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[172011_x_at]

Description AV182008_rc /REP_DB=TREMBL Accession /GB=AV182008 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk630f12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 41      6grp_high1_10_10 > 03      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 31      6grp_total > 24      4grp_total > 54      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 587
1 2 3 4 range
A 1308.6
(3)
P 		1056.3
(-0)
P 		944.3
(-1.4)
P 		811.8
(-3)
P 		497
B 1298.5
(3)
P 		1273.9
(2.7)
P 		775.6
(-3)
P 		854.9
(-2.1)
P 		523
C 1362.8
(3)
P 		871.3
(-2.3)
P 		1143.2
(0.6)
P 		809.8
(-3)
P 		553
avr 1323.3
(3) 		1067.2
(-0.1) 		954.4
(-1.4) 		825.5
(-3) 		498

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 798
1 2 3 4 5 6 range
A 1248
(2.4)
P 		1304.2
(3)
P 		908.7
(-1.1)
P 		721.1
(-3)
P 		739.6
(-2.8)
P 		760.7
(-2.6)
P 		583
B 1410.4
(3)
P 		1242
(1.7)
P 		1023.9
(0)
P 		910.8
(-0.8)
P 		628.4
(-3)
P 		789.3
(-1.8)
P 		782
C 1261.7
(3)
P 		1130.3
(1.8)
P 		1141.4
(1.9)
P 		612.3
(-3)
P 		866.6
(-0.7)
P 		612.5
(-3)
P 		649
avr 1306.7
(3) 		1225.5
(2.2) 		1024.7
(0.1) 		748.1
(-2.7) 		744.9
(-2.8) 		720.8
(-3) 		586
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 358
1 2 3 4 range
A 476.5
(3)
P 		229.3
(-1.1)
P 		246.9
(-0.9)
P 		118.8
(-3)
P 		358
B 414.1
(3)
P 		314.6
(0.5)
P 		179.7
(-3)
P 		182.2
(-2.9)
P 		234
C 451.1
(3)
P 		250.5
(-0.8)
P 		398.4
(2)
P 		136.5
(-3)
P 		315
avr 447.2
(3) 		264.8
(-0.6) 		275
(-0.4) 		145.8
(-3) 		301

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 368
1 2 3 4 5 6 range
A 230.1
(-2)
P 		463.8
(3)
P 		197.9
(-2.7)
P 		182.9
(-3)
P 		223.2
(-2.1)
P 		185.2
(-3)
P 		281
B 490.7
(3)
P 		413.4
(1.1)
P 		248.6
(-2.8)
P 		241.2
(-3)
P 		255.3
(-2.7)
P 		294.3
(-1.7)
P 		250
C 467.6
(3)
P 		344.9
(0.9)
P 		290.5
(-0.1)
P 		123.1
(-3)
P 		280.4
(-0.3)
P 		205
(-1.6)
P 		345
avr 396.1
(2.7) 		407.4
(3) 		245.7
(-1.3) 		182.4
(-3) 		253
(-1.1) 		228.2
(-1.8) 		225
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172011_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27988
Sequence Type Exemplar sequence
Representative Public ID AV182008 NCBI
Target Description AV182008_rc /REP_DB=TREMBL Accession /GB=AV182008 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk630f12 : 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 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_171678(10), NM_171679(10), NM_171680(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171678 NCBI Caenorhabditis elegans H28G03.2a (H28G03.2) mRNA, complete cds. 10/11 A 
NM_171679 NCBI Caenorhabditis elegans H28G03.2b (H28G03.2) mRNA, complete cds. 10/11 A 
NM_171680 NCBI Caenorhabditis elegans H28G03.2c (H28G03.2) mRNA, complete cds. 10/11 A 
SNAP00000008031 ENSEMBL cdna:SNAP chromosome:CEL140:X:5213976:5215523:1 10/11 None
H28G03.2a ENSEMBL cdna:known chromosome:CEL140:X:5205737:5216175:1 gene:H28G03.2 10/11 A 
H28G03.2c.1 ENSEMBL cdna:known chromosome:CEL140:X:5211102:5215523:1 gene:H28G03.2 10/11 None
H28G03.2b ENSEMBL cdna:known chromosome:CEL140:X:5213803:5215523:1 gene:H28G03.2 10/11 A 
H28G03.2c.2 ENSEMBL cdna:known chromosome:CEL140:X:5214075:5215523:1 gene:H28G03.2 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000008041 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:5215148-5216123(+) 87.53 87.53
Public Domain and Genome References
Ensembl H28G03.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC67404 Hypothetical protein H28G03.2a [Caenorhabditis elegans] ref|NP_741780.1| H28G03.2a [Caenorhabditis elegans] 1.0E-163
blast AAM69106 Hypothetical protein H28G03.2c [Caenorhabditis elegans] ref|NP_741782.1| H28G03.2c [Caenorhabditis elegans] 6.0E-45
blast AAM69105 Hypothetical protein H28G03.2b [Caenorhabditis elegans] ref|NP_741781.1| H28G03.2b [Caenorhabditis elegans] 6.0E-45
blast AAC67404 Hypothetical protein H28G03.2a [Caenorhabditis elegans] ref|NP_741780.1| H28G03.2a [Caenorhabditis elegans] 6.0E-45
Sequence
Target Sequence 
>C. ELEGANS:172011_X_AT
gaagaagccagttgttcaacaaaatccgcaaatgaatcggattaccaacaatttatcgag
catgcttaccaacgcgttgaaggctcaagttagcaaggctcaaaactcgcttaacaacag
tagcccaaccagtactgctccgnnnnnnccagttccatcactgatgagcatcaatattcc
aggcgtccctaaagctggatcatc

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
GAAGAAGCCAGTTGTTCAACAAAAT 204 339 69 Antisense
GGATTACCAACAATTTATCGAGCAT 312 509 107 Antisense
TATCGAGCATGCTTACCAACGCGTT 146 657 122 Antisense
GCTTACCAACGCGTTGAAGGCTCAA 627 303 132 Antisense
GAAGGCTCAAGTTAGCAAGGCTCAA 695 331 147 Antisense
GCAAGGCTCAAAACTCGCTTAACAA 327 319 161 Antisense
AACTCGCTTAACAACAGTAGCCCAA 462 141 172 Antisense
AACAGTAGCCCAACCAGTACTGCTC 345 137 184 Antisense
CCAGTTCCATCACTGATGAGCATCA 32 273 217 Antisense
TGAGCATCAATATTCCAGGCGTCCC 236 569 233 Antisense
CAGGCGTCCCTAAAGCTGGATCATC 519 209 248 Antisense
Sequence Source Affymetrix Proprietary Database