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[175813_s_at]

Description g6969623 /REP_DB=GenBank Identifier /GB=AF226866.1 /PROTEIN_GB=AAF33845.1 /CHR=4 /FEA=Mapped Transcript /DEF=cell-corpse engulfment protein CED-2
Cluster 6grp_total > 88      4grp_total > 05      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 133
1 2 3 4 range
A 179.3
(-2.1)
A 		165.7
(-3)
A 		185.1
(-1.7)
A 		255.2
(3)
A 		90
B 236.6
(3)
A 		122.3
(-3)
A 		176.9
(-0.1)
A 		209.9
(1.6)
P 		114
C 166.3
(-3)
A 		240.6
(3)
A 		179.3
(-1.9)
A 		166
(-3)
A 		75
avr 194.1
(0.1) 		176.2
(-3) 		180.4
(-2.3) 		210.4
(3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 449
1 2 3 4 5 6 range
A 155.9
(-1.8)
A 		140.1
(-2.1)
A 		88
(-3)
A 		236.4
(-0.3)
A 		297.8
(0.8)
P 		420.9
(3)
P 		333
B 148.8
(-2.1)
A 		133.3
(-2.5)
A 		113.4
(-3)
A 		156.7
(-1.9)
A 		313.7
(2)
A 		352.9
(3)
P 		240
C 206.9
(-1.7)
P 		161.8
(-2.3)
A 		223.1
(-1.5)
A 		115
(-3)
A 		392.7
(1)
P 		536.6
(3)
P 		422
avr 170.5
(-2.4) 		145.1
(-2.9) 		141.5
(-3) 		169.4
(-2.4) 		334.7
(0.9) 		436.8
(3) 		295
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 65.3
(3)
A 		36
(-3)
A 		48.4
(-0.5)
A 		37.3
(-2.7)
A 		29
B 75.5
(3)
A 		30.2
(-3)
A 		41
(-1.6)
A 		44.7
(-1.1)
P 		45
C 55
(0.9)
A 		69.2
(3)
A 		62.5
(2)
A 		28
(-3)
A 		41
avr 65.3
(3) 		45.1
(-1.2) 		50.6
(-0.1) 		36.7
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 160
1 2 3 4 5 6 range
A 28.7
(-2.3)
A 		49.8
(-0.8)
A 		19.2
(-3)
A 		60
(-0.1)
A 		89.8
(2.1)
P 		102.5
(3)
P 		83
B 51.8
(-1.6)
A 		44.4
(-2)
A 		27.5
(-3)
A 		41.5
(-2.2)
A 		127.5
(2.8)
A 		131.6
(3)
P 		104
C 76.7
(-0.9)
P 		49.4
(-2)
A 		56.8
(-1.7)
A 		23.1
(-3)
A 		127.1
(1)
P 		179.6
(3)
P 		157
avr 52.4
(-2) 		47.9
(-2.2) 		34.5
(-3) 		41.5
(-2.6) 		114.8
(1.7) 		137.9
(3) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175813_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19888
Sequence Type Exemplar sequence
Representative Public ID 6969623 NCBI
Target Description g6969623 /REP_DB=GenBank Identifier /GB=AF226866.1 /PROTEIN_GB=AAF33845.1 /CHR=4 /FEA=Mapped Transcript /DEF=cell-corpse engulfment protein CED-2
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_067704(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067704 NCBI Caenorhabditis elegans CEll Death abnormality family member (ced-2) (ced-2) mRNA, complete cds. 11/11 A 
SNAP00000005512 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1589786:1608814:1 11/11 None
Y41D4B.13 ENSEMBL cdna:known chromosome:CEL140:IV:1597314:1601619:1 gene:Y41D4B.13 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000005529 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1597319-1601625(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ced-2
Ensembl Y41D4B.13
Entrez Gene 176968 Entrez gene
SwissProt Q9NHC3 EMBL-EBI
WormBase CE28360 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.23374.1.S1_AT similar to Crk-like protein cfa
CANINE_2:CFAAFFX.23379.1.S1_AT similar to Crk-like protein cfa
CANINE_2:CFAAFFX.23379.1.S1_S_AT similar to Crk-like protein cfa
DROSOPHILA_2:1634217_S_AT dm
DROSGENOME1:153622_AT dm
CHICKEN:GGAAFFX.3975.1.S1_AT similar to v-crk sarcoma virus CT10 oncogene homolog (avian)-like; v-crk avian sarcoma virus CT10 oncogene homolog-like gga
CHICKEN:GGAAFFX.3975.2.S1_AT similar to v-crk sarcoma virus CT10 oncogene homolog (avian)-like; v-crk avian sarcoma virus CT10 oncogene homolog-like gga
CHICKEN:GGAAFFX.3975.2.S1_S_AT similar to v-crk sarcoma virus CT10 oncogene homolog (avian)-like; v-crk avian sarcoma virus CT10 oncogene homolog-like gga
HG-U95AV2:415_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HC-G110:415_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U95AV2:33524_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U133_PLUS_2:206184_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U133A:206184_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-FOCUS:206184_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U133A_2:206184_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HU35KSUBA:AA393961_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HU35KSUBB:RC_N33290_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HUGENEFL:X59656_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
U133_X3P:G4885152_3P_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
