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[181842_at]

Description F56A3.2 /REP_DB=WormBase Gene ID /WP=CE11216 /TR=P91351 /GB=AAB37804.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      6grp_highest_nonorm > 92      6grp_total > 88      4grp_total > 14      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 166
1 2 3 4 range
A 167.8
(0.1)
P 		122
(-1.7)
A 		90.3
(-3)
A 		239.6
(3)
P 		149
B 170.9
(1.3)
P 		154.5
(0.3)
A 		100.8
(-3)
A 		199.2
(3)
P 		98
C 253.7
(3)
P 		87.6
(-3)
A 		139.9
(-1.1)
P 		233.1
(2.3)
P 		166
avr 197.5
(1.6) 		121.4
(-2.4) 		110.3
(-3) 		224
(3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 432
1 2 3 4 5 6 range
A 158.8
(-2.6)
P 		173.1
(-2.4)
P 		131
(-3)
P 		238.5
(-1.5)
P 		353.4
(0.1)
P 		562.5
(3)
P 		432
B 138.7
(-3)
P 		189.7
(-2.2)
P 		155.4
(-2.7)
P 		158.1
(-2.7)
P 		323.4
(-0.2)
P 		535
(3)
P 		396
C 208.3
(-2.2)
P 		158.3
(-3)
P 		207
(-2.2)
P 		200.7
(-2.3)
P 		336
(0)
P 		513.4
(3)
P 		355
avr 168.6
(-2.9) 		173.7
(-2.9) 		164.5
(-3) 		199.1
(-2.4) 		337.6
(-0.2) 		537
(3) 		373
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 61.1
(3)
P 		26.5
(-2.5)
A 		23.6
(-3)
A 		35.1
(-1.2)
P 		38
B 54.5
(3)
P 		38.2
(-0.1)
A 		23.3
(-3)
A 		42.4
(0.7)
P 		31
C 84
(3)
P 		25.2
(-3)
A 		48.8
(-0.6)
P 		39.3
(-1.6)
P 		59
avr 66.5
(3) 		30
(-3) 		31.9
(-2.7) 		38.9
(-1.5) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 171
1 2 3 4 5 6 range
A 29.3
(-3)
P 		61.6
(-1.2)
P 		28.5
(-3)
P 		60.5
(-1.2)
P 		106.7
(1.3)
P 		136.9
(3)
P 		108
B 48.2
(-2.6)
P 		63.1
(-2.1)
P 		37.7
(-3)
P 		41.9
(-2.8)
P 		131.4
(0.5)
P 		199.5
(3)
P 		162
C 77.2
(-1.3)
P 		48.3
(-2.6)
P 		52.7
(-2.4)
P 		40.4
(-3)
P 		108.7
(0.1)
P 		171.9
(3)
P 		132
avr 51.6
(-2.4) 		57.7
(-2.2) 		39.6
(-3) 		47.6
(-2.6) 		115.6
(0.5) 		169.4
(3) 		130
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181842_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1254
Sequence Type Exemplar sequence
Representative Public ID F56A3.2 NCBI
Target Description F56A3.2 /REP_DB=WormBase Gene ID /WP=CE11216 /TR=P91351 /GB=AAB37804.1 /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_059140(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059140 NCBI Caenorhabditis elegans F56A3.2 (F56A3.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000016720 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5182739:5186143:1 10/11 None
SNAP00000016710 ENSEMBL cdna:SNAP chromosome:CEL140:I:5184708:5186143:1 11/11 None
F56A3.2 ENSEMBL cdna:known chromosome:CEL140:I:5182739:5186220:1 gene:F56A3.2 11/11 A 
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:5182738-5186143(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F56A3.2
Entrez Gene 172157 Entrez gene
SwissProt P91351 EMBL-EBI
WormBase CE11216 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.3226.2.S1_AT similar to GIY-YIG domain containing 2 isoform 1 cfa
CANINE_2:CFAAFFX.26193.1.S1_S_AT similar to GIY-YIG domain containing 2 isoform 1 cfa
DROSOPHILA_2:1632047_AT dm
DROSGENOME1:149286_AT dm
HG-U133_PLUS_2:233334_X_AT GIY-YIG domain containing 2 hs
HG-U133B:233334_X_AT GIY-YIG domain containing 2 hs
HG-U133_PLUS_2:218317_X_AT GIY-YIG domain containing 2 hs
HG-U133A:218317_X_AT GIY-YIG domain containing 2 hs
HG-U133A_2:218317_X_AT GIY-YIG domain containing 2 hs
HU35KSUBD:RC_H97169_AT GIY-YIG domain containing 2 hs
