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[190125_s_at] DNA-binding protein

Description C41D11.7 /REP_DB=WormBase Gene ID /WP=CE08664 /TR=O01976 /GB=AAC48142.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=DNA-binding protein
Cluster 6grp_high1_10_10 > 57      6grp_total > 57      4grp_total > 22      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 33.6
(-0.5)
A 		18.8
(-2.4)
A 		14
(-3)
A 		61.3
(3)
A 		47
B 27.6
(3)
A 		22.7
(1.8)
A 		16.4
(0.2)
A 		3.8
(-3)
A 		24
C 51.1
(2.3)
P 		15.3
(-2.2)
A 		9.3
(-3)
A 		56.9
(3)
P 		48
avr 37.4
(2.3) 		18.9
(-1.8) 		13.2
(-3) 		40.7
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 38.4
(-2.8)
A 		56.3
(-1.9)
A 		71.5
(-1.2)
A 		52.5
(-2.1)
P 		34.8
(-3)
M 		155.5
(3)
P 		121
B 104.8
(1.4)
A 		60.3
(-1.5)
P 		73.2
(-0.7)
M 		38.4
(-3)
A 		55.8
(-1.8)
P 		128.9
(3)
P 		91
C 96.9
(3)
P 		57.2
(-3)
P 		75.2
(-0.3)
P 		60.1
(-2.6)
A 		70.4
(-1)
P 		92.3
(2.3)
P 		40
avr 80
(-0.6) 		57.9
(-2.4) 		73.3
(-1.2) 		50.3
(-3) 		53.7
(-2.7) 		125.6
(3) 		75
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 12.2
(3)
A 		4.1
(-2.7)
A 		3.7
(-3)
A 		9
(0.7)
A 		9
B 8.8
(3)
A 		5.6
(0.6)
A 		3.8
(-0.8)
A 		0.8
(-3)
A 		8
C 16.9
(3)
P 		4.4
(-2.5)
A 		3.2
(-3)
A 		9.6
(-0.2)
P 		14
avr 12.6
(3) 		4.7
(-2.3) 		3.6
(-3) 		6.5
(-1.1) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 7.1
(-3)
A 		20
(-0.5)
A 		15.6
(-1.3)
A 		13.3
(-1.8)
P 		10.5
(-2.3)
M 		37.9
(3)
P 		31
B 36.5
(1.2)
A 		20.1
(-1.4)
P 		17.8
(-1.8)
M 		10.2
(-3)
A 		22.7
(-1)
P 		48.1
(3)
P 		38
C 35.9
(3)
P 		17.5
(-1.6)
P 		19.1
(-1.2)
P 		12.1
(-3)
A 		22.8
(-0.3)
P 		30.9
(1.7)
P 		24
avr 26.5
(0.2) 		19.2
(-1.4) 		17.5
(-1.8) 		11.9
(-3) 		18.7
(-1.5) 		39
(3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190125_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2179
Sequence Type Exemplar sequence
Representative Public ID C41D11.7 NCBI
Target Description C41D11.7 /REP_DB=WormBase Gene ID /WP=CE08664 /TR=O01976 /GB=AAC48142.1 /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_058973(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058973 NCBI Caenorhabditis elegans C41D11.7 (C41D11.7) mRNA, complete cds. 11/11 None
SNAP00000002071 ENSEMBL cdna:SNAP chromosome:CEL140:I:4451506:4456806:-1 11/11 None
GENEFINDER00000002079 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4451506:4456806:-1 11/11 None
C41D11.7 ENSEMBL cdna:known chromosome:CEL140:I:4451200:4456806:-1 gene:C41D11.7 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:4451505-4456806(-) 100.0 100.0
Public Domain and Genome References
Gene Title DNA-binding protein
Ensembl C41D11.7
Entrez Gene 172047 Entrez gene
SwissProt O01976 EMBL-EBI
WormBase CE36108 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249677_AT DNA-binding protein, putative at
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC48142 Hypothetical protein C41D11.7 [Caenorhabditis elegans] ref|NP_491374.2| C41D11.7 [Caenorhabditis elegans] 0.0
blast AAC48142 Hypothetical protein C41D11.7 [Caenorhabditis elegans] ref|NP_491374.2| C41D11.7 [Caenorhabditis elegans] 1.0E-154
blast CAE60397 Hypothetical protein CBG03999 [Caenorhabditis briggsae] 1.0E-126
blast CAE60397 Hypothetical protein CBG03999 [Caenorhabditis briggsae] 1.0E-121
blast CAE70248 Hypothetical protein CBG16740 [Caenorhabditis briggsae] 1.0E-120
blast CAE70248 Hypothetical protein CBG16740 [Caenorhabditis briggsae] 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 9.2E-9
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 9.2E-9
Sequence
Target Sequence 
>C. ELEGANS:190125_S_AT
gaagaatttggagctgagactggatatactgatttcgttcaaacaacaattggaacagtg
gacagtgttcagggaaaagaatatgaagttgtcatttttacaatggttcgatccaatcca
agaaaaacgatgggatttgtgtctgagcttcggcggcttaatgtggttataacgagagct
aaaagacatttcatgttcattggaaatggctaccttcttgccgaaagtaaaaaggatgag
attcggaaattatacgattgcttcaaaaacgcgaaacgccgcttccatccgaataatgca
tttggagaagatggaaatgtcactgattatgtttcaaataactttggacaggatctcgaa
tcatttatgaactattcaaatgatgaagaaatgatcaattggtgtaaacgatttaatgaa
aatggaccggattatcgagcaaaaaaggcgttggcttgggagaaacgagaagaaacgaga
ttgatgaaaacaatttcaaaagtaaagtatgagtacaagagaggatcaacagagcagcta
gct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGAATTTGGAGCTGAGACTGGAT 271 341 1336 Antisense
AGACTGGATATACTGATTTCGTTCA 341 71 1352 Antisense
TACAATGGTTCGATCCAATCCAAGA 198 637 1434 Antisense
TGTCTGAGCTTCGGCGGCTTAATGT 48 557 1475 Antisense
GCTTCGGCGGCTTAATGTGGTTATA 143 305 1482 Antisense
TGGCTACCTTCTTGCCGAAAGTAAA 509 543 1542 Antisense
CAAAAACGCGAAACGCCGCTTCCAT 478 189 1599 Antisense
GCCGCTTCCATCCGAATAATGCATT 340 285 1613 Antisense
ATAACTTTGGACAGGATCTCGAATC 597 21 1673 Antisense
GAAAATGGACCGGATTATCGAGCAA 702 353 1753 Antisense
GAGAGGATCAACAGAGCAGCTAGCT 121 395 1854 Antisense
Sequence Source Affymetrix Proprietary Database