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[190140_at] DNA-binding protein

Description M01A10.1 /REP_DB=WormBase Gene ID /WP=CE12226 /TR=P91393 /GB=AAB42272.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=DNA-binding protein
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 96      4grp_highest_8_8 > 28      4grp_high_8_8 > 15      6grp_highest_nonorm > 92      6grp_total > 96      4grp_total > 0      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.
4 108
1 2 3 4 range
A 133.2
(-1.9)
P 		114.2
(-3)
P 		155.8
(-0.7)
P 		222.2
(3)
P 		108
B 198.7
(3)
P 		143.1
(-1.8)
P 		194
(2.6)
P 		129.1
(-3)
P 		70
C 131.3
(-3)
P 		134.1
(-2.6)
P 		159.7
(1.3)
P 		170.5
(3)
P 		39
avr 154.4
(0.3) 		130.5
(-3) 		169.8
(2.4) 		173.9
(3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 404
1 2 3 4 5 6 range
A 146
(-2.9)
P 		138.4
(-3)
P 		155.3
(-2.7)
P 		244.4
(-1.4)
P 		357.7
(0.3)
P 		536.6
(3)
P 		398
B 138.8
(-2.9)
P 		132.5
(-3)
P 		189.5
(-1.8)
P 		234.6
(-0.8)
P 		258
(-0.3)
P 		414.2
(3)
P 		282
C 163.6
(-3)
P 		164.5
(-3)
P 		216.2
(-1.6)
P 		244
(-0.9)
P 		317.3
(1)
P 		392.8
(3)
P 		229
avr 149.5
(-2.9) 		145.1
(-3) 		187
(-2.2) 		241
(-1.1) 		311
(0.3) 		447.9
(3) 		303
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 48.5
(3)
P 		24.8
(-3)
P 		40.7
(1)
P 		32.5
(-1.1)
P 		24
B 63.3
(3)
P 		35.3
(-1.7)
P 		45
(-0.1)
P 		27.5
(-3)
P 		36
C 43.5
(0.3)
P 		38.6
(-0.8)
P 		55.7
(3)
P 		28.8
(-3)
P 		27
avr 51.8
(3) 		32.9
(-2.1) 		47.1
(1.7) 		29.6
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 128
1 2 3 4 5 6 range
A 26.9
(-3)
P 		49.2
(-1.7)
P 		33.8
(-2.6)
P 		62
(-1)
P 		107.9
(1.7)
P 		130.7
(3)
P 		104
B 48.3
(-2.8)
P 		44.1
(-3)
P 		46
(-2.9)
P 		62.2
(-2)
P 		104.8
(0.3)
P 		154.4
(3)
P 		110
C 60.6
(-2.2)
P 		50.2
(-2.9)
P 		55
(-2.6)
P 		49.1
(-3)
P 		102.7
(0.9)
P 		131.5
(3)
P 		82
avr 45.3
(-3) 		47.8
(-2.8) 		44.9
(-3) 		57.8
(-2.2) 		105.1
(0.8) 		138.9
(3) 		94
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190140_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.955
Sequence Type Exemplar sequence
Representative Public ID M01A10.1 NCBI
Target Description M01A10.1 /REP_DB=WormBase Gene ID /WP=CE12226 /TR=P91393 /GB=AAB42272.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=DNA-binding 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_059226(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059226 NCBI Caenorhabditis elegans M01A10.1 (M01A10.1) mRNA, complete cds. 11/11 None
GENEFINDER00000009749 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5557680:5566202:1 11/11 None
SNAP00000009745 ENSEMBL cdna:SNAP chromosome:CEL140:I:5563918:5566202:1 11/11 None
