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[182960_at]

Description F48D6.3 /REP_DB=WormBase Gene ID /WP=CE07260 /TR=Q20561 /GB=AAB00595.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 82      6grp_highest_nonorm > 90      6grp_total > 70      4grp_total > 20      6grp_highest_sub > 04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 171
1 2 3 4 range
A 84.2
(-1.8)
P 		77.7
(-2.1)
P 		61
(-3)
A 		175.8
(3)
P 		115
B 99.2
(0.6)
P 		92.9
(0.3)
P 		23.9
(-3)
A 		151
(3)
P 		127
C 82.6
(-1.7)
P 		111.9
(-0.5)
P 		52.4
(-3)
A 		194.9
(3)
P 		143
avr 88.7
(-1) 		94.2
(-0.7) 		45.8
(-3) 		173.9
(3) 		128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 123.3
(3)
P 		84
(-1.4)
P 		79.2
(-2)
P 		69.9
(-3)
P 		104.3
(0.9)
P 		112.2
(1.8)
P 		53
B 81.8
(-3)
P 		88.6
(-2.3)
P 		139.1
(3)
P 		117.7
(0.8)
P 		103.6
(-0.7)
P 		88.2
(-2.3)
P 		57
C 67.7
(-3)
P 		95.2
(-0.7)
P 		70.7
(-2.7)
P 		138.8
(3)
P 		75.1
(-2.4)
P 		73.7
(-2.5)
P 		71
avr 90.9
(-2.5) 		89.3
(-3) 		96.3
(-0.8) 		108.8
(3) 		94.3
(-1.5) 		91.4
(-2.4) 		20
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 30.6
(3)
P 		16.9
(-2.6)
P 		15.9
(-3)
A 		25.7
(1)
P 		15
B 31.6
(2.9)
P 		22.9
(0.9)
P 		5.5
(-3)
A 		32.2
(3)
P 		27
C 27.3
(0.7)
P 		32.2
(2.7)
P 		18.2
(-3)
A 		32.9
(3)
P 		15
avr 29.8
(2.8) 		24
(0.8) 		13.2
(-3) 		30.3
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 22.7
(-0.7)
P 		29.9
(2.3)
P 		17.2
(-3)
P 		17.7
(-2.8)
P 		31.5
(3)
P 		27.3
(1.2)
P 		14
B 28.5
(-3)
P 		29.5
(-2.6)
P 		33.8
(-0.7)
P 		31.2
(-1.8)
P 		42.1
(3)
P 		32.9
(-1.1)
P 		14
C 25.1
(0.8)
P 		29.1
(3)
P 		18
(-3)
P 		27.9
(2.4)
P 		24.3
(0.4)
P 		24.7
(0.6)
P 		11
avr 25.4
(-1.5) 		29.5
(1.1) 		23
(-3) 		25.6
(-1.4) 		32.6
(3) 		28.3
(0.3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182960_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16903
Sequence Type Exemplar sequence
Representative Public ID F48D6.3 NCBI
Target Description F48D6.3 /REP_DB=WormBase Gene ID /WP=CE07260 /TR=Q20561 /GB=AAB00595.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=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_076324(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076324 NCBI Caenorhabditis elegans Helix Loop Helix family member (hlh-13) (hlh-13) mRNA, complete cds. 11/11 None
SNAP00000013681 ENSEMBL cdna:SNAP chromosome:CEL140:X:4249299:4250628:1 11/11 None
GENEFINDER00000013685 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4249299:4250628:1 11/11 None
F48D6.3 ENSEMBL cdna:known chromosome:CEL140:X:4249299:4250628:1 gene:F48D6.3 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
chrX:4249299-4250629(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hlh-13
Ensembl F48D6.3
Entrez Gene 185980 Entrez gene
SwissProt Q20561 EMBL-EBI
WormBase CE07260 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1639281_AT 48 related 2 dm
DROSGENOME1:149998_AT 48 related 2 dm
Protein Similarities
Method ID Description E-Value
blast AAB00595 Helix loop helix protein 13 [Caenorhabditis elegans] ref|NP_508725.1| Helix Loop Helix family member (hlh-13) [Caenorhabditis elegans] gb|AAK72958.1| Fer3-like [Caenorhabditis elegans] 9.0E-82
blast AAB00595 Helix loop helix protein 13 [Caenorhabditis elegans] ref|NP_508725.1| Helix Loop Helix family member (hlh-13) [Caenorhabditis elegans] gb|AAK72958.1| Fer3-like [Caenorhabditis elegans] 2.0E-79
blast CAE68544 Hypothetical protein CBG14376 [Caenorhabditis briggsae] 4.0E-58
blast CAE68544 Hypothetical protein CBG14376 [Caenorhabditis briggsae] 1.0E-55
blast EAL28859 GA19254-PA [Drosophila pseudoobscura] 1.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 8.2E-20
Sequence
Target Sequence 
>C. ELEGANS:182960_AT
acagcttcatcttctgggtgtggcggtttaccagtttcccagtgtccctcttattcctca
ctttcaaagctcttctttatggattcatcgtatgattcatattactgcgaggagcccgag
gagcgacaaactgcttcaattcgtgagaggaagagaatgtgtagtattaatgtggcattt
attgagctccgcaattatattccaacatttccttatgaaaaacggctctctaaaattgat
accttgaacctggcaattgcatatatcaatatgttggatgacgttctgagaacacccgaa
gattctggtcagtatattcaaaagtgtgttcatatggctcgcacaggtcaaatcggtgca
ccagcgtggagtacaagtgatttgctagcccggctcaattggatcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAGCTTCATCTTCTGGGTGTGGCG 186 109 16 Antisense
CTCTTATTCCTCACTTTCAAAGCTC 128 231 63 Antisense
AAAGCTCTTCTTTATGGATTCATCG 276 125 81 Antisense
TTACTGCGAGGAGCCCGAGGAGCGA 253 679 117 Antisense
GGAGCGACAAACTGCTTCAATTCGT 326 521 135 Antisense
AATGTGGCATTTATTGAGCTCCGCA 546 163 184 Antisense
GAGCTCCGCAATTATATTCCAACAT 628 387 199 Antisense
GATACCTTGAACCTGGCAATTGCAT 504 423 253 Antisense
GTTCATATGGCTCGCACAGGTCAAA 538 443 343 Antisense
AAATCGGTGCACCAGCGTGGAGTAC 661 117 365 Antisense
TGCTAGCCCGGCTCAATTGGATCAA 525 577 398 Antisense
Sequence Source Affymetrix Proprietary Database