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[175325_at]

Description AU115463_rc /REP_DB=TREMBL Accession /GB=AU115463 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk732h6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_high_8_8 > 50      6grp_highest_nonorm > 51      6grp_total > 22      4grp_total > 61      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 857
1 2 3 4 range
A 773.5
(3)
P 		762.4
(2.9)
P 		544.3
(1)
P 		74.9
(-3)
P 		699
B 858.1
(3)
P 		713.8
(1.9)
P 		474.8
(-0)
P 		102.7
(-3)
P 		755
C 932.1
(3)
P 		616.7
(0.7)
P 		622.3
(0.7)
P 		114.4
(-3)
A 		818
avr 854.6
(3) 		697.6
(1.8) 		547.1
(0.6) 		97.3
(-3) 		757

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 648
1 2 3 4 5 6 range
A 725.3
(2.1)
P 		675.9
(1.7)
P 		817.4
(3)
P 		507.2
(0.1)
P 		381.5
(-1.1)
P 		185.5
(-3)
P 		632
B 833.8
(3)
P 		769.1
(2.3)
P 		817.3
(2.8)
P 		602.6
(0.5)
P 		474.2
(-0.9)
P 		283.2
(-3)
P 		551
C 719.2
(2)
P 		808.5
(3)
P 		607.3
(0.7)
P 		533.9
(-0.1)
P 		438.8
(-1.2)
P 		275.6
(-3)
P 		533
avr 759.4
(3) 		751.2
(2.9) 		747.3
(2.9) 		547.9
(0.5) 		431.5
(-0.8) 		248.1
(-3) 		511
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 298
1 2 3 4 range
A 281.6
(3)
P 		165.5
(0.4)
P 		142.3
(-0.1)
P 		11
(-3)
P 		271
B 273.7
(3)
P 		176.3
(0.7)
P 		110
(-0.9)
P 		21.9
(-3)
P 		252
C 308.5
(3)
P 		177.3
(0.3)
P 		216.9
(1.1)
P 		19.3
(-3)
A 		289
avr 287.9
(3) 		173
(0.5) 		156.4
(0.1) 		17.4
(-3) 		271

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 245
1 2 3 4 5 6 range
A 133.7
(-0.3)
P 		240.4
(3)
P 		178
(1.1)
P 		128.6
(-0.4)
P 		115.1
(-0.9)
P 		45.2
(-3)
P 		195
B 290.1
(3)
P 		256
(1.9)
P 		198.5
(0)
P 		159.6
(-1.2)
P 		192.7
(-0.2)
P 		105.6
(-3)
P 		185
C 266.6
(3)
P 		246.7
(2.3)
P 		154.6
(-0.9)
P 		107.4
(-2.5)
P 		142
(-1.3)
P 		92.3
(-3)
P 		174
avr 230.1
(2.4) 		247.7
(3) 		177
(0.5) 		131.9
(-1.2) 		149.9
(-0.5) 		81
(-3) 		167
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175325_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22094
Sequence Type Exemplar sequence
Representative Public ID AU115463 NCBI
Target Description AU115463_rc /REP_DB=TREMBL Accession /GB=AU115463 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk732h6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_001029760(11), NM_076707(9), NM_076708(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029760 NCBI Caenorhabditis elegans T28B4.1c (T28B4.1) mRNA, complete cds. 11/11 None
NM_076707 NCBI Caenorhabditis elegans T28B4.1b (T28B4.1) mRNA, complete cds. 9/11 A 
NM_076708 NCBI Caenorhabditis elegans T28B4.1a (T28B4.1) mRNA, complete cds. 9/11 A 
GENEFINDER00000042984 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6589806:6595951:1 9/11 None
SNAP00000042980 ENSEMBL cdna:SNAP chromosome:CEL140:X:6595549:6595951:1 9/11 None
T28B4.1c ENSEMBL cdna:known chromosome:CEL140:X:6588755:6596088:1 gene:T28B4.1 11/11 A 
T28B4.1b ENSEMBL cdna:known chromosome:CEL140:X:6590161:6595951:1 gene:T28B4.1 9/11 A 
T28B4.1a ENSEMBL cdna:known chromosome:CEL140:X:6592543:6595951:1 gene:T28B4.1 9/11 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
chrX:6595678-6596014(+) 100.0 100.0
Public Domain and Genome References
Ensembl T28B4.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAT92054 Hypothetical protein T28B4.1c [Caenorhabditis elegans] ref|NP_001024931.1| T28B4.1c [Caenorhabditis elegans] 0.0
blast AAK39308 Hypothetical protein T28B4.1b [Caenorhabditis elegans] ref|NP_509108.1| T28B4.1b [Caenorhabditis elegans] 0.0
blast AAK39309 Hypothetical protein T28B4.1a [Caenorhabditis elegans] ref|NP_509109.1| T28B4.1a [Caenorhabditis elegans] 0.0
blast CAE65756 Hypothetical protein CBG10845 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.4E-11
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.4E-11
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.4E-11
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.4E-11
Sequence
Target Sequence 
>C. ELEGANS:175325_AT
agtaaattcattgacgtgctccgtatgaaatgtctcatgcttcattcaattgttctttcc
gatgggcaatactatgaactggtgcgtagcaactttgagagggcagatcgaatgtcggtt
gttaggacaacagaaatgtgccgtactggactacttcattgctccagatacttcaataaa
cttctctttaactgaacactctcacttttatcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTAAATTCATTGACGTGCTCCGTA 692 61 36 Antisense
GTGCTCCGTATGAAATGTCTCATGC 511 479 51 Antisense
TGCTTCATTCAATTGTTCTTTCCGA 42 579 73 Antisense
TGTTCTTTCCGATGGGCAATACTAT 61 561 86 Antisense
GCAATACTATGAACTGGTGCGTAGC 52 323 101 Antisense
TGGTGCGTAGCAACTTTGAGAGGGC 491 551 115 Antisense
GAGGGCAGATCGAATGTCGGTTGTT 554 401 134 Antisense
AATGTGCCGTACTGGACTACTTCAT 476 161 170 Antisense
ACTACTTCATTGCTCCAGATACTTC 162 101 185 Antisense
AACTTCTCTTTAACTGAACACTCTC 451 139 214 Antisense
AACTGAACACTCTCACTTTTATCCT 285 143 225 Antisense
Sequence Source Affymetrix Proprietary Database