[Home] | [Total List]

[189905_s_at] --- /// --- /// --- /// DNA repair protein /// ---

Description Y46B2A.2 /REP_DB=WormBase Gene ID /WP=CE21950 /TR=Q9N4X4 /GB=AAF60594.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=DNA repair protein
Cluster 6grp_total > 47      4grp_total > 47      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 129
1 2 3 4 range
A 181.4
(3)
P 		79.6
(-2.7)
A 		83.8
(-2.5)
A 		74.8
(-3)
A 		107
B 177.7
(3)
P 		63
(-3)
A 		95.1
(-1.3)
P 		87.4
(-1.7)
A 		115
C 154.5
(3)
P 		52.1
(-3)
A 		77.7
(-1.5)
A 		74.6
(-1.7)
A 		102
avr 171.2
(3) 		64.9
(-3) 		85.5
(-1.8) 		78.9
(-2.2) 		106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 99
1 2 3 4 5 6 range
A 101.4
(3)
A 		73.6
(0.1)
P 		44.4
(-3)
A 		73.4
(0.1)
A 		59.8
(-1.4)
A 		73.5
(0.1)
P 		57
B 54.7
(-2.2)
A 		64.3
(-1.1)
A 		47.7
(-3)
A 		62.8
(-1.2)
A 		47.6
(-3)
M 		99.6
(3)
P 		52
C 106.4
(2.9)
M 		84.2
(1.5)
A 		72.6
(0.8)
A 		108.8
(3)
A 		10.3
(-3)
A 		65.1
(0.3)
P 		99
avr 87.5
(3) 		74
(1.3) 		54.9
(-1) 		81.7
(2.3) 		39.2
(-3) 		79.4
(2) 		48
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 66
(3)
P 		17.3
(-2.3)
A 		21.9
(-1.8)
A 		11
(-3)
A 		55
B 56.7
(3)
P 		15.6
(-3)
A 		22
(-2.1)
P 		18.6
(-2.6)
A 		41
C 51.1
(3)
P 		15
(-2.6)
A 		27.1
(-0.7)
A 		12.6
(-3)
A 		39
avr 57.9
(3) 		16
(-2.7) 		23.7
(-1.7) 		14.1
(-3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 18.7
(0.3)
A 		26.2
(3)
P 		9.7
(-3)
A 		18.6
(0.2)
A 		18
(0)
A 		17.9
(-0)
P 		17
B 19
(-1.3)
A 		21.4
(-0.7)
A 		11.6
(-3)
A 		16.6
(-1.8)
A 		19.4
(-1.2)
M 		37.1
(3)
P 		26
C 39.4
(3)
M 		25.7
(0.7)
A 		18.5
(-0.5)
A 		21.9
(0.1)
A 		3.3
(-3)
A 		21.8
(0.1)
P 		36
avr 25.7
(3) 		24.4
(2.4) 		13.3
(-3) 		19
(-0.2) 		13.6
(-2.9) 		25.6
(3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189905_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4307
Sequence Type Exemplar sequence
Representative Public ID Y46B2A.2 NCBI
Target Description Y46B2A.2 /REP_DB=WormBase Gene ID /WP=CE21950 /TR=Q9N4X4 /GB=AAF60594.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061748(11), NM_061901(11), NM_061433(11), NM_061742(11), NM_061740(11), NM_061741(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061748 NCBI Caenorhabditis elegans F59H6.5 (F59H6.5) mRNA, complete cds. 11/11 A 
NM_061901 NCBI Caenorhabditis elegans F33H12.6 (F33H12.6) mRNA, complete cds. 11/11 None
NM_061433 NCBI Caenorhabditis elegans Y46B2A.2 (Y46B2A.2) mRNA, complete cds. 11/11 None
NM_061742 NCBI Caenorhabditis elegans Y16E11A.2 (Y16E11A.2) mRNA, complete cds. 11/11 A 
NM_061740 NCBI Caenorhabditis elegans ZK250.9 (ZK250.9) mRNA, complete cds. 11/11 A 
NM_061741 NCBI Caenorhabditis elegans ZK250.10 (ZK250.10) mRNA, complete cds. 11/11 None
SNAP00000001660 ENSEMBL cdna:SNAP chromosome:CEL140:II:2594053:2598926:-1 11/11 None
GENEFINDER00000001667 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2594053:2598926:-1 11/11 None
SNAP00000002418 ENSEMBL cdna:SNAP chromosome:CEL140:II:2003378:2008251:1 11/11 None
GENEFINDER00000002441 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2003378:2008251:1 11/11 None
SNAP00000013033 ENSEMBL cdna:SNAP chromosome:CEL140:II:1963064:1967937:-1 11/11 None
GENEFINDER00000013045 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:1963064:1967937:-1 11/11 None
SNAP00000020798 ENSEMBL cdna:SNAP chromosome:CEL140:II:1979246:1984119:-1 11/11 None
GENEFINDER00000020805 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:1979246:1984119:-1 11/11 None
SNAP00000022585 ENSEMBL cdna:SNAP chromosome:CEL140:II:851662:858176:-1 11/11 None
GENEFINDER00000022591 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:851662:856216:-1 11/11 None
Y46B2A.2 ENSEMBL cdna:known chromosome:CEL140:II:851662:856216:-1 gene:Y46B2A.2 11/11 None
ZK250.9 ENSEMBL cdna:known chromosome:CEL140:II:1963064:1967937:-1 gene:ZK250.9 11/11 A 
ZK250.10 ENSEMBL cdna:known chromosome:CEL140:II:1970835:1974719:-1 gene:ZK250.10 11/11 None
Y16E11A.2 ENSEMBL cdna:known chromosome:CEL140:II:1979246:1984119:-1 gene:Y16E11A.2 11/11 A 
F59H6.5 ENSEMBL cdna:known chromosome:CEL140:II:2003378:2008251:1 gene:F59H6.5 11/11 A 
F33H12.6 ENSEMBL cdna:known chromosome:CEL140:II:2594053:2598904:-1 gene:F33H12.6 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
Public Domain and Genome References
Gene Title


