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[192781_s_at]

Description F58A4.7B /REP_DB=WormBase Gene ID /WP=CE20890 /TR=Q9U3E1 /GB=CAA80170.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Helix-loop-helix DNA-binding domain
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 11      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 31      6grp_total > 23      4grp_total > 38      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 743
1 2 3 4 range
A 1303
(3)
P 		642.6
(-2.4)
P 		563.7
(-3)
P 		634.7
(-2.4)
P 		739
B 1272
(3)
P 		745.1
(-1.4)
P 		560.4
(-3)
P 		818.1
(-0.8)
P 		712
C 1180
(3)
P 		774.6
(-1.4)
P 		630.9
(-3)
P 		730.7
(-1.9)
P 		549
avr 1251.7
(3) 		720.8
(-1.8) 		585
(-3) 		727.8
(-1.7) 		667

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1246
1 2 3 4 5 6 range
A 912.9
(-0.1)
P 		1122.9
(3)
P 		927.5
(0.1)
P 		951.2
(0.5)
P 		733.8
(-2.7)
P 		716.5
(-3)
P 		406
B 1057.4
(2.6)
P 		986.4
(1.8)
P 		1095.9
(3)
P 		905.1
(1)
P 		585
(-2.5)
P 		536.6
(-3)
P 		559
C 1782.3
(3)
P 		1096.3
(-0.4)
P 		1245.4
(0.4)
P 		1008.9
(-0.8)
P 		720.8
(-2.2)
P 		559.3
(-3)
P 		1223
avr 1250.9
(3) 		1068.5
(1.3) 		1089.6
(1.5) 		955.1
(0.3) 		679.9
(-2.3) 		604.1
(-3) 		647
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 382
1 2 3 4 range
A 474.4
(3)
P 		139.5
(-2.3)
P 		147.4
(-2.1)
P 		92.9
(-3)
P 		382
B 405.6
(3)
P 		184
(-1.8)
P 		129.9
(-3)
P 		174.3
(-2)
P 		276
C 390.6
(3)
P 		222.7
(-0.8)
P 		219.9
(-0.8)
P 		123.2
(-3)
P 		267
avr 423.5
(3) 		182.1
(-1.9) 		165.7
(-2.3) 		130.1
(-3) 		293