U133_X3P:HS.5613.0.S1_3P_X_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
U133_X3P:HS.5613.0.S1_3P_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U133A_2:212180_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U133_PLUS_2:212180_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U133A:212180_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HG-U95AV2:35301_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
HU35KSUBC:RC_D20322_AT V-crk sarcoma virus CT10 oncogene homolog (avian)-like hs
MOE430A:1425604_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430A_2:1425604_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430_2:1425604_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MU11KSUBB:MSA.2646.0_S_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MG-U74AV2:103849_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430_2:1421953_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOE430A:1421953_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430A_2:1421953_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MG-U74AV2:103848_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOE430A:1436950_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430A_2:1436950_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430_2:1436950_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOE430A:1421954_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430A_2:1421954_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MOUSE430_2:1421954_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like mm
MU19KSUBB:TC31192_AT V-crk sarcoma virus CT10 oncogene homolog (avian)-like, mRNA (cDNA clone IMAGE:5355496) mm
RAE230B:1395605_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like (predicted) rn
RAT230_2:1395605_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like (predicted) rn
RAE230B:1393942_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like (predicted) rn
RAT230_2:1393942_AT v-crk sarcoma virus CT10 oncogene homolog (avian)-like (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5070 SH3/SH2 adaptor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK68463 Cell death abnormality protein 2 [Caenorhabditis elegans] ref|NP_500105.1| CEll Death abnormality family member (ced-2) [Caenorhabditis elegans] gb|AAF33845.1| cell-corpse engulfment protein CED-2 [Caenorhabditis elegans] 1.0E-149
blast AAK68463 Cell death abnormality protein 2 [Caenorhabditis elegans] ref|NP_500105.1| CEll Death abnormality family member (ced-2) [Caenorhabditis elegans] gb|AAF33845.1| cell-corpse engulfment protein CED-2 [Caenorhabditis elegans] 1.0E-147
blast CAE67964 Hypothetical protein CBG13568 [Caenorhabditis briggsae] 1.0E-123
blast CAE67964 Hypothetical protein CBG13568 [Caenorhabditis briggsae] 1.0E-122
blast AAK68461 Hypothetical protein Y41D4B.11 [Caenorhabditis elegans] ref|NP_500107.1| Y41D4B.11 [Caenorhabditis elegans] 1.0E-108
blast XP_393082 PREDICTED: similar to ENSANGP00000010943 [Apis mellifera] 1.0E-34
Protein Domains
Database ID Description E-Value
scop a.4.5.DNA-binding protein Mj223 All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; DNA-binding protein Mj223 3.5
Pfam IPR000980 EMBL-EBI SH2 motif 3.0E-20
Pfam IPR001452 EMBL-EBI SH3 1.5E-17
Pfam IPR000980 EMBL-EBI SH2 motif 3.0E-20
Pfam IPR001452 EMBL-EBI SH3 1.5E-17
Pfam IPR001214 EMBL-EBI Nuclear protein SET 3.0E-13
Sequence
Target Sequence 
>C. ELEGANS:175813_S_AT
gggaaccactggattagtgccggcaaactatgtacaaattcagatggaatttcacaatga
cagaacctcaaaaggcgccagtcaatcgtcgatcggaagcagcggaggtggcgccgaacg
attttcgagcgccagcacgagcagtgataatattgagctccagccccgtctgccagcaaa
agccaaagtgacgttcgatcgtgtcccaaacgcctacgatccgacccaattgcgtgtgaa
aaaggggcaaacagtgcttgtaactcagaaaatgtccaacggaatgtacaaagcggaact
cgacggccaaattggctcggtgcctcatacatacctcagattcaccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGAACCACTGGATTAGTGCCGGCA 226 493 496 Antisense
CAAAAGGCGCCAGTCAATCGTCGAT 621 189 564 Antisense
ATCGTCGATCGGAAGCAGCGGAGGT 583 35 580 Antisense
GCGCCGAACGATTTTCGAGCGCCAG 496 287 606 Antisense
CGAGCGCCAGCACGAGCAGTGATAA 66 251 621 Antisense
GTGATAATATTGAGCTCCAGCCCCG 233 483 639 Antisense
CAAAGTGACGTTCGATCGTGTCCCA 352 193 679 Antisense
GATCCGACCCAATTGCGTGTGAAAA 248 417 713 Antisense
AAGCGGAACTCGACGGCCAAATTGG 563 147 786 Antisense
AAATTGGCTCGGTGCCTCATACATA 393 115 804 Antisense
CTCATACATACCTCAGATTCACCGC 467 229 819 Antisense
Sequence Source GenBank