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[187769_at]

Description T28B4.1 /REP_DB=WormBase Gene ID /WP=CE14321 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:O17344 protein_id:AAB71262.1
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_high_8_8 > 43      6grp_highest_nonorm > 70      6grp_total > 22      4grp_total > 53      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 345
1 2 3 4 range
A 386
(3)
P 		370
(2.6)
P 		270.9
(-0.1)
P 		165.9
(-3)
A 		220
B 452.3
(3)
P 		375.2
(1.7)
P 		321.7
(0.7)
P 		107
(-3)
A 		345
C 385.6
(3)
P 		385.1
(3)
P 		299.7
(0.3)
P 		191.5
(-3)
P 		194
avr 408
(3) 		376.8
(2.3) 		297.4
(0.4) 		154.8
(-3) 		253

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 288
1 2 3 4 5 6 range
A 338.8
(1.8)
P 		377.2
(3)
P 		373
(2.9)
P 		294.5
(0.4)
P 		228.8
(-1.6)
P 		184.1
(-3)
P 		193
B 333.4
(1.2)
P 		337.4
(1.3)
P 		411.6
(3)
P 		238.4
(-0.9)
P 		263
(-0.4)
P 		148.2
(-3)
P 		263
C 358
(2.4)
P 		383.6
(3)
P 		356.4
(2.4)
P 		265.3
(0.3)
P 		287
(0.8)
P 		123.6
(-3)
P 		260
avr 343.4
(2) 		366.1
(2.6) 		380.3
(3) 		266.1
(-0) 		259.6
(-0.2) 		152
(-3) 		228
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 121
1 2 3 4 range
A 140.5
(3)
P 		80.3
(-0.1)
P 		70.8
(-0.6)
P 		24.3
(-3)
A 		116
B 144.2
(3)
P 		92.7
(0.5)
P 		74.5
(-0.4)
P 		22.8
(-3)
A 		121
C 127.7
(3)
P 		110.7
(1.9)
P 		104.5
(1.5)
P 		32.3
(-3)
P 		95
avr 137.5
(3) 		94.6
(0.7) 		83.3
(0.1) 		26.5
(-3) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 62.4
(-1.8)
P 		134.2
(3)
P 		81.2
(-0.6)
P 		74.7
(-1)
P 		69
(-1.4)
P 		44.8
(-3)
P 		89
B 116
(3)
P 		112.3
(2.6)
P 		99.9
(1.4)
P 		63.1
(-2.2)
P 		106.9
(2.1)
P 		55.3
(-3)
P 		61
C 132.7
(3)
P 		117
(2)
P 		90.7
(0.2)
P 		53.3
(-2.2)
P 		92.9
(0.4)
P 		41.4
(-3)
P 		91
avr 103.7
(1.6) 		121.2
(3) 		90.6
(0.5) 		63.7
(-1.7) 		89.6
(0.4) 		47.2
(-3) 		74
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187769_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16029
Sequence Type Exemplar sequence
Representative Public ID T28B4.1 NCBI
Target Description T28B4.1 /REP_DB=WormBase Gene ID /WP=CE14321 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:O17344 protein_id:AAB71262.1
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_001029760(11), NM_076707(11), NM_076708(11)
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. 11/11 A 
NM_076708 NCBI Caenorhabditis elegans T28B4.1a (T28B4.1) mRNA, complete cds. 11/11 A 
GENEFINDER00000042984 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6589806:6595951:1 9/11 None
SNAP00000042979 ENSEMBL cdna:SNAP chromosome:CEL140:X:6592543:6594986:1 11/11 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 11/11 A 
T28B4.1a ENSEMBL cdna:known chromosome:CEL140:X:6592543:6595951:1 gene:T28B4.1 11/11 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:6592542-6594986(+) 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:187769_AT
atggggagtcccattcataaccgatgaacatgttgacgcaatttcatcaaactgtgctca
tctggaatgcctgtgtgtaaactattgcccaaaagtaactggatcttgtttgaaactagt
acttcagagatgcaggaaactgaagacgctatttcttgctcacacaaaactcgacaacaa
cattgtcaaaatggtggactgggagaaaacacgcattgaagagcttgacataaaaggtac
cgaactaaattccgacgcgcttatctcaattctcactcggctccctcatcttcgttggtt
ggacgccagttggttggaatgcatgactgatcaagtattggaagcatggcagaactcaaa
tgcaatgggaagcctgcagttcttgaacatggatacatgtgattcgatcaatgaacaagc
gcttgttgacatgatcaaaagacacgggcaccaattccacggactttgtctggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGGGAGTCCCATTCATAACCGAT 324 49 732 Antisense
AACTGTGCTCATCTGGAATGCCTGT 474 143 781 Antisense
ATGCCTGTGTGTAAACTATTGCCCA 517 41 798 Antisense
TGAAGACGCTATTTCTTGCTCACAC 355 575 872 Antisense
TGCTCACACAAAACTCGACAACAAC 299 579 888 Antisense
TACCGAACTAAATTCCGACGCGCTT 354 647 969 Antisense
CTCCCTCATCTTCGTTGGTTGGACG 130 235 1012 Antisense
GTTGGACGCCAGTTGGTTGGAATGC 192 437 1029 Antisense
GCAATGGGAAGCCTGCAGTTCTTGA 547 321 1093 Antisense
CAAAAGACACGGGCACCAATTCCAC 603 189 1167 Antisense
CCAATTCCACGGACTTTGTCTGGGA 375 277 1182 Antisense
Sequence Source Affymetrix Proprietary Database