DNA repair protein

Ensembl Y46B2A.2
ZK250.9
ZK250.10
Y16E11A.2
F59H6.5
F33H12.6
Entrez Gene 185240 Entrez gene
186644 Entrez gene
189441 Entrez gene
189941 Entrez gene
191264 Entrez gene
SwissProt O44843 EMBL-EBI
Q9N5Q7 EMBL-EBI
O17306 EMBL-EBI
Q9N4X4 EMBL-EBI
WormBase CE17043 Wormbase
CE20911 Wormbase
CE15283 Wormbase
CE21950 Wormbase
CE15283 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39854 Hypothetical protein F59H6.5 [Caenorhabditis elegans] ref|NP_494149.1| F59H6.5 [Caenorhabditis elegans] 0.0
blast AAF60434 Hypothetical protein Y16E11A.2 [Caenorhabditis elegans] gb|AAB71069.1| Hypothetical protein ZK250.9 [Caenorhabditis elegans] ref|NP_494141.1| ZK250.9 [Caenorhabditis elegans] ref|NP_494143.1| Y16E11A.2 [Caenorhabditis elegans] 0.0
blast AAB95006 Hypothetical protein F33H12.6 [Caenorhabditis elegans] ref|NP_494302.1| F33H12.6 [Caenorhabditis elegans] 0.0
blast AAF60594 Hypothetical protein Y46B2A.2 [Caenorhabditis elegans] ref|NP_493834.1| Y46B2A.2 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 2.29999995231628
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 2.79999995231628
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:189905_S_AT
tgtgacaacgtcatccttacacctaagaacgtcgacgttgctcaactgaatgacgatgtt
cacaatcgaatggttggcgaggaaagaatctatctgtcacgagatgaagtgatcgtggaa
catcaagcggatactatgcactatcccaccgagtttctcaacaagatgtccccatcatct
cttcctccccatattctcaagctgaagaaaggctcagtgatcattctgctcaggaatctc
gatgtttccgctggcctttgcaatggttcccgtttcattgtcgaaacattggccagtcac
tcacttggatgtcgctttgcaactggcgagaggaaaggacatttcacaatcattccaaga
atcgattgctatgatgataagaacatctctttccaactcaggcgcacacagttcccagtt
cgcttatcatttgcattatcgatcaacaaggcccaaggacaatccttttctaaaatcggt
ctctggattcccaccgatgttttcactcatgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGACAACGTCATCCTTACACCTA 498 555 3496 Antisense
TATCCCACCGAGTTTCTCAACAAGA 631 655 3637 Antisense
AACAAGATGTCCCCATCATCTCTTC 373 135 3655 Antisense
CCTCCCCATATTCTCAAGCTGAAGA 7 267 3679 Antisense
GGCTCAGTGATCATTCTGCTCAGGA 471 539 3706 Antisense
CAGGAATCTCGATGTTTCCGCTGGC 381 209 3726 Antisense
TTGTCGAAACATTGGCCAGTCACTC 35 709 3773 Antisense
GCCAGTCACTCACTTGGATGTCGCT 159 281 3787 Antisense
TTCCCAGTTCGCTTATCATTTGCAT 490 697 3907 Antisense
TAAAATCGGTCTCTGGATTCCCACC 43 639 3966 Antisense
TTCCCACCGATGTTTTCACTCATGG 586 697 3983 Antisense
Sequence Source Affymetrix Proprietary Database