U133_X3P:G13129003_3P_S_AT GIY-YIG domain containing 2 hs
U133_X3P:G13129003_3P_A_AT GIY-YIG domain containing 2 hs
HG-U95C:64454_AT GIY-YIG domain containing 2 hs
HG-U95E:80466_S_AT GIY-YIG domain containing 2 hs
MOUSE430_2:1454082_A_AT GIY-YIG domain containing 2 mm
MOE430A:1454082_A_AT GIY-YIG domain containing 2 mm
MOUSE430A_2:1454082_A_AT GIY-YIG domain containing 2 mm
MG-U74BV2:164625_AT GIY-YIG domain containing 2 (Giyd2), mRNA mm
MU19KSUBA:TC22483_AT GIY-YIG domain containing 2 (Giyd2), mRNA mm
MU19KSUBA:TC22483_G_AT GIY-YIG domain containing 2 (Giyd2), mRNA mm
MU19KSUBB:TC30529_AT GIY-YIG domain containing 2 (Giyd2), mRNA mm
MU19KSUBC:TC39140_AT GIY-YIG domain containing 2 (Giyd2), mRNA mm
RAE230B:1378215_AT similar to RIKEN cDNA 4833422P03 (predicted) rn
RAT230_2:1378215_AT similar to RIKEN cDNA 4833422P03 (predicted) rn
RAE230B:1379654_AT similar to RIKEN cDNA 4833422P03 (predicted) rn
RAT230_2:1379654_AT similar to RIKEN cDNA 4833422P03 (predicted) rn
YEAST_2:1772420_AT Subunit of a complex, with Slx4p, that hydrolyzes 5' branches from duplex DNA in response to stalled or converging replication forks; function overlaps with that of Sgs1p-Top3p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6281 DNA repair inferred from electronic annotation QuickGO AmiGO
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
4518 nuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB37804 Hypothetical protein F56A3.2 [Caenorhabditis elegans] ref|NP_491541.1| F56A3.2 [Caenorhabditis elegans] 0.0
blast AAB37804 Hypothetical protein F56A3.2 [Caenorhabditis elegans] ref|NP_491541.1| F56A3.2 [Caenorhabditis elegans] 1.0E-134
blast CAE56129 Hypothetical protein CBG23741 [Caenorhabditis briggsae] 1.0E-97
blast CAE56129 Hypothetical protein CBG23741 [Caenorhabditis briggsae] 3.0E-97
blast CAE56129 Hypothetical protein CBG23741 [Caenorhabditis briggsae] 4.0E-95
blast EAL42010 ENSANGP00000026512 [Anopheles gambiae str. PEST] ref|XP_565552.1| ENSANGP00000026512 [Anopheles gambiae str. PEST] 1.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR000305 EMBL-EBI Excinuclease ABC, C subunit, N-terminal 4.7E-16
Sequence
Target Sequence 
>C. ELEGANS:181842_AT
tcttcattttgagtgggcgtggcagaacccactggtctcaaaatctttgaaggaaaaaca
gttgagaaaagagagaaaagagactccgttcgcatttcaactccgtatcgcctgcgaact
gatgaacagttccgcattctgccgatttgcgctcacttttcgatggctgattacgacaga
agaacttccatttccaacaagctgtgtaccaccggatcacacaaaacttcgttttggaaa
agtgaagaaagagatgagcctggtgccatcgaaacgagaagattatttggaaatgggaga
atgtagaatttgtggaaaagatattgagaagctctggagtcttgtcagatgtatttccgc
aacttgtccatcacattttcactccaaatgcttgtcggaaaacggtttgaaactgaaaaa
cgaacatgtggaccacgtatacccgctgaaagccaattgcccaacatgtggacaatttta
tttatggggagatattatcagagagcaacgacggattatcaagatctccacaaaatgcgc
tgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTCATTTTGAGTGGGCGTGGCAG 341 615 729 Antisense
GGCAGAACCCACTGGTCTCAAAATC 433 535 749 Antisense
GAAAAGAGACTCCGTTCGCATTTCA 699 353 803 Antisense
TGATGAACAGTTCCGCATTCTGCCG 178 567 848 Antisense
ACTTTTCGATGGCTGATTACGACAG 22 103 883 Antisense
ACAGAAGAACTTCCATTTCCAACAA 210 109 904 Antisense
ATTTCCAACAAGCTGTGTACCACCG 515 15 918 Antisense
GTACCACCGGATCACACAAAACTTC 655 457 934 Antisense
GAGATGAGCCTGGTGCCATCGAAAC 199 397 979 Antisense
GAGTCTTGTCAGATGTATTTCCGCA 329 399 1065 Antisense
CAAGATCTCCACAAAATGCGCTGAA 78 185 1248 Antisense
Sequence Source Affymetrix Proprietary Database