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[183678_at] --- /// DNA repair protein

Description T12A2.7 /REP_DB=WormBase Gene ID /WP=CE01400 /TR=Q22417 /GB=AAC24446.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 76      4grp_highest_8_8 > 29      4grp_high_8_8 > 07      6grp_highest_nonorm > 73      6grp_total > 67      4grp_total > 0      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.
4 260
1 2 3 4 range
A 511.3
(-3)
P 		513.3
(-2.9)
P 		576.3
(-1)
P 		705.9
(3)
P 		195
B 540.1
(-3)
P 		550.4
(-2.7)
P 		555.2
(-2.5)
P 		720.2
(3)
P 		180
C 645.4
(0.3)
P 		500.8
(-3)
P 		626.7
(-0.1)
P 		760.4
(3)
P 		260
avr 565.6
(-1.7) 		521.5
(-3) 		586.1
(-1.1) 		728.8
(3) 		207

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 377
1 2 3 4 5 6 range
A 455.9
(-3)
P 		568.1
(-0.7)
P 		527.1
(-1.6)
P 		555.8
(-1)
P 		457.7
(-3)
P 		753.8
(3)
P 		298
B 491.1
(-1)
P 		376.5
(-3)
P 		448.8
(-1.7)
P 		489.6
(-1)
P 		571.7
(0.4)
P 		716.6
(3)
P 		340
C 536.7
(-1.6)
P 		506.8
(-2.4)
P 		608.1
(0.5)
P 		485.6
(-3)
P 		489.5
(-2.9)
P 		698.5
(3)
P 		213
avr 494.6
(-2.7) 		483.8
(-3) 		528
(-1.9) 		510.3
(-2.3) 		506.3
(-2.4) 		723
(3) 		239
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 186.2
(3)
P 		111.4
(-2.4)
P 		150.7
(0.4)
P 		103.3
(-3)
P 		83
B 172.2
(3)
P 		135.9
(-2)
P 		128.7
(-3)
P 		153.5
(0.4)
P 		44
C 213.7
(2.7)
P 		144
(-1.9)
P 		218.4
(3)
P 		128.2
(-3)
P 		90
avr 190.7
(3) 		130.4
(-2.8) 		165.9
(0.6) 		128.3
(-3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 84
(-3)
P 		202
(3)
P 		114.8
(-1.4)
P 		141
(-0.1)
P 		138.1
(-0.2)
P 		183.5
(2.1)
P 		118
B 170.9
(-0.7)
P 		125.3
(-2.4)
P 		109
(-3)
P 		129.7
(-2.2)
P 		232.3
(1.7)
P 		267.2
(3)
P 		158
C 198.9
(1.5)
P 		154.6
(-0.5)
P 		154.8
(-0.5)
P 		97.6
(-3)
P 		158.4
(-0.3)
P 		233.8
(3)
P 		136
avr 151.3
(-1.4) 		160.6
(-0.8) 		126.2
(-2.8) 		122.8
(-3) 		176.3
(0) 		228.2
(3) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183678_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7809
Sequence Type Exemplar sequence
Representative Public ID T12A2.7 NCBI
Target Description T12A2.7 /REP_DB=WormBase Gene ID /WP=CE01400 /TR=Q22417 /GB=AAC24446.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065959(11), NM_065960(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065959 NCBI Caenorhabditis elegans T12A2.7 (T12A2.7) mRNA, complete cds. 11/11 None
NM_065960 NCBI Caenorhabditis elegans T12A2.8 (T12A2.8) mRNA, complete cds. 11/11 None
SNAP00000026125 ENSEMBL cdna:SNAP chromosome:CEL140:III:6244769:6245758:-1 11/11 None
GENEFINDER00000026142 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6244769:6245758:-1 11/11 None
T12A2.7 ENSEMBL cdna:known chromosome:CEL140:III:6244635:6245767:-1 gene:T12A2.7 11/11 None
T12A2.8.1 ENSEMBL cdna:known chromosome:CEL140:III:6244792:6248173:-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:6244767-6245999(-) 100.0 100.0
Public Domain and Genome References
Gene Title
DNA repair protein
Ensembl T12A2.7
T12A2.8
Entrez Gene 175885 Entrez gene
188435 Entrez gene
SwissProt Q22417 EMBL-EBI
Q22418 EMBL-EBI
WormBase CE30396 Wormbase
CE01401 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258153_AT expressed protein at
CANINE:1588880_AT similar to Breast carcinoma amplified sequence 2 homolog (DNA amplified in mammary carcinoma-1 protein) cfa
CANINE_2:CFA.3943.1.A1_A_AT similar to Breast carcinoma amplified sequence 2 homolog (DNA amplified in mammary carcinoma-1 protein) cfa
