID /WP=CE27841 /TR=SW:O01975 /GB=AAK68240.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_058970(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058970 NCBI Caenorhabditis elegans CED-3 Protease Suppressor family member (cps-6) (cps-6) mRNA, complete cds. 11/11 None
SNAP00000002069 ENSEMBL cdna:SNAP chromosome:CEL140:I:4446663:4449775:-1 11/11 None
GENEFINDER00000002080 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4446663:4449775:-1 11/11 None
C41D11.8.1 ENSEMBL cdna:known chromosome:CEL140:I:4446594:4448462:-1 gene:C41D11.8 11/11 None
C41D11.8.2 ENSEMBL cdna:known chromosome:CEL140:I:4446594:4448464:-1 gene:C41D11.8 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
chrI:4446662-4450924(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol cps-6
Ensembl C41D11.8
Entrez Gene 172045 Entrez gene
SwissProt Q95NM6 EMBL-EBI
WormBase CE29488 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.30665.1.S1_AT similar to Endonuclease G, mitochondrial precursor (Endo G) cfa
DROSOPHILA_2:1632094_AT dm
DROSGENOME1:154735_AT dm
HG-U133A:204824_AT endonuclease G hs
HG-U133_PLUS_2:204824_AT endonuclease G hs
HG-FOCUS:204824_AT endonuclease G hs
HG-U133A_2:204824_AT endonuclease G hs
HU35KSUBB:RC_R44535_F_AT endonuclease G hs
HU35KSUBB:RC_R44535_R_AT endonuclease G hs
HU35KSUBB:RC_AA194724_AT endonuclease G hs
U133_X3P:G4758269_3P_AT endonuclease G hs
HG-U95AV2:33286_AT endonuclease G hs
MOE430A:1438317_A_AT endonuclease G mm
MOUSE430A_2:1438317_A_AT endonuclease G mm
MOUSE430_2:1438317_A_AT endonuclease G mm
MOUSE430A_2:1421097_AT endonuclease G mm
MOE430A:1421097_AT endonuclease G mm
MOUSE430_2:1421097_AT endonuclease G mm
MU11KSUBB:X99395_S_AT endonuclease G mm
MG-U74AV2:160494_AT endonuclease G mm
YEAST_2:1771743_AT Major mitochondrial nuclease, has RNAse and DNA endo- and exonucleolytic activities; has a role in mitochondrial recombination Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6309 DNA fragmentation during apoptosis inferred from direct assay QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5739 mitochondrion inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4519 endonuclease activity inferred from electronic annotation QuickGO AmiGO
4519 endonuclease activity inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast T28787 hypothetical protein C41D11.5 - Caenorhabditis elegans 0.0
blast AAL08030 Ced-3 protease suppressor protein 6 [Caenorhabditis elegans] ref|NP_491371.1| CED-3 Protease Suppressor family member (cps-6) [Caenorhabditis elegans] gb|AAK72007.1| ced-3 protease suppressor 6 [Caenorhabditis elegans] sp|Q95NM6|NUCG_CAEEL Endonuclease G, mitochondrial precursor (Endo G) (Ced-3 protease suppressor 6) 1.0E-179
blast T28787 hypothetical protein C41D11.5 - Caenorhabditis elegans 1.0E-179
Protein Domains
Database ID Description E-Value
Pfam IPR001604 EMBL-EBI DNA/RNA non-specific endonuclease 2.0E-85
Pfam IPR007829 EMBL-EBI TM2 5.5E-14
Pfam IPR001604 EMBL-EBI DNA/RNA non-specific endonuclease 2.0E-85
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000002069 3 5-24,127-149,164-186
GENEFINDER00000002080 3 5-24,127-149,164-186
Sequence
Target Sequence 
>C. ELEGANS:187671_AT
attcaagccagatatcactttcccgcagaaattcctttctcaaaatacggattataagtg
cagtggattcgatcgtggacatctcgccgccgctggaaatcatcggaagagtcagttggc
ggtcgatcaaactttttatttgagcaatatgagcccacaagttggacgaggattcaatcg
cgataagtggaatgatttggaaatgcactgcagaagagtcgcaaaaaagatgatcaactc
ctacataatcaccggtcccctctaccttccaaaacttgaaggagatggaaaaaagtatat
caagtatcaagttatcggtgataataacgttgcagtgccaactcatttcttcaaagttgc
tcttttcgaagtgacacccggcaaattcgagctggaatcctatattttgccaaacgcagt
catcgaggatactgtagaaatttccaagttccatgttccattggatgctgtggagagaag
tgcgggtcttgagattttcgctcgtttggaccctaagag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCAAGCCAGATATCACTTTCCCG 98 13 1710 Antisense
CTTTCCCGCAGAAATTCCTTTCTCA 264 223 1727 Antisense
TGGATTCGATCGTGGACATCTCGCC 502 551 1773 Antisense
TCGCCGCCGCTGGAAATCATCGGAA 455 599 1793 Antisense
GGAAGAGTCAGTTGGCGGTCGATCA 566 529 1814 Antisense
TCAACTCCTACATAATCACCGGTCC 161 631 1943 Antisense
GTTGCAGTGCCAACTCATTTCTTCA 351 439 2038 Antisense
AGTTGCTCTTTTCGAAGTGACACCC 662 61 2064 Antisense
GACACCCGGCAAATTCGAGCTGGAA 189 367 2082 Antisense
AAATTTCCAAGTTCCATGTTCCATT 133 115 2147 Antisense
TTTTCGCTCGTTTGGACCCTAAGAG 104 677 2204 Antisense
Sequence Source Affymetrix Proprietary Database