M01A10.1 ENSEMBL cdna:known chromosome:CEL140:I:5562754:5566242:1 gene:M01A10.1 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
chrI:5562753-5566202(+) 100.0 100.0
Public Domain and Genome References
Gene Title DNA-binding protein
Ensembl M01A10.1
Entrez Gene 187350 Entrez gene
SwissProt P91393 EMBL-EBI
WormBase CE12226 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB42272 Hypothetical protein M01A10.1 [Caenorhabditis elegans] ref|NP_491627.1| M01A10.1 [Caenorhabditis elegans] 0.0
blast AAP68903 Tomosyn (vertebrate synaptic protein) homolog protein 1, isoform c [Caenorhabditis elegans] ref|NP_740853.2| TOMOsyn synaptic protein family member (tomo-1) [Caenorhabditis elegans] 1.0E-166
blast AAP68902 Tomosyn (vertebrate synaptic protein) homolog protein 1, isoform a [Caenorhabditis elegans] ref|NP_491623.2| TOMOsyn synaptic protein family member (tomo-1) [Caenorhabditis elegans] 1.0E-166
blast AAK09071 Hypothetical protein C36E6.1b [Caenorhabditis elegans] ref|NP_510825.1| C36E6.1b [Caenorhabditis elegans] 1.0E-160
blast AAK09071 Hypothetical protein C36E6.1b [Caenorhabditis elegans] ref|NP_510825.1| C36E6.1b [Caenorhabditis elegans] 1.0E-159
blast CAE69679 Hypothetical protein CBG15931 [Caenorhabditis briggsae] 9.0E-92
Protein Domains
Database ID Description E-Value
Pfam IPR004087 EMBL-EBI KH 1.5E-11
Pfam IPR004087 EMBL-EBI KH 6.0E-10
Pfam IPR004087 EMBL-EBI KH 2.4E-11
Pfam IPR004087 EMBL-EBI KH 2.4E-11
Pfam IPR004087 EMBL-EBI KH 1.5E-11
Pfam IPR004087 EMBL-EBI KH 6.0E-10
Pfam IPR004087 EMBL-EBI KH 2.4E-11
Pfam IPR004087 EMBL-EBI KH 2.4E-11
Pfam IPR004087 EMBL-EBI KH 1.5E-11
Pfam IPR004087 EMBL-EBI KH 6.0E-10
Pfam IPR004087 EMBL-EBI KH 2.4E-11
Pfam IPR004087 EMBL-EBI KH 2.4E-11
Sequence
Target Sequence 
>C. ELEGANS:190140_AT
tccgtatatcaacactcgagctgctcagccactgcaatttagtcatcaaaatcccacagc
aattgactcatggcgtgcgcaaccattcaccacacaacatcagaattcattatcacttcc
acagcctcaagcacatcaattcccaaatcttatggcttattcagctcgactcggttatca
atctcatcctccacaacataattcaaatgtatacgcttctacaatacaacaatcgttgaa
ttcgccatcagcttcagttgttgcatcgaattcaaggttcctagagtcattatcatcagt
tgaaggagcatcagaaccaggaccgtcattatacgcgagatatgttacagaagttgaaca
atctgaaaagcagcttgctcttctagcagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCGTATATCAACACTCGAGCTGCT 608 593 1470 Antisense
GCTGCTCAGCCACTGCAATTTAGTC 10 295 1489 Antisense
AATTGACTCATGGCGTGCGCAACCA 241 177 1530 Antisense
AGAATTCATTATCACTTCCACAGCC 614 75 1571 Antisense
TTCCACAGCCTCAAGCACATCAATT 581 699 1586 Antisense
TTATGGCTTATTCAGCTCGACTCGG 223 679 1619 Antisense
CGACTCGGTTATCAATCTCATCCTC 218 251 1636 Antisense
TCTCATCCTCCACAACATAATTCAA 451 613 1651 Antisense
TTCGCCATCAGCTTCAGTTGTTGCA 145 695 1710 Antisense
GAGCATCAGAACCAGGACCGTCATT 308 389 1775 Antisense
AAAAGCAGCTTGCTCTTCTAGCAGC 129 133 1835 Antisense
Sequence Source Affymetrix Proprietary Database