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[192707_at] Helix-loop-helix DNA-binding domain

Description C44C10.8 /REP_DB=WormBase Gene ID /WP=CE05415 /TR=Q18612 /GB=CAA93634.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Helix-loop-helix DNA-binding domain
Cluster 6grp_total > 76      4grp_total > 43      6grp_cgc > 48      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 18.9
(-1.9)
A 		72.7
(3)
A 		7.2
(-3)
A 		12.5
(-2.5)
A 		66
B 3.1
(-2.9)
A 		37.4
(3)
A 		21.9
(0.3)
A 		2.8
(-3)
A 		35
C 2.9
(-3)
A 		4
(-2.1)
A 		10.4
(3)
A 		6
(-0.5)
A 		8
avr 8.3
(-2.8) 		38
(3) 		13.2
(-1.8) 		7.1
(-3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 9.1
(-2.7)
A 		4.7
(-3)
A 		12.9
(-2.5)
A 		4.8
(-3)
A 		12.2
(-2.5)
A 		95.1
(3)
P 		90
B 5.6
(-2.8)
A 		21.3
(-1.5)
A 		23.8
(-1.3)
A 		2.7
(-3)
A 		19.4
(-1.7)
A 		79.2
(3)
P 		77
C 6.2
(-3)
A 		12
(-2.1)
A 		29.8
(0.8)
A 		41.2
(2.6)
A 		33.1
(1.3)
A 		43.9
(3)
P 		38
avr 7
(-3) 		12.7
(-2.5) 		22.2
(-1.6) 		16.2
(-2.2) 		21.6
(-1.7) 		72.7
(3) 		66
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 6.9
(-0.8)
A 		15.8
(3)
A 		1.9
(-3)
A 		1.8
(-3)
A 		14
B 1
(-2.7)
A 		9.2
(3)
A 		5.1
(0.1)
A 		0.6
(-3)
A 		9
C 1
(-3)
A 		1.2
(-2.5)
A 		3.6
(3)
A 		1
(-3)
A 		3
avr 3
(-1.5) 		8.7
(3) 		3.5
(-1.1) 		1.1
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 1.7
(-2.9)
A 		1.7
(-2.9)
A 		2.8
(-2.6)
A 		1.2
(-3)
A 		3.7
(-2.3)
A 		23.2
(3)
P 		22
B 1.9
(-2.8)
A 		7.1
(-1.7)
A 		5.8
(-1.9)
A 		0.7
(-3)
A 		7.9
(-1.5)
A 		29.5
(3)
P 		29
C 2.3
(-3)
A 		3.7
(-2.3)
A 		7.6
(-0.4)
A 		8.3
(-0.1)
A 		10.7
(1.1)
A 		14.7
(3)
P 		12
avr 2
(-3) 		4.2
(-2.4) 		5.4
(-2) 		3.4
(-2.6) 		7.4
(-1.4) 		22.5
(3) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192707_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16111
Sequence Type Exemplar sequence
Representative Public ID C44C10.8 NCBI
Target Description C44C10.8 /REP_DB=WormBase Gene ID /WP=CE05415 /TR=Q18612 /GB=CAA93634.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Helix-loop-helix DNA-binding domain
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_077551(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077551 NCBI Caenorhabditis elegans HAND bHLH transcription factor family member (hnd-1) (hnd-1) mRNA, complete cds. 11/11 None
SNAP00000037963 ENSEMBL cdna:SNAP chromosome:CEL140:X:11684649:11685567:1 11/11 None
GENEFINDER00000037982 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11684649:11685567:1 11/11 None
C44C10.8 ENSEMBL cdna:known chromosome:CEL140:X:11684649:11685567:1 gene:C44C10.8 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
chrX:11684648-11685567(+) 100.0 100.0
Public Domain and Genome References
Gene Title Helix-loop-helix DNA-binding domain
Gene Symbol hnd-1
Ensembl C44C10.8
Entrez Gene 183457 Entrez gene
SwissProt Q18612 EMBL-EBI
WormBase CE05415 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA93634 Hypothetical protein C44C10.8 [Caenorhabditis elegans] ref|NP_509952.1| HAND bHLH transcription factor family member (hnd-1) [Caenorhabditis elegans] 1.0E-115
blast CAE69394 Hypothetical protein CBG15519 [Caenorhabditis briggsae] 2.0E-43
blast CAE72474 Hypothetical protein CBG19650 [Caenorhabditis briggsae] 1.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 3.4E-13
Sequence
Target Sequence 
>C. ELEGANS:192707_AT
tgctcaatgtatcaactcggcctttgagattcttcagcaacatattccatacctcaaatc
ggaagagagaaagtcgctgccaaagatcaaaacgcttcgtcttgccatgcagtacattga
tcatttgaaaaaattgctgggaggaaatgagatgctcgaaaccgattgcaacgaatctcg
cccactcactcactcagatttccgtgtcaatatctcgaatgagattagaattcggaacag
ttaccgagagagagcccacaatcaggagttggatgaagcaactgtgaagagaattttggc
tcgcgaagatcaacgccgtcgctgcagctcagttccggagggaatacaaagatatactcc
ttaccagagccgtcaattcggaccgatttcgaacaatgtgtgcaactttcgccacgtaga
tgctaaccaatacaacaccaacttcatggaatatcaaacacaaatggtccaggtcgccaa
cttcccaaatcagttctcgcatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTCAATGTATCAACTCGGCCTTT 383 575 117 Antisense
TCGGCCTTTGAGATTCTTCAGCAAC 203 607 133 Antisense
TTCAGCAACATATTCCATACCTCAA 444 685 149 Antisense
ATCAAAACGCTTCGTCTTGCCATGC 633 25 202 Antisense
AAACCGATTGCAACGAATCTCGCCC 604 125 275 Antisense
GTTACCGAGAGAGAGCCCACAATCA 345 443 356 Antisense
TTTGGCTCGCGAAGATCAACGCCGT 292 663 411 Antisense
ACCAGAGCCGTCAATTCGGACCGAT 366 83 479 Antisense
CAATGTGTGCAACTTTCGCCACGTA 364 183 510 Antisense
CACAAATGGTCCAGGTCGCCAACTT 343 193 575 Antisense
ACTTCCCAAATCAGTTCTCGCATGA 37 105 596 Antisense
Sequence Source Affymetrix Proprietary Database