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[191454_at] DNA excision repair protein

Description F10G8.7 /REP_DB=WormBase Gene ID /WP=CE09342 /TR=Q93456 /GB=CAB02283.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=DNA excision repair protein
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 86      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 93      6grp_total > 87      4grp_total > 13      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 525
1 2 3 4 range
A 401
(-0.1)
P 		208.4
(-2.5)
P 		171
(-3)
P 		641.2
(3)
P 		470
B 380.1
(-0.2)
P 		266.2
(-1.5)
P 		133.9
(-3)
P 		658.6
(3)
P 		525
C 422.3
(0.5)
P 		217.1
(-3)
P 		238.6
(-2.6)
P 		568.1
(3)
P 		351
avr 401.1
(-0) 		230.6
(-2.3) 		181.2
(-3) 		622.6
(3) 		441

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 537
1 2 3 4 5 6 range
A 180
(-3)
P 		268.5
(-1.5)
P 		311.4
(-0.8)
P 		301.7
(-1)
P 		348.5
(-0.2)
P 		539.8
(3)
P 		360
B 253.7
(-3)
P 		269.8
(-2.7)
P 		387
(-0.6)
P 		327.7
(-1.7)
P 		438.3
(0.3)
P 		585.7
(3)
P 		332
C 278.4
(-3)
P 		282.8
(-2.9)
P 		282.7
(-2.9)
P 		371.3
(-1.7)
P 		426.9
(-1)
P 		716.8
(3)
P 		438
avr 237.4
(-3) 		273.7
(-2.4) 		327
(-1.6) 		333.6
(-1.5) 		404.6
(-0.3) 		614.1
(3) 		377
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 146
(3)
P 		45.2
(-3)
P 		44.7
(-3)
P 		93.9
(-0.1)
P 		101
B 121.2
(2)
P 		65.7
(-1.1)
P 		31
(-3)
P 		140.3
(3)
P 		109
C 139.8
(3)
P 		62.4
(-3)
P 		83.2
(-1.4)
P 		95.8
(-0.4)
P 		77
avr 135.7
(3) 		57.8
(-2.7) 		53
(-3) 		110
(1.1) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 33.2
(-3)
P 		95.5
(0.8)
P 		67.8
(-0.9)
P 		76.5
(-0.4)
P 		105.2
(1.4)
P 		131.4
(3)
P 		98
B 88.3
(-2.9)
P 		89.8
(-2.9)
P 		94
(-2.7)
P 		86.8
(-3)
P 		178.1
(1.2)
P 		218.4
(3)
P 		132
C 103.2
(-1.9)
P 		86.3
(-2.5)
P 		71.9
(-3)
P 		74.7
(-2.9)
P 		138.1
(-0.6)
P 		240
(3)
P 		168
avr 74.9
(-3) 		90.5
(-2.2) 		77.9
(-2.9) 		79.3
(-2.8) 		140.5
(0.2) 		196.6
(3) 		122
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191454_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.772
Sequence Type Exemplar sequence
Representative Public ID F10G8.7 NCBI
Target Description F10G8.7 /REP_DB=WormBase Gene ID /WP=CE09342 /TR=Q93456 /GB=CAB02283.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=DNA excision repair protein
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_060251(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060251 NCBI Caenorhabditis elegans F10G8.7 (F10G8.7) mRNA, complete cds. 11/11 None
GENEFINDER00000036101 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10048270:10054290:1 11/11 None
F10G8.7 ENSEMBL cdna:known chromosome:CEL140:I:10038293:10054290:1 gene:F10G8.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000036095 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:10048281-10054221(+) 96.3 100.0
Public Domain and Genome References
Gene Title DNA excision repair protein
Ensembl F10G8.7
Entrez Gene 172867 Entrez gene
SwissProt Q93456 EMBL-EBI
WormBase CE30750 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.11593.1.S1_S_AT similar to DNA excision repair protein ERCC-1 cfa
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6281 DNA repair inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3684 damaged DNA binding inferred from electronic annotation QuickGO AmiGO
4519 endonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02283 Hypothetical protein F10G8.7 [Caenorhabditis elegans] ref|NP_492652.2| F10G8.7 [Caenorhabditis elegans] 1.0E-118
blast CAB02283 Hypothetical protein F10G8.7 [Caenorhabditis elegans] ref|NP_492652.2| F10G8.7 [Caenorhabditis elegans] 1.0E-114
blast CAE60218 Hypothetical protein CBG03787 [Caenorhabditis briggsae] 4.0E-98
blast CAE60218 Hypothetical protein CBG03787 [Caenorhabditis briggsae] 8.0E-98
blast XP_214833 PREDICTED: similar to Excision repair cross-complementing rodent repair deficiency, complementation group 1 [Rattus norvegicus] 1.0E-21
blast XP_214833 PREDICTED: similar to Excision repair cross-complementing rodent repair deficiency, complementation group 1 [Rattus norvegicus] 2.0E-21
Protein Domains
Database ID Description E-Value
Pfam IPR000445 EMBL-EBI Helix-hairpin-helix motif 9.9E-7
Pfam IPR004579 EMBL-EBI DNA repair protein rad10 6.7E-46
Pfam IPR000445 EMBL-EBI Helix-hairpin-helix motif 9.9E-7
Pfam IPR004579 EMBL-EBI DNA repair protein rad10 6.7E-46
Sequence
Target Sequence 
>C. ELEGANS:191454_AT
aagaaggcaacccggtgctcaagtacgtacgaaacgtgcgttacgagtggggagacatcg
gacctgatttcgaatgtggacctacgttcggtgtcgtctatctcagttttaagtaccaca
aacaacatccggaatatgtctatacaagaatcaatggaaatgctgagaatcggtatagaa
acaaggtgctacttggatattgcaacatggaagagccgagacatgttcttcgtgagctga
atatgatttgtttccgtgaagcatggacctttgtagttgtttacacggttgaggaggctg
ccgagtacattgagctcttcaagacaacacagaagaaggaaatcacgatcaaaaaaaagg
cgattgacgatggaggggacagttcgatgagtgatgaacgccgacgaaatcgagaagctg
ccattggatttctgaccgcggctagaagtatcacaaaaacagatgcggatcgtcttctat
tccatttcggcactcttcaagcaatttcaacagcttccgaaacatcaatttctgcatgtc
ctggtgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGAAGGCAACCCGGTGCTCAAGTA 521 151 287 Antisense
GTGGGGAGACATCGGACCTGATTTC 10 489 333 Antisense
CGAATGTGGACCTACGTTCGGTGTC 665 249 357 Antisense
GTCGTCTATCTCAGTTTTAAGTACC 458 473 379 Antisense
GAGCCGAGACATGTTCTTCGTGAGC 667 385 499 Antisense
GAGGCTGCCGAGTACATTGAGCTCT 710 403 580 Antisense
AAGCTGCCATTGGATTTCTGACCGC 557 149 701 Antisense
TCTGACCGCGGCTAGAAGTATCACA 314 607 717 Antisense
AACAGATGCGGATCGTCTTCTATTC 444 137 744 Antisense
ATTTCGGCACTCTTCAAGCAATTTC 299 17 770 Antisense
ATCAATTTCTGCATGTCCTGGTGTC 674 25 810 Antisense
Sequence Source Affymetrix Proprietary Database