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[174072_at]

Description C63639 /REP_DB=TREMBL Accession /GB=C63639 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk419f9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 75      4grp_highest_8_8 > 50      4grp_high_8_8 > 32      6grp_highest_nonorm > 83      6grp_total > 66      4grp_total > 47      6grp_highest_sub > Da      6grp_cgc > 47      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 296
1 2 3 4 range
A 415.4
(3)
P 		339.7
(0.3)
P 		316.5
(-0.5)
P 		246
(-3)
P 		169
B 503.2
(3)
P 		207.7
(-3)
P 		235.2
(-2.4)
P 		326
(-0.6)
P 		296
C 500.5
(3)
P 		309.9
(-2.1)
P 		344.9
(-1.2)
P 		276.7
(-3)
P 		224
avr 473
(3) 		285.8
(-2.9) 		298.9
(-2.5) 		282.9
(-3) 		190

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 364
1 2 3 4 5 6 range
A 354.3
(-3)
P 		423.2
(-0.7)
P 		438.2
(-0.2)
P 		526.1
(2.7)
P 		426.5
(-0.6)
P 		535.2
(3)
P 		181
B 499.8
(-1.2)
P 		448.5
(-2.2)
P 		587.9
(0.5)
P 		408.1
(-3)
P 		450
(-2.2)
P 		718.4
(3)
P 		310
C 378
(-2.7)
P 		462.9
(-0.7)
P 		411
(-1.9)
P 		569.7
(1.7)
P 		365.1
(-3)
P 		625.2
(3)
P 		260
avr 410.7
(-3) 		444.9
(-2) 		479
(-1.1) 		501.3
(-0.5) 		413.9
(-2.9) 		626.3
(3) 		216
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 130
1 2 3 4 range
A 151.3
(3)
P 		73.7
(-1)
P 		82.8
(-0.6)
P 		36
(-3)
P 		115
B 160.5
(3)
P 		51.3
(-3)
P 		54.5
(-2.8)
P 		69.5
(-2)
P 		109
C 165.7
(3)
P 		89.1
(-0.9)
P 		120.2
(0.7)
P 		46.7
(-3)
P 		119
avr 159.2
(3) 		71.4
(-1.9) 		85.8
(-1.1) 		50.7
(-3) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 65.3
(-3)
P 		150.5
(3)
P 		95.4
(-0.9)
P 		133.4
(1.8)
P 		128.7
(1.5)
P 		130.3
(1.6)
P 		85
B 173.9
(-0.5)
P 		149.3
(-1.5)
P 		142.7
(-1.7)
P 		108.1
(-3)
P 		182.8
(-0.2)
P 		267.9
(3)
P 		160
C 140.1
(-1)
P 		141.2
(-0.9)
P 		104.6
(-3)
P 		114.6
(-2.4)
P 		118.1
(-2.2)
P 		209.3
(3)
P 		105
avr 126.4
(-2.2) 		147
(-0.8) 		114.2
(-3) 		118.7
(-2.7) 		143.2
(-1) 		202.5
(3) 		88
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174072_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20388
Sequence Type Exemplar sequence
Representative Public ID C63639 NCBI
Target Description C63639 /REP_DB=TREMBL Accession /GB=C63639 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk419f9 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_060292(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060292 NCBI Caenorhabditis elegans CEll Death abnormality family member (ced-12) (ced-12) mRNA, complete cds. 11/11 None
SNAP00000023678 ENSEMBL cdna:SNAP chromosome:CEL140:I:10231094:10235093:-1 10/11 None
GENEFINDER00000023699 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10231094:10235114:-1 10/11 None
Y106G6E.5.2 ENSEMBL cdna:known chromosome:CEL140:I:10230999:10235130:-1 gene:Y106G6E.5 11/11 None
Y106G6E.5.1 ENSEMBL cdna:known chromosome:CEL140:I:10231001:10235093:-1 gene:Y106G6E.5 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:10230957-10231374(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ced-12
Ensembl Y106G6E.5
Entrez Gene 172890 Entrez gene
SwissProt Q8STE5 EMBL-EBI
WormBase CE27228 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604892_AT similar to engulfment and cell motility 2 cfa
CANINE:1591320_AT similar to engulfment and cell motility 2 cfa
CANINE_2:CFA.19514.2.S1_AT similar to engulfment and cell motility 2 cfa
CANINE_2:CFA.5124.1.S1_AT similar to engulfment and cell motility 2 cfa
CANINE_2:CFAAFFX.16203.1.S1_AT similar to engulfment and cell motility 2 cfa
CANINE_2:CFAAFFX.16203.1.S1_S_AT similar to engulfment and cell motility 2 cfa
CHICKEN:GGA.10492.1.S1_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) gga
CHICKEN:GGA.10492.2.S1_A_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) gga
HG-U133_PLUS_2:220363_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133A:220363_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133A_2:220363_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133A_2:221528_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133A:221528_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133_PLUS_2:221528_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HU35KSUBA:AA455331_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HU35KSUBD:RC_AA278754_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
U133_X3P:G12652782_3P_S_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
U133_X3P:G11545798_3P_A_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
