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[171841_x_at]

Description CEK007B4R_rc /REP_DB=TREMBL Accession /GB=D27986 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk7b4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 04      4grp_highest_8_8 > 61      4grp_high_8_8 > 17      6grp_highest_nonorm > 60      6grp_total > 05      4grp_total > 31      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 293
1 2 3 4 range
A 570.6
(3)
P 		320.5
(-2.2)
P 		279.5
(-3)
P 		404.6
(-0.4)
P 		291
B 572.5
(3)
P 		398.4
(-1.2)
P 		324.6
(-3)
P 		525.5
(1.9)
P 		248
C 561.4
(3)
P 		363.8
(-2.4)
P 		340.5
(-3)
P 		431
(-0.5)
P 		221
avr 568.2
(3) 		360.9
(-1.9) 		314.9
(-3) 		453.7
(0.3) 		253

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 535
1 2 3 4 5 6 range
A 399.9
(2.4)
P 		428.1
(3)
P 		410.9
(2.6)
P 		274.3
(-0.5)
P 		377.9
(1.9)
P 		165.4
(-3)
P 		263
B 471.4
(2.6)
P 		482.4
(3)
P 		462.2
(2.3)
P 		414.9
(0.5)
P 		321.2
(-3)
P 		319.9
(-3)
P 		163
C 700
(3)
P 		490.7
(0.1)
P 		352.8
(-1.8)
P 		316.2
(-2.3)
P 		371.1
(-1.6)
P 		267.3
(-3)
P 		433
avr 523.8
(3) 		467.1
(1.8) 		408.6
(0.5) 		335.1
(-1.1) 		356.7
(-0.7) 		250.9
(-3) 		273
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 207.7
(3)
P 		69.6
(-2.6)
P 		73.1
(-2.4)
P 		59.2
(-3)
P 		149
B 182.6
(3)
P 		98.4
(-1.7)
P 		75.2
(-3)
P 		112
(-0.9)
P 		107
C 185.8
(3)
P 		104.6
(-1.3)
P 		118.7
(-0.6)
P 		72.7
(-3)
P 		113
avr 192
(3) 		90.9
(-2.5) 		89
(-2.6) 		81.3
(-3) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 73.7
(-1.2)
P 		152.3
(3)
P 		89.5
(-0.4)
P 		69.6
(-1.4)
P 		114
(0.9)
P 		40.3
(-3)
P 		112
B 164
(3)
P 		160.6
(2.6)
P 		112.2
(-2.7)
P 		109.9
(-3)
P 		130.5
(-0.7)
P 		119.3
(-2)
P 		54
C 259.5
(3)
P 		149.7
(-0.4)
P 		89.8
(-2.2)
P 		63.6
(-3)
P 		120.1
(-1.3)
P 		89.5
(-2.2)
P 		196
avr 165.7
(3) 		154.2
(2.2) 		97.2
(-1.9) 		81
(-3) 		121.5
(-0.1) 		83
(-2.9) 		85
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171841_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27744
Sequence Type Exemplar sequence
Representative Public ID CEK007B4R NCBI
Target Description CEK007B4R_rc /REP_DB=TREMBL Accession /GB=D27986 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk7b4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_066728, NM_066729, NM_001027455
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027455 NCBI Caenorhabditis elegans F58A4.7c (AP-4) mRNA, complete cds. None
NM_066729 NCBI Caenorhabditis elegans F58A4.7a (AP-4) mRNA, complete cds. A 
F58A4.7a.2 ENSEMBL cdna:known chromosome:CEL140:III:9622040:9626433:1 gene:F58A4.7 None
NM_066728 NCBI Caenorhabditis elegans F58A4.7b (AP-4) mRNA, complete cds. A 
F58A4.7b.2 ENSEMBL cdna:known chromosome:CEL140:III:9622043:9625809:1 gene:F58A4.7 None
SNAP00000012197 ENSEMBL cdna:SNAP chromosome:CEL140:III:9622394:9625035:1 None
F58A4.7a.1 ENSEMBL cdna:known chromosome:CEL140:III:9622049:9626445:1 gene:F58A4.7 None
GENEFINDER00000012211 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9622394:9625809:1 None
F58A4.7b.1 ENSEMBL cdna:known chromosome:CEL140:III:9622049:9625809:1 gene:F58A4.7 None
F58A4.7c ENSEMBL cdna:known chromosome:CEL140:III:9622394:9626026:1 gene:F58A4.7 A 
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:9624959-9625989(+) 47.18 47.18
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:171841_X_AT
gtcgcatttgccacatcaatctgcagggacataattctgcgtttgtaagcaccacnnnnn
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngttgaagctattcgtcatttggaggga
agtcatttcannnnnnnnnnnnnnnnnnnnnnnnnncacagacatcgctcgtccgttgag
cctgacttttgacaaatgtaga

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCGCATTTGCCACATCAATCTGCA 4 475 39 Antisense
GCATTTGCCACATCAATCTGCAGGG 109 309 42 Antisense
GCCACATCAATCTGCAGGGACATAA 424 279 48 Antisense
CAGGGACATAATTCTGCGTTTGTAA 226 209 62 Antisense
ATAATTCTGCGTTTGTAAGCACCAC 146 25 69 Antisense
GTTGAAGCTATTCGTCATTTGGAGG 647 437 132 Antisense
TCGTCATTTGGAGGGAAGTCATTTC 54 603 143 Antisense
CGTCCGTTGAGCCTGACTTTTGACA 671 245 208 Antisense
TCCGTTGAGCCTGACTTTTGACAAA 4 595 210 Antisense
GTTGAGCCTGACTTTTGACAAATGT 41 439 213 Antisense
GAGCCTGACTTTTGACAAATGTAGA 568 385 216 Antisense
Sequence Source Affymetrix Proprietary Database