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[181524_at]

Description T28B4.4 /REP_DB=WormBase Gene ID /WP=CE14327 /TR=O17346 /GB=AAK39305.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 17      4grp_highest_8_8 > 59      4grp_high_8_8 > 26      6grp_highest_nonorm > 50      6grp_total > 17      4grp_total > 38      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 343
1 2 3 4 range
A 613.6
(3)
P 		408.1
(-1.8)
P 		355.7
(-3)
P 		480.6
(-0.1)
P 		258
B 616.6
(3)
P 		426.6
(-0.9)
P 		361
(-2.2)
P 		321.7
(-3)
P 		295
C 553.6
(3)
P 		469.1
(1.2)
P 		273.8
(-3)
P 		449
(0.8)
P 		280
avr 594.6
(3) 		434.6
(-0.6) 		330.2
(-3) 		417.1
(-1) 		264

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 565
1 2 3 4 5 6 range
A 811.9
(3)
P 		476.6
(-0.6)
P 		454.6
(-0.8)
P 		247.4
(-3)
P 		355.1
(-1.9)
P 		335.6
(-2.1)
P 		565
B 764.8
(3)
P 		534.6
(-0.3)
P 		366.8
(-2.6)
P 		368.4
(-2.6)
P 		340.6
(-3)
P 		427.3
(-1.8)
P 		424
C 724.5
(3)
P 		577.4
(1.1)
P 		360.4
(-1.7)
P 		421.7
(-0.9)
P 		257.2
(-3)
P 		346.9
(-1.8)
P 		467
avr 767.1
(3) 		529.5
(-0.2) 		393.9
(-2) 		345.8
(-2.6) 		317.6
(-3) 		369.9
(-2.3) 		450
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 155
1 2 3 4 range
A 223.4
(3)
P 		88.6
(-2.3)
P 		93
(-2.1)
P 		70.3
(-3)
P 		153
B 196.6
(3)
P 		105.4
(-1.3)
P 		83.7
(-2.3)
P 		68.6
(-3)
P 		128
C 183.2
(3)
P 		134.9
(0.3)
P 		95.4
(-1.9)
P 		75.7
(-3)
P 		108
avr 201.1
(3) 		109.6
(-1.2) 		90.7
(-2.1) 		71.5
(-3) 		130

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 206
1 2 3 4 5 6 range
A 149.7
(1.9)
P 		169.5
(3)
P 		99
(-1)
P 		62.8
(-3)
P 		107.2
(-0.5)
P 		81.7
(-1.9)
P 		107
B 266.1
(3)
P 		178
(0)
P 		89.1
(-3)
P 		97.6
(-2.7)
P 		138.4
(-1.3)
P 		159.3
(-0.6)
P 		177
C 268.5
(3)
P 		176.2
(0)
P 		91.7
(-2.7)
P 		84.8
(-2.9)
P 		83.2
(-3)
P 		116.1
(-1.9)
P 		185
avr 228.1
(3) 		174.6
(0.8) 		93.3
(-2.5) 		81.7
(-3) 		109.6
(-1.9) 		119
(-1.5) 		146
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181524_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16557
Sequence Type Exemplar sequence
Representative Public ID T28B4.4 NCBI
Target Description T28B4.4 /REP_DB=WormBase Gene ID /WP=CE14327 /TR=O17346 /GB=AAK39305.1 /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_076710(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076710 NCBI Caenorhabditis elegans T28B4.4 (T28B4.4) mRNA, complete cds. 10/11 None
SNAP00000042982 ENSEMBL cdna:SNAP chromosome:CEL140:X:6598001:6598656:-1 10/11 None
GENEFINDER00000042983 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6598001:6598830:-1 10/11 None
T28B4.4.1 ENSEMBL cdna:known chromosome:CEL140:X:6597873:6598821:-1 gene:T28B4.4 10/11 None
T28B4.4.2 ENSEMBL cdna:known chromosome:CEL140:X:6597934:6598663:-1 gene:T28B4.4 10/11 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:6598000-6598845(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T28B4.4
Entrez Gene 189029 Entrez gene
SwissProt O17346 EMBL-EBI
WormBase CE33711 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast T32443 hypothetical protein T28B4.4 - Caenorhabditis elegans 7.0E-77
blast AAK39305 Hypothetical protein T28B4.4 [Caenorhabditis elegans] ref|NP_509111.3| T28B4.4 [Caenorhabditis elegans] 5.0E-70
blast AAK39305 Hypothetical protein T28B4.4 [Caenorhabditis elegans] ref|NP_509111.3| T28B4.4 [Caenorhabditis elegans] 8.0E-70
blast T32443 hypothetical protein T28B4.4 - Caenorhabditis elegans 8.0E-66
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509111.3 4 12-34,66-88,101-123,133-155
T28B4.4.1 4 12-34,66-88,101-123,133-155
T28B4.4.2 4 12-34,66-88,101-123,133-155
SNAP00000042982 4 12-34,66-88,101-123,133-155
GENEFINDER00000042983 4 41-63,97-119,132-154,164-186
Sequence
Target Sequence 
>C. ELEGANS:181524_AT
ccattgctggccttctgattattgttacaatactaaccggagtgggaacttttacaaatt
gtaagtttggcaaattgtcgttccctgaaatgcgaaatttattcctagattggggtgttt
ctggaaacttgcacatgggaatttatcaatggggacaggcaggcgcgaacagaagtttcc
aaagaagtgcggggtggctgcaatgtgtcgtggtttgtcaattaatggcattctcatttg
agctcttgttttgtcttcttgtcatacctgcaatagttttccgaagaatgatgccggttc
atgcagcgtgtactcttctctccttgatcatattcattttacttcttatttccatcattg
tattcgcggcaaatattggaagcttctattacaacgcattgatttcgttaaagctcggat
ggtcatggggaatcactttggctgctacaattctttcatttct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCATTGCTGGCCTTCTGATTATTGT 179 271 152 Antisense
GTTTGGCAAATTGTCGTTCCCTGAA 237 451 216 Antisense
ATTTGAGCTCTTGTTTTGTCTTCTT 147 19 387 Antisense
TTTGTCTTCTTGTCATACCTGCAAT 198 667 401 Antisense
AATGATGCCGGTTCATGCAGCGTGT 282 165 438 Antisense
CTCTTCTCTCCTTGATCATATTCAT 45 231 464 Antisense
ATTCATTTTACTTCTTATTTCCATC 612 11 483 Antisense
TATTTCCATCATTGTATTCGCGGCA 144 663 498 Antisense
TGGAAGCTTCTATTACAACGCATTG 307 547 528 Antisense
GGTCATGGGGAATCACTTTGGCTGC 93 493 572 Antisense
TGGCTGCTACAATTCTTTCATTTCT 270 545 590 Antisense
Sequence Source Affymetrix Proprietary Database