CANINE_2:CFA.3943.1.A1_S_AT similar to Breast carcinoma amplified sequence 2 homolog (DNA amplified in mammary carcinoma-1 protein) cfa
DROSOPHILA_2:1626659_AT dm
DROSGENOME1:142708_AT dm
HG-U133_PLUS_2:203053_AT breast carcinoma amplified sequence 2 hs
HG-U133A:203053_AT breast carcinoma amplified sequence 2 hs
HG-FOCUS:203053_AT breast carcinoma amplified sequence 2 hs
HG-U133A_2:203053_AT breast carcinoma amplified sequence 2 hs
HU35KSUBB:RC_N94952_AT breast carcinoma amplified sequence 2 hs
U133_X3P:G5031652_3P_AT breast carcinoma amplified sequence 2 hs
HG-U95AV2:34286_AT breast carcinoma amplified sequence 2 hs
MG-U74AV2:97701_AT breast carcinoma amplified sequence 2 mm
MOUSE430A_2:1437262_X_AT breast carcinoma amplified sequence 2 mm
MOE430A:1437262_X_AT breast carcinoma amplified sequence 2 mm
MOUSE430_2:1437262_X_AT breast carcinoma amplified sequence 2 mm
MU11KSUBA:C80030_RC_AT breast carcinoma amplified sequence 2 mm
MU11KSUBB:W54482_AT breast carcinoma amplified sequence 2 mm
MU11KSUBB:W54482_G_AT breast carcinoma amplified sequence 2 mm
MG-U74AV2:95061_AT breast carcinoma amplified sequence 2 mm
MOE430A:1418234_S_AT breast carcinoma amplified sequence 2 mm
MOUSE430A_2:1418234_S_AT breast carcinoma amplified sequence 2 mm
MOUSE430_2:1418234_S_AT breast carcinoma amplified sequence 2 mm
MOE430A:1458219_AT breast carcinoma amplified sequence 2 mm
MOUSE430A_2:1458219_AT breast carcinoma amplified sequence 2 mm
MOUSE430_2:1458219_AT breast carcinoma amplified sequence 2 mm
MG-U74CV2:166792_AT Breast carcinoma amplified sequence 2, mRNA (cDNA clone MGC:46764 IMAGE:4984289) mm
MU19KSUBA:TC15447_AT Breast carcinoma amplified sequence 2, mRNA (cDNA clone MGC:46764 IMAGE:4984289) mm
RG-U34B:RC_AA851386_AT breast carcinoma amplified sequence 2 (predicted) rn
RAE230A:1371868_AT breast carcinoma amplified sequence 2 (predicted) rn
RAT230_2:1371868_AT breast carcinoma amplified sequence 2 (predicted) rn
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
blast AAC24446 Hypothetical protein T12A2.7 [Caenorhabditis elegans] ref|NP_498360.2| T12A2.7 [Caenorhabditis elegans] 1.0E-123
blast CAE70742 Hypothetical protein CBG17487 [Caenorhabditis briggsae] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR008409 EMBL-EBI Breast carcinoma amplified sequence 2 1.0E-126
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:183678_AT
acgaggcggatcgacagctcgcaatgaaacttgtggagcatgagtgcaagacattccgtc
caacgaaaaattacttgacacatcttccagtgcccgactatgatgcttttctcacaaagt
gtatgctcaaagaaatggatcgaatgaaaaagaaagaagagatgggaaagttggatatga
gtcgttgtgaacttcctgctccatctgctgttaagggagttgatagaaaactttgggcga
aggttcttcgcaatgcaaaagctcaaaatgagcatcttctgatgcgccagatcaatctgg
aacttatggatgaatacgctgctgagagttatcttcagagaaacaaagttatggaagatc
ttctaacacatgccgagaaagaactccgaaaaacgaaagaagccgtcatggaagttcatg
cgaatcgaaaaatggcacagttgaaggcaggagaaaaagtaaaacaattggaacagtcat
gggtcagcatggttaccaataattatagaatggaaatggaaaatcgacaaatcgacagtg
ataacagaaaacaaatcaaggcgctcaaattggatccgacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGAGGCGGATCGACAGCTCGCAAT 440 93 164 Antisense
GGAGCATGAGTGCAAGACATTCCGT 551 519 198 Antisense
TTACTTGACACATCTTCCAGTGCCC 541 683 234 Antisense
CAGTGCCCGACTATGATGCTTTTCT 126 209 251 Antisense
ATGAGTCGTTGTGAACTTCCTGCTC 411 45 340 Antisense
CCTGCTCCATCTGCTGTTAAGGGAG 352 267 358 Antisense
GCATCTTCTGATGCGCCAGATCAAT 168 309 435 Antisense
GAATACGCTGCTGAGAGTTATCTTC 54 327 475 Antisense
GGAAGATCTTCTAACACATGCCGAG 3 533 516 Antisense
AATTGGAACAGTCATGGGTCAGCAT 206 173 629 Antisense
AAGGCGCTCAAATTGGATCCGACAA 637 161 721 Antisense
Sequence Source Affymetrix Proprietary Database