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[193106_at] achaete-scute helix-loop-helix domain

Description T15H9.3 /REP_DB=WormBase Gene ID /WP=CE01666 /TR=SW:Q10007 /GB=CAA87416.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=achaete-scute helix-loop-helix domain
Cluster 4grp_high_8_8 > 10      6grp_total > 82      4grp_total > 22      6grp_cgc > 87      6grp_cgc_sub > 05      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 212
1 2 3 4 range
A 145.2
(2.4)
P 		111.9
(-0.6)
P 		86.3
(-3)
A 		151.4
(3)
P 		65
B 203.7
(0.2)
P 		99.6
(-3)
A 		102.8
(-2.9)
P 		295.7
(3)
P 		196
C 225.2
(3)
P 		132.6
(-0.9)
A 		83.8
(-3)
P 		170.1
(0.7)
P 		141
avr 191.4
(2.3) 		114.7
(-1.8) 		91
(-3) 		205.7
(3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 194
1 2 3 4 5 6 range
A 109.5
(-2.2)
M 		161.5
(0.1)
A 		132.9
(-1.1)
A 		119.3
(-1.7)
P 		227.8
(3)
P 		90.5
(-3)
A 		137
B 118.6
(-2.9)
A 		114.5
(-3)
P 		127
(-2.6)
P 		284.4
(3)
P 		203
(0.1)
P 		160.4
(-1.4)
P 		170
C 99.4
(-3)
A 		126.4
(-0.9)
P 		169.2
(2.3)
P 		178.3
(3)
M 		176
(2.8)
A 		129.3
(-0.7)
P 		79
avr 109.2
(-3) 		134.1
(-1.4) 		143
(-0.8) 		194
(2.5) 		202.3
(3) 		126.7
(-1.9) 		93
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 52.9
(3)
P 		24.3
(-2.6)
P 		22.6
(-2.9)
A 		22.2
(-3)
P 		31
B 65
(3)
P 		24.6
(-2.9)
A 		23.8
(-3)
P 		63
(2.7)
P 		41
C 74.5
(3)
P 		38.1
(-1.8)
A 		29.2
(-2.9)
P 		28.7
(-3)
P 		46
avr 64.1
(3) 		29
(-2.4) 		25.2
(-3) 		38
(-1) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 62
1 2 3 4 5 6 range
A 20.2
(-3)
M 		57.5
(1.6)
A 		29
(-1.9)
A 		30.2
(-1.8)
P 		68.7
(3)
P 		22
(-2.8)
A 		49
B 41.3
(-1.8)
A 		38.1
(-2.2)
P 		30.8
(-3)
P 		75.3
(2.2)
P 		82.5
(3)
P 		59.8
(0.4)
P 		52
C 36.8
(-2.7)
A 		38.6
(-2.2)
P 		43.1
(-0.9)
P 		35.9
(-3)
M 		56.9
(3)
A 		43.3
(-0.9)
P 		21
avr 32.8
(-3) 		44.7
(-1) 		34.3
(-2.8) 		47.1
(-0.7) 		69.4
(3) 		41.7
(-1.5) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193106_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3072
Sequence Type Exemplar sequence
Representative Public ID T15H9.3 NCBI
Target Description T15H9.3 /REP_DB=WormBase Gene ID /WP=CE01666 /TR=SW:Q10007 /GB=CAA87416.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=achaete-scute helix-loop-helix 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_063669(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063669 NCBI Caenorhabditis elegans Helix Loop Helix family member (hlh-6) (hlh-6) mRNA, complete cds. 11/11 None
SNAP00000036796 ENSEMBL cdna:SNAP chromosome:CEL140:II:9610632:9614693:-1 11/11 None
GENEFINDER00000036804 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9613425:9614723:-1 11/11 None
T15H9.3 ENSEMBL cdna:known chromosome:CEL140:II:9613425:9614723:-1 gene:T15H9.3 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
chrII:9613421-9614720(-) 96.16 100.0
Public Domain and Genome References
Gene Title achaete-scute helix-loop-helix domain
Gene Symbol hlh-6
Ensembl T15H9.3
Entrez Gene 188539 Entrez gene
SwissProt Q10007 EMBL-EBI
WormBase CE01666 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA87416 Hypothetical protein T15H9.3 [Caenorhabditis elegans] ref|NP_496070.1| Helix Loop Helix family member (hlh-6) [Caenorhabditis elegans] sp|Q10007|HLH6_CAEEL Helix-loop-helix protein 1.0E-95
blast CAA87416 Hypothetical protein T15H9.3 [Caenorhabditis elegans] ref|NP_496070.1| Helix Loop Helix family member (hlh-6) [Caenorhabditis elegans] sp|Q10007|HLH6_CAEEL Helix-loop-helix protein 1.0E-84
blast CAE62561 Hypothetical protein CBG06671 [Caenorhabditis briggsae] 5.0E-51
blast CAA87418 Hypothetical protein T15H9.5 [Caenorhabditis elegans] ref|NP_496068.1| T15H9.5 [Caenorhabditis elegans] sp|Q09355|YRY5_CAEEL Hypothetical protein T15H9.5 in chromosome II 6.0E-50
blast CAE62561 Hypothetical protein CBG06671 [Caenorhabditis briggsae] 3.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 7.4E-19
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 4.3E-17
Sequence
Target Sequence 
>C. ELEGANS:193106_AT
aatcgatcagcaattccacattccaacttccaccccactccaacttgcaccaatcccgac
tcaaattcaatctcaacttcaaccacaaatatctcaaatacctattcacaatcaaccaca
aattcaaattcaaagccaagttcaacctcaacttcccactcaaagtcagccaaaaccttc
ttctaaagcgtcattggacactagctcaaacgcctttaagaaatatgtgaacccatttgc
acctgaagctacagtacccctgcctgttgaacttgaagatcaatacggaccatatagctc
atcagtttggaaacgaaacgaacgtgagcgatgtcgagtgagaaatgtgaatgatggtta
tgagagactgagaaaacatcttccagttcattttgatgaaaagcgaatctcaaaagttga
cactctccggcttgcaatccgttatatcaaacatttggataacttattgaggagcgagct
tcatcagtataactgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCGATCAGCAATTCCACATTCCA 379 169 231 Antisense
CACCAATCCCGACTCAAATTCAATC 368 203 278 Antisense
AATTCAATCTCAACTTCAACCACAA 117 177 294 Antisense
AATACCTATTCACAATCAACCACAA 597 171 327 Antisense
CTTCCCACTCAAAGTCAGCCAAAAC 655 219 382 Antisense
GCCAAAACCTTCTTCTAAAGCGTCA 700 275 399 Antisense
TGGACACTAGCTCAAACGCCTTTAA 459 547 425 Antisense
TGAACCCATTTGCACCTGAAGCTAC 537 571 458 Antisense
TACCCCTGCCTGTTGAACTTGAAGA 634 649 485 Antisense
TACGGACCATATAGCTCATCAGTTT 11 649 514 Antisense
GAGCGAGCTTCATCAGTATAACTGC 492 385 702 Antisense
Sequence Source Affymetrix Proprietary Database