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 492
1 2 3 4 5 6 range
A 168.3
(-3)
P 		399.3
(3)
P 		202
(-2.1)
P 		241.2
(-1.1)
P 		221.4
(-1.6)
P 		174.4
(-2.8)
P 		231
B 367.9
(3)
P 		328.3
(1.6)
P 		266.1
(-0.6)
P 		239.7
(-1.6)
P 		237.7
(-1.7)
P 		200.1
(-3)
P 		168
C 660.6
(3)
P 		334.5
(-1.1)
P 		317
(-1.4)
P 		202.9
(-2.8)
P 		233.2
(-2.4)
P 		187.2
(-3)
P 		473
avr 398.9
(3) 		354
(1.7) 		261.7
(-0.9) 		227.9
(-1.8) 		230.8
(-1.8) 		187.2
(-3) 		212
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192781_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7156
Sequence Type Exemplar sequence
Representative Public ID F58A4.7B NCBI
Target Description F58A4.7B /REP_DB=WormBase Gene ID /WP=CE20890 /TR=Q9U3E1 /GB=CAA80170.1 /SUBMIT=HINXTON /CHR=3 /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_066729(11), NM_066728(11), NM_001027455(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066729 NCBI Caenorhabditis elegans F58A4.7a (AP-4) mRNA, complete cds. 11/11 None
NM_066728 NCBI Caenorhabditis elegans F58A4.7b (AP-4) mRNA, complete cds. 11/11 None
NM_001027455 NCBI Caenorhabditis elegans F58A4.7c (AP-4) mRNA, complete cds. 11/11 None
SNAP00000012197 ENSEMBL cdna:SNAP chromosome:CEL140:III:9622394:9625035:1 10/11 None
GENEFINDER00000012211 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9622394:9625809:1 11/11 None
F58A4.7a.2 ENSEMBL cdna:known chromosome:CEL140:III:9622040:9626433:1 gene:F58A4.7 11/11 None
F58A4.7b.2 ENSEMBL cdna:known chromosome:CEL140:III:9622043:9625809:1 gene:F58A4.7 11/11 None
F58A4.7a.1 ENSEMBL cdna:known chromosome:CEL140:III:9622049:9626445:1 gene:F58A4.7 11/11 None
F58A4.7b.1 ENSEMBL cdna:known chromosome:CEL140:III:9622049:9625809:1 gene:F58A4.7 11/11 None
F58A4.7c ENSEMBL cdna:known chromosome:CEL140:III:9622394:9626026:1 gene:F58A4.7 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176360 4 3 NM_001027455 192781_s_at (11)
NM_066728 192781_s_at (11)
NM_066729 174449_at (11), 192781_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:9623489-9625805(+) 100.0 100.0
Public Domain and Genome References
Ensembl F58A4.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA80170 Hypothetical protein F58A4.7b [Caenorhabditis elegans] ref|NP_499129.2| F58A4.7b [Caenorhabditis elegans] sp|P34474|YMH7_CAEEL Hypothetical protein F58A4.7 in chromosome III 1.0E-179
blast CAA80167 Hypothetical protein F58A4.7a [Caenorhabditis elegans] ref|NP_499130.2| F58A4.7a [Caenorhabditis elegans] 1.0E-178
blast CAD90178 Hypothetical protein F58A4.7c [Caenorhabditis elegans] ref|NP_001022626.1| F58A4.7c [Caenorhabditis elegans] 1.0E-178
blast CAA80170 Hypothetical protein F58A4.7b [Caenorhabditis elegans] ref|NP_499129.2| F58A4.7b [Caenorhabditis elegans] sp|P34474|YMH7_CAEEL Hypothetical protein F58A4.7 in chromosome III 1.0E-177
Protein Domains
Database ID Description E-Value
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 1.4E-16
Pfam IPR001092 EMBL-EBI Basic helix-loop-helix dimerization domain bHLH 1.4E-16
Sequence
Target Sequence 
>C. ELEGANS:192781_S_AT
caacatcatcgcaagcatcgtcaccagtgacaccaagatctaatggttctggtggtttca
cattgccatcttcatatgcttcatcggctcttcctactccgttacgagaatcaccggaaa
ggaaaccatcatttcaagatacaacaagtactccgttgtctcttttgacactgaacggta
gtccaacttcttctgaatcattggcgtctcaacgtatattccatccgcctccaacattgc
caagtttagagacaactgttatccgtcctacaccactaccaccaatatcagttgaaatat
catcaccatctctgtcaactccatcacctttgactgccgctccaataatcttctcaacag
cagttccaactcaatcgagtattttgttccaaacagcggcggcagcggtcacctcggcca
tgtctaccggtaactcgacacccgtcgcattgccacatcatctgcagggacataattctg
cgtttgtaagcacacaaccgagcctgaccctgtctcaatcaatgcaaacaattgttgaag
ctattcgtcatttggagggaagtcatttcattccaacatctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACATCATCGCAAGCATCGTCACC 546 187 545 Antisense
GTTCTGGTGGTTTCACATTGCCATC 247 443 590 Antisense
CATTGCCATCTTCATATGCTTCATC 568 217 605 Antisense
CTCTTCCTACTCCGTTACGAGAATC 503 229 632 Antisense
ACAAGTACTCCGTTGTCTCTTTTGA 27 115 688 Antisense
TGAACGGTAGTCCAACTTCTTCTGA 635 573 716 Antisense
GCGTCTCAACGTATATTCCATCCGC 573 291 748 Antisense
AGAGACAACTGTTATCCGTCCTACA 114 69 792 Antisense
AAATATCATCACCATCTCTGTCAAC 538 115 839 Antisense
TCGGCCATGTCTACCGGTAACTCGA 469 603 958 Antisense
GAAGTCATTTCATTCCAACATCTCC 77 337 1103 Antisense
Sequence Source Affymetrix Proprietary Database