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[180703_at]

Description T28B4.3 /REP_DB=WormBase Gene ID /WP=CE14325 /TR=O17345 /GB=AAK39307.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 92      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_highest_nonorm > 68      6grp_total > 94      4grp_total > 45      6grp_high1_sub > 04_05      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 838
1 2 3 4 range
A 1917.4
(3)
P 		1917.5
(3)
P 		1599.8
(-0.2)
P 		1323.8
(-3)
P 		594
B 2143.2
(3)
P 		1640.6
(-0.9)
P 		1375.4
(-2.9)
P 		1365.5
(-3)
P 		778
C 1908.3
(3)
P 		1741.2
(1.3)
P 		1473.2
(-1.3)
P 		1305.2
(-3)
P 		603
avr 1989.6
(3) 		1766.4
(1) 		1482.8
(-1.6) 		1331.5
(-3) 		658

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1033
1 2 3 4 5 6 range
A 1862.7
(-1.1)
P 		1589.9
(-3)
P 		2014.8
(-0)
P 		2257.8
(1.6)
P 		2451.9
(3)
P 		1792.8
(-1.6)
P 		862
B 1976.7
(-0.8)
P 		1598.6
(-3)
P 		1631.4
(-2.8)
P 		2134.6
(0.1)
P 		2623
(3)
P 		2420
(1.8)
P 		1024
C 1794.3
(-1.5)
P 		1759.1
(-1.9)
P 		1653
(-3)
P 		2168
(2.4)
P 		2225.9
(3)
P 		2160.3
(2.3)
P 		573
avr 1877.9
(-1.3) 		1649.2
(-3) 		1766.4
(-2.1) 		2186.8
(1.1) 		2433.6
(3) 		2124.4
(0.6) 		784
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 504
1 2 3 4 range
A 698.1
(3)
P 		416.2
(-0.4)
P 		418.2
(-0.3)
P 		193.8
(-3)
P 		504
B 683.5
(3)
P 		405.2
(-1.3)
P 		318.7
(-2.6)
P 		291
(-3)
P 		393
C 631.7
(3)
P 		500.6
(1.1)
P 		513.5
(1.3)
P 		220.1
(-3)
P 		412
avr 671.1
(3) 		440.7
(-0.2) 		416.8
(-0.5) 		235
(-3) 		436

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 722
1 2 3 4 5 6 range
A 343.4
(-3)
P 		565.4
(0.4)
P 		438.8
(-1.6)
P 		572.6
(0.5)
P 		739.9
(3)
P 		436.5
(-1.6)
P 		397
B 687.8
(-0.4)
P 		532.1
(-1.8)
P 		396.2
(-3)
P 		565.4
(-1.5)
P 		1065.7
(3)
P 		902.4
(1.5)
P 		670
C 665.1
(1.8)
P 		536.7
(-0.7)
P 		420.7
(-3)
P 		436
(-2.7)
P 		720.3
(2.9)
P 		723.2
(3)
P 		303
avr 565.4
(-0.9) 		544.7
(-1.2) 		418.6
(-3) 		524.7
(-1.5) 		842
(3) 		687.4
(0.8) 		423
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180703_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16429
Sequence Type Exemplar sequence
Representative Public ID T28B4.3 NCBI
Target Description T28B4.3 /REP_DB=WormBase Gene ID /WP=CE14325 /TR=O17345 /GB=AAK39307.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=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_076709(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076709 NCBI Caenorhabditis elegans T28B4.3 (T28B4.3) mRNA, complete cds. 11/11 None
SNAP00000042981 ENSEMBL cdna:SNAP chromosome:CEL140:X:6596525:6597072:-1 11/11 None
GENEFINDER00000042985 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6596525:6597072:-1 11/11 None
T28B4.3.2 ENSEMBL cdna:known chromosome:CEL140:X:6596466:6597076:-1 gene:T28B4.3 11/11 None
T28B4.3.1 ENSEMBL cdna:known chromosome:CEL140:X:6596479:6597076:-1 gene:T28B4.3 11/11 None
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:6596524-6597072(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T28B4.3
Entrez Gene 189028 Entrez gene
SwissProt O17345 EMBL-EBI
WormBase CE14325 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK39307 Hypothetical protein T28B4.3 [Caenorhabditis elegans] ref|NP_509110.1| T28B4.3 [Caenorhabditis elegans] 1.0E-64
blast CAE65757 Hypothetical protein CBG10846 [Caenorhabditis briggsae] 9.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 6.0E-74
Sequence
Target Sequence 
>C. ELEGANS:180703_AT
tgcgttcagttcttattgtttgtgcacttttcggcgttgctgcctccatcgaaatgtttg
gtcgcgatcagtcttctgctgttcgtggaaagttgatttgtgatggtcgaccagcttctg
gagttttggtaaaactgtgggataaggatactttggattctgatgatcttctcgattctg
gaaccacggatggaaatggagacttccaccttgccggatggactaaggaatataccccaa
ttgacgtcaagctgaacatctaccacgactgcaatgacggaattaagccatgccagagaa
agtttggaatcaagatcccagattcttacacctcgtcaggaaaggtcccaaagaaggttt
atgacgctggagttattcaacttgccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCGTTCAGTTCTTATTGTTTGTGC 580 583 14 Antisense
TATTGTTTGTGCACTTTTCGGCGTT 398 663 27 Antisense
TTGCTGCCTCCATCGAAATGTTTGG 498 701 50 Antisense
AAATGTTTGGTCGCGATCAGTCTTC 238 121 65 Antisense
TCAGTCTTCTGCTGTTCGTGGAAAG 19 623 81 Antisense
TGTGATGGTCGACCAGCTTCTGGAG 361 555 112 Antisense
TGATCTTCTCGATTCTGGAACCACG 371 565 177 Antisense
GAATATACCCCAATTGACGTCAAGC 107 327 241 Antisense
TCAAGCTGAACATCTACCACGACTG 704 631 260 Antisense
TCAAGATCCCAGATTCTTACACCTC 597 631 323 Antisense
GACGCTGGAGTTATTCAACTTGCCG 171 379 376 Antisense
Sequence Source Affymetrix Proprietary Database