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[189733_at] DNA repair protein

Description T12A2.8 /REP_DB=WormBase Gene ID /WP=CE01401 /TR=Q22418 /GB=AAC24447.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=DNA repair protein
Cluster 6grp_highest_10_10 > 59      6grp_high1_10_10 > 95      4grp_highest_8_8 > 37      4grp_high_8_8 > 01      6grp_highest_nonorm > 85      6grp_total > 85      4grp_total > 07      6grp_highest_sub > In      6grp_high1_sub > In      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 274
1 2 3 4 range
A 721.4
(-1.4)
P 		668.2
(-3)
P 		724.5
(-1.3)
P 		865.2
(3)
P 		197
B 750.7
(2.5)
P 		590.9
(-3)
P 		649.9
(-1)
P 		763.9
(3)
P 		173
C 772.4
(3)
P 		660.2
(-3)
P 		695.6
(-1.1)
P 		724.4
(0.4)
P 		112
avr 748.2
(1.5) 		639.8
(-3) 		690
(-0.9) 		784.5
(3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 506
1 2 3 4 5 6 range
A 467.8
(-3)
P 		821.3
(2.1)
P 		539.5
(-2)
P 		834.1
(2.3)
P 		831.9
(2.3)
P 		882.2
(3)
P 		414
B 426.8
(-3)
P 		615
(-0.5)
P 		739.6
(1.1)
P 		608.3
(-0.6)
P 		721.4
(0.9)
P 		884.9
(3)
P 		458
C 677.6
(-0.3)
P 		467.9
(-3)
P 		882.3
(2.3)
P 		856.5
(2)
P 		811
(1.4)
P 		933.2
(3)
P 		465
avr 524.1
(-3) 		634.7
(-1.2) 		720.5
(0.1) 		766.3
(0.9) 		788.1
(1.2) 		900.1
(3) 		376
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 262.7
(3)
P 		145
(-2.2)
P 		189.4
(-0.2)
P 		126.6
(-3)
P 		136
B 239.4
(3)
P 		145.9
(-3)
P 		150.6
(-2.7)
P 		162.8
(-1.9)
P 		94
C 255.7
(3)
P 		189.8
(0)
P 		242.4
(2.4)
P 		122.1
(-3)
P 		134
avr 252.6
(3) 		160.2
(-1.8) 		194.1
(-0) 		137.2
(-3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 244
1 2 3 4 5 6 range
A 86.2
(-3)
P 		292.1
(3)
P 		117.5
(-2.1)
P 		211.5
(0.7)
P 		251
(1.8)
P 		214.8
(0.7)
P 		206
B 148.5
(-3)
P 		204.7
(-1.1)
P 		179.6
(-2)
P 		161.1
(-2.6)
P 		293.1
(1.8)
P 		330
(3)
P 		182
C 251.2
(0.8)
P 		142.8
(-3)
P 		224.6
(-0.1)
P 		172.2
(-2)
P 		262.4
(1.2)
P 		312.4
(3)
P 		170
avr 162
(-3) 		213.2
(-0.5) 		173.9
(-2.4) 		181.6
(-2) 		268.8
(2.2) 		285.7
(3) 		124
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189733_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6003
Sequence Type Exemplar sequence
Representative Public ID T12A2.8 NCBI
Target Description T12A2.8 /REP_DB=WormBase Gene ID /WP=CE01401 /TR=Q22418 /GB=AAC24447.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=DNA 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_065960(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065960 NCBI Caenorhabditis elegans T12A2.8 (T12A2.8) mRNA, complete cds. 11/11 None
SNAP00000026126 ENSEMBL cdna:SNAP chromosome:CEL140:III:6246217:6248086:-1 11/11 None
GENEFINDER00000026147 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6246217:6248086:-1 11/11 None
T12A2.8.1 ENSEMBL cdna:known chromosome:CEL140:III:6244792:6248173:-1 gene:T12A2.8 11/11 None
T12A2.8.2 ENSEMBL cdna:known chromosome:CEL140:III:6245874:6248097:-1 gene:T12A2.8 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
chrIII:6246215-6248085(-) 100.0 100.0
Public Domain and Genome References
Gene Title DNA repair protein
Ensembl T12A2.8
Entrez Gene 175885 Entrez gene
SwissProt Q22418 EMBL-EBI
WormBase CE01401 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6281 DNA repair inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4518 nuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC24447 Hypothetical protein T12A2.8 [Caenorhabditis elegans] ref|NP_498361.1| T12A2.8 [Caenorhabditis elegans] 0.0
blast CAE70741 Hypothetical protein CBG17486 [Caenorhabditis briggsae] 1.0E-172
Protein Domains
Database ID Description E-Value
Pfam IPR006086 EMBL-EBI XPG I domain 6.1E-46
Pfam IPR006085 EMBL-EBI XPG N-terminal 5.3E-18
Sequence
Target Sequence 
>C. ELEGANS:189733_AT
gatcgttttgcgtcatacgtacgcgaagaaattccagctcgttcagaagacacccaacgg
aagcttcgtttacgacgaaaaaagtataattttcctgttggatttcctaattgtgatgcc
gtacacaatgcaattacgatgtatcttcggccacccgtatcaagtgaaattccgaaaatt
attccaagagctgcaaattttcaacaagtcgcagagattatgatgaaggaatgtggttgg
ccagcaacaagaacacagaaagaattagctcttagtattcggagaaaagtgcatctgacg
acaactgtggctcaaactcgaattcctgatttctttgctgccaccaaatcgaagaatttc
acaccgatcgtagagccatgtgaatcacttgaagactacatttctgcaaataatacttgg
atgagaaaacgaaaacgatcagaatctccacaaattttacaacaccatgcgaaacgacag
gttccagacagaaagcgatctgtaaaaatacgtgccttcaagccatatcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCGTTTTGCGTCATACGTACGCG 309 415 754 Antisense
ATTCCAGCTCGTTCAGAAGACACCC 548 5 784 Antisense
GAAGACACCCAACGGAAGCTTCGTT 289 339 799 Antisense
GCAATTACGATGTATCTTCGGCCAC 340 323 883 Antisense
TCTTCGGCCACCCGTATCAAGTGAA 607 617 897 Antisense
GCATCTGACGACAACTGTGGCTCAA 511 309 1044 Antisense
GTGGCTCAAACTCGAATTCCTGATT 203 491 1060 Antisense
ATTTCTTTGCTGCCACCAAATCGAA 35 17 1082 Antisense
ATTTCACACCGATCGTAGAGCCATG 248 15 1109 Antisense
CCATGCGAAACGACAGGTTCCAGAC 562 271 1218 Antisense
AAATACGTGCCTTCAAGCCATATCC 519 115 1259 Antisense
Sequence Source Affymetrix Proprietary Database