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[190064_at] Achaete-scute/HLH

Description T05G5.2 /REP_DB=WormBase Gene ID /WP=CE00314 /TR=SW:P34555 /GB=CAA81589.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Achaete-scute-HLH
Cluster 6grp_highest_10_10 > 42      6grp_high1_10_10 > 25      4grp_highest_8_8 > 07      4grp_high_8_8 > 20      6grp_highest_nonorm > 90      6grp_total > 03      4grp_total > 27      6grp_highest_sub > 02      6grp_cgc > 40      6grp_high1_sub > 01_02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 129.3
(-3)
P 		149.5
(3)
P 		133.5
(-1.8)
P 		133.3
(-1.8)
P 		20
B 156.7
(2.1)
P 		162.7
(2.8)
P 		117.2
(-3)
P 		164.1
(3)
P 		47
C 118
(-3)
P 		155.8
(-1.1)
P 		121.4
(-2.8)
P 		237
(3)
P 		119
avr 134.7
(-1.8) 		156
(0.5) 		124
(-3) 		178.1
(3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 148.9
(3)
P 		112.6
(-0)
P 		77.3
(-3)
P 		91.7
(-1.8)
P 		122.8
(0.8)
P 		141.9
(2.4)
P 		72
B 135.2
(-0.4)
P 		178
(3)
P 		117.2
(-1.8)
P 		128
(-0.9)
P 		125.3
(-1.1)
P 		101.6
(-3)
P 		76
C 123.8
(-0.1)
P 		135.3
(0.8)
P 		129.1
(0.3)
P 		164.4
(3)
P 		85.7
(-3)
P 		91.4
(-2.6)
P 		79
avr 136
(1.9) 		142
(3) 		107.9
(-3) 		128
(0.5) 		111.3
(-2.4) 		111.6
(-2.3) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 47.1
(3)
P 		32.5
(-0.2)
P 		34.9
(0.3)
P 		19.5
(-3)
P 		28
B 50
(3)
P 		40.2
(0.4)
P 		27.2
(-3)
P 		35
(-0.9)
P 		23
C 39.1
(-3)
P 		44.8
(3)
P 		42.3
(0.4)
P 		40
(-2.1)
P 		6
avr 45.4
(3) 		39.2
(0.3) 		34.8
(-1.6) 		31.5
(-3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 27.5
(-0.2)
P 		40
(3)
P 		16.8
(-3)
P 		23.2
(-1.3)
P 		37.1
(2.3)
P 		34.5
(1.6)
P 		23
B 47.1
(0.6)
P 		59.3
(3)
P 		28.5
(-3)
P 		33.9
(-1.9)
P 		50.9
(1.4)
P 		37.9
(-1.2)
P 		31
C 45.9
(3)
P 		41.3
(1.5)
P 		32.9
(-1.3)
P 		33.1
(-1.2)
P 		27.7
(-3)
P 		30.6
(-2)
P 		18
avr 40.2
(1.1) 		46.9
(3) 		26.1
(-3) 		30.1
(-1.8) 		38.6
(0.6) 		34.3
(-0.6) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190064_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7277
Sequence Type Exemplar sequence
Representative Public ID T05G5.2 NCBI
Target Description T05G5.2 /REP_DB=WormBase Gene ID /WP=CE00314 /TR=SW:P34555 /GB=CAA81589.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Achaete-scute-HLH
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_066749(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066749 NCBI Caenorhabditis elegans T05G5.2 (Achaete-scute/HLH) mRNA, complete cds. 11/11 None
SNAP00000019874 ENSEMBL cdna:SNAP chromosome:CEL140:III:9736717:9738734:-1 11/11 None
GENEFINDER00000019893 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9737384:9738734:-1 11/11 None
T05G5.2 ENSEMBL cdna:known chromosome:CEL140:III:9737384:9738734:-1 gene:T05G5.2 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
chrIII:9737379-9738730(-) 100.0 100.0
Public Domain and Genome References
Gene Title Achaete-scute/HLH
Gene Symbol hlh-4
Ensembl T05G5.2
Entrez Gene 176372 Entrez gene
SwissProt P34555 EMBL-EBI
WormBase CE00314 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA81589 Hypothetical protein T05G5.2 [Caenorhabditis elegans] ref|NP_499150.1| T05G5.2 [Caenorhabditis elegans] sp|P34555|HLH4_CAEEL Helix-loop-helix protein 1.0E-101
blast CAA81589 Hypothetical protein T05G5.2 [Caenorhabditis elegans] ref|NP_499150.1| T05G5.2 [Caenorhabditis elegans] sp|P34555|HLH4_CAEEL Helix-loop-helix protein 1.0E-95
blast CAE65144 Hypothetical protein CBG10010 [Caenorhabditis briggsae] 5.0E-68
blast CAE65144 Hypothetical protein CBG10010 [Caenorhabditis briggsae] 2.0E-62
Protein Domains
Database ID Description E-Value
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 4.1E-13
Sequence
Target Sequence 
>C. ELEGANS:190064_AT
ctgaaacaacatcttccaagcctccgtcaattcacaaaacgtgtcagcaaacttcgtata
ctgaatgcagcaatcacttacattgacacacttcttaaattaattcaaagttcagaagca
gttcctcagtctgttatttctgcaactcttggcccaattgttccaactcccgttcgagct
gtccataaaatctcaaaaccagacacagtcatatctcaaccaatccgtccccttgcacca
gttcttccacgccacgaaacgtatctcccagctccaatagctgcgacgtgtgctccagat
cattctctagtcgactatagatcaacattcgcatcgtcattagcaccaccagttccaatg
caaatgccttcagtattctcacctcaaccaacattcccttatatgaagagtctacttgat
tatccaacatatttctatcaaccatcaactgcacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGAAACAACATCTTCCAAGCCTCC 707 233 88 Antisense
GCAGTTCCTCAGTCTGTTATTTCTG 64 311 205 Antisense
GCAACTCTTGGCCCAATTGTTCCAA 614 319 229 Antisense
TCCCGTTCGAGCTGTCCATAAAATC 346 595 255 Antisense
GACACAGTCATATCTCAACCAATCC 81 365 289 Antisense
TTCTTCCACGCCACGAAACGTATCT 461 689 329 Antisense
AGCTCCAATAGCTGCGACGTGTGCT 432 81 357 Antisense
TGCTCCAGATCATTCTCTAGTCGAC 662 581 378 Antisense
ACATTCGCATCGTCATTAGCACCAC 81 105 412 Antisense
TGCAAATGCCTTCAGTATTCTCACC 126 577 446 Antisense
ATTTCTATCAACCATCAACTGCACC 231 15 518 Antisense
Sequence Source Affymetrix Proprietary Database