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[192523_at] helix-loop-helix protein

Description T24B8.6 /REP_DB=WormBase Gene ID /WP=CE03714 /GEN=hlh-3 /TR=Q22717 /GB=CAA92758.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=helix-loop-helix protein
Cluster 6grp_total > 27      4grp_total > 44      6grp_cgc > 05      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 186
1 2 3 4 range
A 125.3
(-0.6)
P 		222.5
(3)
P 		150.1
(0.3)
P 		60.7
(-3)
A 		162
B 229.7
(2.4)
P 		246.9
(3)
P 		152.8
(-0.2)
A 		71.3
(-3)
A 		176
C 193.1
(1.6)
P 		222.8
(3)
P 		99
(-3)
P 		105.6
(-2.7)
A 		124
avr 182.7
(1.1) 		230.7
(3) 		134
(-0.8) 		79.2
(-3) 		152

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 320
1 2 3 4 5 6 range
A 270.9
(2.9)
P 		182.3
(0.1)
P 		133.1
(-1.4)
A 		82.6
(-3)
P 		122.3
(-1.8)
A 		274.4
(3)
P 		192
B 395.3
(3)
P 		243.6
(-0)
P 		143.5
(-2)
P 		93.5
(-3)
A 		102.1
(-2.8)
A 		164.3
(-1.6)
P 		302
C 241.2
(3)
P 		212.6
(2)
P 		137.7
(-0.7)
P 		89.1
(-2.5)
M 		75
(-3)
A 		183.2
(0.9)
P 		166
avr 302.5
(3) 		212.8
(0.5) 		138.1
(-1.6) 		88.4
(-3) 		99.8
(-2.7) 		207.3
(0.3) 		214
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 45.6
(2.6)
P 		48.3
(3)
P 		39.2
(1.6)
P 		8.9
(-3)
A 		39
B 73.3
(3)
P 		61
(1.7)
P 		35.4
(-0.9)
A 		15.2
(-3)
A 		58
C 63.9
(3)
P 		64.1
(3)
P 		34.5
(-0.8)
P 		17.8
(-3)
A 		46
avr 60.9
(3) 		57.8
(2.6) 		36.4
(-0.1) 		14
(-3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 120
1 2 3 4 5 6 range
A 49.9
(0.8)
P 		64.8
(2.7)
P 		29
(-1.9)
A 		20.9
(-3)
P 		36.9
(-0.9)
A 		66.8
(3)
P 		46
B 137.5
(3)
P 		81.1
(-0)
P 		34.8
(-2.5)
P 		24.8
(-3)
A 		41.5
(-2.1)
A 		61.3
(-1.1)
P 		113
C 89.4
(3)
P 		64.9
(0.9)
P 		35.1
(-1.6)
P 		17.9
(-3)
M 		24.3
(-2.5)
A 		61.3
(0.6)
P 		72
avr 92.3
(3) 		70.3
(1.1) 		33
(-2) 		21.2
(-3) 		34.2
(-1.9) 		63.1
(0.5) 		71
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192523_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2681
Sequence Type Exemplar sequence
Representative Public ID T24B8.6 NCBI
Target Description T24B8.6 /REP_DB=WormBase Gene ID /WP=CE03714 /GEN=hlh-3 /TR=Q22717 /GB=CAA92758.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=helix-loop-helix 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_063537(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063537 NCBI Caenorhabditis elegans Helix Loop Helix family member (hlh-3) (hlh-3) mRNA, complete cds. 11/11 None
SNAP00000039893 ENSEMBL cdna:SNAP chromosome:CEL140:II:9086521:9087524:1 9/11 None
GENEFINDER00000039894 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9086521:9087524:1 9/11 None
T24B8.6 ENSEMBL cdna:known chromosome:CEL140:II:9085886:9087564:1 gene:T24B8.6 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
Alignment(s)
Position Identity Coverage Cytoband
chrII:9085882-9087521(+) 100.0 100.0
Public Domain and Genome References
Gene Title helix-loop-helix protein
Gene Symbol hlh-3
Ensembl T24B8.6
Entrez Gene 174447 Entrez gene
SwissProt Q22717 EMBL-EBI
WormBase CE03714 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92758 Hypothetical protein T24B8.6 [Caenorhabditis elegans] ref|NP_495938.3| Helix Loop Helix family member (hlh-3) [Caenorhabditis elegans] 2.0E-61
blast CAA92758 Hypothetical protein T24B8.6 [Caenorhabditis elegans] ref|NP_495938.3| Helix Loop Helix family member (hlh-3) [Caenorhabditis elegans] 6.0E-48
blast AAB38323 basic helix-loop-helix DNA binding protein HLH-3 [Caenorhabditis elegans] 2.0E-45
blast AAB38323 basic helix-loop-helix DNA binding protein HLH-3 [Caenorhabditis elegans] 3.0E-45
blast CAE59798 Hypothetical protein CBG03260 [Caenorhabditis briggsae] 1.0E-22
Protein Domains
Database ID Description E-Value
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 2.5E-18
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 2.5E-18
Sequence
Target Sequence 
>C. ELEGANS:192523_AT
attcgcagagcgatcgttctggcgccatggtacaacaaagacaatctgaaaagttcagtc
catccatgaatatgaccgcatccacctcctcaactccatctacatccaccaaaattccgt
cgtcaagtaagtcttcagtaacgaagcagacgaagcaaaagcgtaatgaacgtgaacgaa
aacgtgttgatcaagtcaatcagggatttgttctattgcaagaaagagtaccaaaagctg
ctggaaacaaggcaaagttgtcaaaggtcgaaacccttcgtgaagccgcccgttacattc
aagaactgcagaagcaactcggaatgtcttccacaagtttccataattcgatgccagctg
actttccaactccagaacagtctcccgtatatccccaatctgtttgctcaatgatggcac
agactccatcgccaagctacacctctccatactatccaccaccacaaatgatgtcctcta
atcagcatgatatgtcatctcactattatcaagaaagctcatcatcttctgcatccactt
ctggtgatcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCGCAGAGCGATCGTTCTGGCGC 289 9 41 Antisense
TCCATGAATATGACCGCATCCACCT 464 589 103 Antisense
TCTACATCCACCAAAATTCCGTCGT 706 613 139 Antisense
GCCGCCCGTTACATTCAAGAACTGC 392 283 325 Antisense
GAATGTCTTCCACAAGTTTCCATAA 218 327 362 Antisense
TAATTCGATGCCAGCTGACTTTCCA 426 633 384 Antisense
ACTTTCCAACTCCAGAACAGTCTCC 43 101 401 Antisense
ATATCCCCAATCTGTTTGCTCAATG 423 21 429 Antisense
TGATGGCACAGACTCCATCGCCAAG 11 567 452 Antisense
AGAAAGCTCATCATCTTCTGCATCC 329 73 552 Antisense
TCTGCATCCACTTCTGGTGATCATC 346 609 568 Antisense
Sequence Source Affymetrix Proprietary Database