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[180388_s_at]

Description T04B8.5 /REP_DB=WormBase Gene ID /WP=CE18193 /TR=O44846 /GB=AAB95011.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 04      4grp_highest_8_8 > 08      4grp_high_8_8 > 52      6grp_highest_nonorm > 51      6grp_total > 14      4grp_total > 51      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 478
1 2 3 4 range
A 604.2
(-0.1)
P 		746.9
(2.4)
P 		780.2
(3)
P 		434.1
(-3)
P 		346
B 588.5
(0.7)
P 		746.6
(3)
P 		681.4
(2.1)
P 		325.4
(-3)
P 		421
C 546.4
(0.2)
P 		754.1
(3)
P 		632.6
(1.4)
P 		302.3
(-3)
P 		452
avr 579.7
(0.4) 		749.2
(3) 		698.1
(2.2) 		353.9
(-3) 		395

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 502
1 2 3 4 5 6 range
A 773.3
(3)
P 		592.9
(-0.4)
P 		517.3
(-1.9)
P 		585.4
(-0.6)
P 		519.3
(-1.8)
P 		457.7
(-3)
P 		316
B 736.4
(1.8)
P 		829.6
(3)
P 		586.2
(-0.2)
P 		545.4
(-0.7)
P 		504.7
(-1.2)
P 		370.1
(-3)
P 		460
C 791.3
(3)
P 		631.2
(0.9)
P 		699.5
(1.8)
P 		531.5
(-0.4)
P 		525.7
(-0.4)
P 		327.2
(-3)
P 		464
avr 767
(3) 		684.6
(1.7) 		601
(0.4) 		554.1
(-0.3) 		516.6
(-0.9) 		385
(-3) 		382
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 170
1 2 3 4 range
A 220
(3)
P 		162.1
(0.8)
P 		204
(2.4)
P 		63.5
(-3)
P 		157
B 187.7
(3)
P 		184.4
(2.8)
P 		157.9
(1.5)
P 		69.4
(-3)
P 		118
C 180.9
(1.6)
P 		216.8
(2.9)
P 		220.5
(3)
P 		51
(-3)
P 		170
avr 196.2
(3) 		187.8
(2.6) 		194.1
(2.9) 		61.3
(-3) 		135

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 186
1 2 3 4 5 6 range
A 142.5
(-1.1)
P 		210.9
(3)
P 		112.7
(-2.9)
P 		148.5
(-0.8)
P 		156.7
(-0.3)
P 		111.4
(-3)
P 		100
B 256.2
(2.1)
P 		276.1
(3)
P 		142.3
(-2.8)
P 		144.5
(-2.7)
P 		205.1
(-0.1)
P 		138
(-3)
P 		138
C 293.3
(3)
P 		192.6
(-0.2)
P 		178
(-0.7)
P 		106.9
(-3)
P 		170.1
(-1)
P 		109.5
(-2.9)
P 		186
avr 230.7
(3) 		226.5
(2.8) 		144.3
(-1.7) 		133.3
(-2.3) 		177.3
(0.1) 		119.6
(-3) 		111
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180388_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4217
Sequence Type Exemplar sequence
Representative Public ID T04B8.5 NCBI
Target Description T04B8.5 /REP_DB=WormBase Gene ID /WP=CE18193 /TR=O44846 /GB=AAB95011.1 /SUBMIT=ST.LOUIS /CHR=2 /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_001027135(11), NM_001027134(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027135 NCBI Caenorhabditis elegans T04B8.5b (T04B8.5) mRNA, complete cds. 11/11 None
NM_001027134 NCBI Caenorhabditis elegans T04B8.5a (T04B8.5) mRNA, complete cds. 11/11 None
SNAP00000021876 ENSEMBL cdna:SNAP chromosome:CEL140:II:614959:620708:-1 11/11 None
GENEFINDER00000021885 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:614959:624546:-1 11/11 None
T04B8.5b ENSEMBL cdna:known chromosome:CEL140:II:614773:621321:-1 gene:T04B8.5 11/11 A 
T04B8.5a ENSEMBL cdna:known chromosome:CEL140:II:614959:624549:-1 gene:T04B8.5 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
chrII:614958-624546(-) 100.0 100.0
Public Domain and Genome References
Ensembl T04B8.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAT81190 Hypothetical protein T04B8.5b [Caenorhabditis elegans] ref|NP_001022306.1| T04B8.5b [Caenorhabditis elegans] 0.0
blast AAB95011 Hypothetical protein T04B8.5a [Caenorhabditis elegans] ref|NP_001022305.1| T04B8.5a [Caenorhabditis elegans] 0.0
blast CAE62896 Hypothetical protein CBG07084 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.2E-13
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.7E-39
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.2E-13
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.7E-39
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.6E-9
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.7E-39
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022306.1 12 69-91,98-120,150-172,193-215,219-238,307-326,346-368,381-403,434-453,460-479,494-513,520-539
NP_001022305.1 12 82-104,111-133,163-185,206-228,232-251,320-339,359-381,394-416,447-466,473-492,507-526,533-552
T04B8.5b 12 69-91,98-120,150-172,193-215,219-238,307-326,346-368,381-403,434-453,460-479,494-513,520-539
T04B8.5a 12 82-104,111-133,163-185,206-228,232-251,320-339,359-381,394-416,447-466,473-492,507-526,533-552
SNAP00000021876 11 7-29,39-61,81-103,108-130,197-216,236-258,271-293,324-343,350-369,384-403,410-429
GENEFINDER00000021885 12 82-104,111-133,163-185,206-228,232-251,320-339,359-381,394-416,447-466,473-492,507-526,533-552
Sequence
Target Sequence 
>C. ELEGANS:180388_S_AT
gaacctatgtgtagcccgacacttttcgaaattagataaggaagcgttggcgagggggtg
gaatggtcagaagcgatatattgatgtttggcctgtagacttgcagaagccacaggaaac
tggacttggctgggataatagctccctcttcctgctccaactctcatgcatcttgtcaat
gtcgtcccgctggaggtcctacacaaaactccgagtcttcatctgcgtcaactcccttca
agacatgcatcggcgggagagacagctcaagaatatgcttcaaactttgagaattgaagg
agaatcttctgtggttccgtgggatcatgttgtgtgtcattatcagccaccgaatgcaac
agcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACCTATGTGTAGCCCGACACTTT 220 345 2268 Antisense
GGCCTGTAGACTTGCAGAAGCCACA 447 543 2357 Antisense
GGCTGGGATAATAGCTCCCTCTTCC 308 539 2395 Antisense
TCATGCATCTTGTCAATGTCGTCCC 216 621 2431 Antisense
GTCCTACACAAAACTCCGAGTCTTC 657 473 2463 Antisense
GTCAACTCCCTTCAAGACATGCATC 142 465 2494 Antisense
GACATGCATCGGCGGGAGAGACAGC 429 369 2509 Antisense
GAAGGAGAATCTTCTGTGGTTCCGT 337 333 2563 Antisense
GGTTCCGTGGGATCATGTTGTGTGT 187 507 2580 Antisense
GTTGTGTGTCATTATCAGCCACCGA 229 437 2596 Antisense
ATCAGCCACCGAATGCAACAGCAAG 319 29 2609 Antisense
Sequence Source Affymetrix Proprietary Database