U133_X3P:HS2.96560.2.S1_3P_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133_PLUS_2:1554857_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133A_2:55692_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133_PLUS_2:55692_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133A:55692_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U95B:55692_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U95C:62814_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U95E:77761_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U95E:77764_G_AT engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133_PLUS_2:240220_AT Engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U133B:240220_AT Engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U95D:82331_AT Engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
HG-U95D:89481_AT Engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
U133_X3P:HS.164318.0.A1_3P_AT Engulfment and cell motility 2 (ced-12 homolog, C. elegans) hs
MOUSE430A_2:1456098_A_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MOE430A:1456098_A_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MOUSE430_2:1456098_A_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MG-U74BV2:105329_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MG-U74BV2:111833_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MOE430B:1436011_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MOUSE430_2:1436011_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) mm
MU19KSUBB:TC28572_AT Engulfment and cell motility 2, ced-12 homolog (C. elegans), transcript variant 2, mRNA (cDNA clone MGC:38114 IMAGE:5320429) mm
MU19KSUBB:TC28572_G_AT Engulfment and cell motility 2, ced-12 homolog (C. elegans), transcript variant 2, mRNA (cDNA clone MGC:38114 IMAGE:5320429) mm
MU19KSUBC:TC36354_AT Engulfment and cell motility 2, ced-12 homolog (C. elegans), transcript variant 2, mRNA (cDNA clone MGC:38114 IMAGE:5320429) mm
MU19KSUBC:TC42056_AT Engulfment and cell motility 2, ced-12 homolog (C. elegans), transcript variant 2, mRNA (cDNA clone MGC:38114 IMAGE:5320429) mm
RG-U34C:RC_AA859271_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) (predicted) rn
RAE230A:1371613_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) (predicted) rn
RAT230_2:1371613_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) (predicted) rn
RAE230B:1380737_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) (predicted) rn
RAT230_2:1380737_AT engulfment and cell motility 2, ced-12 homolog (C. elegans) (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6909 phagocytosis inferred from electronic annotation QuickGO AmiGO
6915 apoptosis inferred from electronic annotation QuickGO AmiGO
7015 actin filament organization inferred from direct assay QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5856 cytoskeleton inferred from electronic annotation QuickGO AmiGO
5886 plasma membrane inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAD12890 Hypothetical protein Y106G6E.5 [Caenorhabditis elegans] ref|NP_492693.1| CEll Death abnormality family member (ced-12) [Caenorhabditis elegans] gb|AAL49495.1| CED-12 [Caenorhabditis elegans] gb|AAL38510.1| PH domain protein CED-12 [Caenorhabditis elegans] 0.0
blast T26421 hypothetical protein Y106G6E.5 - Caenorhabditis elegans 0.0
blast CAE66845 Hypothetical protein CBG12216 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006816 EMBL-EBI Protein of unknown function DUF609 7.2E-72
Pfam IPR006816 EMBL-EBI Protein of unknown function DUF609 7.2E-72
Sequence
Target Sequence 
>C. ELEGANS:174072_AT
ttttaatggcattgacatccgatgaaactcaatctgttatatggcttgaaggtcttgctg
aattgattgggagcaaggcagttaaaagtgaaaccgatgcaatggttgaacgaatgctga
aaatggagctacgagttcgccttctcaatgtgaaactcacgaaccccgaggagaaaccag
aaattccaccgatccctgacgatatcaaaagctttatttcaaagttttaatcatattcaa
gctttatcattcttacgtgcattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTAATGGCATTGACATCCGATGA 157 675 54 Antisense
GACATCCGATGAAACTCAATCTGTT 64 371 67 Antisense
AATCTGTTATATGGCTTGAAGGTCT 419 167 84 Antisense
GAAGGTCTTGCTGAATTGATTGGGA 702 333 101 Antisense
GATGCAATGGTTGAACGAATGCTGA 185 413 149 Antisense
AAATGGAGCTACGAGTTCGCCTTCT 632 119 174 Antisense
GTTCGCCTTCTCAATGTGAAACTCA 580 441 188 Antisense
TGAAACTCACGAACCCCGAGGAGAA 500 571 204 Antisense
TCACGAACCCCGAGGAGAAACCAGA 167 597 210 Antisense
CACCGATCCCTGACGATATCAAAAG 494 201 240 Antisense
AGCTTTATCATTCTTACGTGCATTT 416 77 293 Antisense
Sequence Source Affymetrix Proprietary Database