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[191938_at] DNA repair protein RAD16 like

Description C47D12.8 /REP_DB=WormBase Gene ID /WP=CE24855 /TR=Q18671 /GB=CAA93766.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=DNA repair protein RAD16 like
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 88      4grp_high_8_8 > 08      6grp_highest_nonorm > 92      6grp_total > 88      4grp_total > 15      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.
4 208
1 2 3 4 range
A 377.2
(3)
P 		244.9
(-3)
P 		266.9
(-2)
P 		355.7
(2)
A 		132
B 270.4
(3)
P 		230.3
(-0.3)
A 		197.2
(-3)
A 		264
(2.5)
P 		73
C 277.9
(2.7)
P 		169.3
(-3)
A 		247.7
(1.1)
P 		284.5
(3)
P 		115
avr 308.5
(3) 		214.8
(-3) 		237.3
(-1.6) 		301.4
(2.5) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 416
1 2 3 4 5 6 range
A 325.9
(-2.1)
P 		347.8
(-1.5)
P 		296
(-3)
P 		296.1
(-3)
P 		446.4
(1.3)
P 		506.5
(3)
P 		211
B 292.3
(-2.4)
P 		305.3
(-2.2)
P 		252
(-3)
P 		306.2
(-2.2)
P 		383.9
(-1.1)
P 		667.6
(3)
P 		416
C 306.2
(-3)
P 		307.5
(-3)
P 		327.1
(-2.5)
P 		337.2
(-2.2)
P 		434.3
(0.3)
P 		540.1
(3)
P 		234
avr 308.1
(-2.6) 		320.2
(-2.4) 		291.7
(-3) 		313.2
(-2.5) 		421.5
(-0.2) 		571.4
(3) 		280
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 137.3
(3)
P 		53.2
(-2.9)
P 		69.8
(-1.8)
P 		52.1
(-3)
A 		85
B 86.2
(3)
P 		56.9
(-1.3)
A 		45.7
(-3)
A 		56.3
(-1.4)
P 		41
C 92
(3)
P 		48.7
(-2.9)
A 		86.3
(2.2)
P 		48
(-3)
P 		44
avr 105.2
(3) 		52.9
(-2.9) 		67.3
(-1.3) 		52.1
(-3) 		53

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 60.1
(-3)
P 		123.7
(2.1)
P 		64.5
(-2.6)
P 		75.1
(-1.8)
P 		134.7
(3)
P 		123.3
(2.1)
P 		75
B 101.7
(-1.7)
P 		101.6
(-1.7)
P 		61.2
(-3)
P 		81.1
(-2.4)
P 		156
(0)
P 		248.9
(3)
P 		188
C 113.5
(-0.6)
P 		93.8
(-1.6)
P 		83.2
(-2.2)
P 		67.8
(-3)
P 		140.5
(0.9)
P 		180.8
(3)
P 		113
avr 91.8
(-1.8) 		106.4
(-1.1) 		69.6
(-3) 		74.7
(-2.7) 		143.7
(0.9) 		184.3
(3) 		115
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191938_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3226
Sequence Type Exemplar sequence
Representative Public ID C47D12.8 NCBI
Target Description C47D12.8 /REP_DB=WormBase Gene ID /WP=CE24855 /TR=Q18671 /GB=CAA93766.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=DNA repair protein RAD16 like
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_064097(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064097 NCBI Caenorhabditis elegans C47D12.8 (C47D12.8) mRNA, complete cds. 11/11 None
GENEFINDER00000019848 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11701510:11705187:1 11/11 None
C47D12.8 ENSEMBL cdna:known chromosome:CEL140:II:11696076:11705240:1 gene:C47D12.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019842 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11696072-11705184(+) 100.0 100.0
Public Domain and Genome References
Gene Title DNA repair protein RAD16 like
Ensembl C47D12.8
Entrez Gene 174793 Entrez gene
SwissProt Q18671 EMBL-EBI
WormBase CE24855 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6259 DNA metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4518 nuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93766 Hypothetical protein C47D12.8 [Caenorhabditis elegans] emb|CAB70217.1| Hypothetical protein C47D12.8 [Caenorhabditis elegans] ref|NP_496498.1| C47D12.8 [Caenorhabditis elegans] 0.0
blast CAE59709 Hypothetical protein CBG03141 [Caenorhabditis briggsae] 0.0
blast CAA93766 Hypothetical protein C47D12.8 [Caenorhabditis elegans] emb|CAB70217.1| Hypothetical protein C47D12.8 [Caenorhabditis elegans] ref|NP_496498.1| C47D12.8 [Caenorhabditis elegans] 1.0E-155
blast CAE59709 Hypothetical protein CBG03141 [Caenorhabditis briggsae] 1.0E-130
blast Q9QYM7 DNA repair endonuclease XPF (DNA excision repair protein ERCC-4) 4.0E-96
blast Q9QYM7 DNA repair endonuclease XPF (DNA excision repair protein ERCC-4) 4.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR006166 EMBL-EBI ERCC4 domain 2.2E-25
Pfam IPR006166 EMBL-EBI ERCC4 domain 2.2E-25
Sequence
Target Sequence 
>C. ELEGANS:191938_AT
gatgctcgaacactacgattgcacagtccttttgatcgaatcgaatcggaaattcgagac
aaaaatcgtgaacggcggaccattccagggagagctcagcaggcactgtagagagattcg
atcaattttttgctctttaatttgggcaaatcccaaaatgagatgtgtttggacgatttc
tccgacaaattctgcagagtttttctctgagcttaagctaagcgctccagaaccagacgt
cgatcgagccatatccctgaaagctgatcaagttgaatgctcaagccaagagctcacaga
ttctgaagcatccacctccacaaaggcgaaaaagggaaagaaatggaaaccgaatcccac
tgtcatccggactttgactcaaatttttggaattaaagcctcagaagctcataatttgct
agctaactcttcgatcaaaaccctcgctgatctcttctcattgaacatcaccgcatctca
tctctccgatttcattccatccacctctgccgatttcatcaaagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCTCGAACACTACGATTGCACA 48 415 2265 Antisense
GATTGCACAGTCCTTTTGATCGAAT 110 435 2281 Antisense
GGACCATTCCAGGGAGAGCTCAGCA 531 521 2341 Antisense
GGACGATTTCTCCGACAAATTCTGC 154 525 2435 Antisense
GCTTAAGCTAAGCGCTCCAGAACCA 88 297 2475 Antisense
CCAGAACCAGACGTCGATCGAGCCA 483 271 2491 Antisense
GATCGAGCCATATCCCTGAAAGCTG 604 417 2506 Antisense
AATGGAAACCGAATCCCACTGTCAT 198 163 2606 Antisense
CCACTGTCATCCGGACTTTGACTCA 540 273 2621 Antisense
AGCTAACTCTTCGATCAAAACCCTC 259 79 2685 Antisense
CACCTCTGCCGATTTCATCAAAGAT 633 201 2766 Antisense
Sequence Source Affymetrix Proprietary Database