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[183789_s_at]

Description T09E8.1B /REP_DB=WormBase Gene ID /WP=CE23960 /TR=P90906 /GB=CAB54297.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 58      6grp_high1_10_10 > 75      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 57      6grp_total > 75      4grp_total > 46      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1023
1 2 3 4 range
A 2270
(3)
P 		2047
(1.1)
P 		1547.8
(-3)
P 		1843.7
(-0.5)
P 		722
B 2570.6
(3)
P 		1775.1
(-2.3)
P 		1665.1
(-3)
P 		1715.4
(-2.7)
P 		906
C 2434.1
(3)
P 		1829.2
(-1.7)
P 		1737.2
(-2.4)
P 		1655.7
(-3)
P 		778
avr 2424.9
(3) 		1883.8
(-1.2) 		1650
(-3) 		1738.3
(-2.3) 		775

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1040
1 2 3 4 5 6 range
A 1930
(-2)
P 		2487.4
(1.3)
P 		1754.2
(-3)
P 		2615.1
(2.1)
P 		1774.5
(-2.9)
P 		2775.4
(3)
P 		1021
B 1735.6
(-3)
P 		2020.2
(0)
P 		2288.5
(2.9)
P 		2224.8
(2.2)
P 		2074.5
(0.6)
P 		2300.5
(3)
P 		565
C 1990.1
(-3)
P 		2041.4
(-2.4)
P 		2439
(1.8)
P 		2475.1
(2.2)
P 		2298.4
(0.3)
P 		2548.2
(3)
P 		558
avr 1885.2
(-3) 		2183
(-0.3) 		2160.6
(-0.5) 		2438.3
(2.1) 		2049.1
(-1.5) 		2541.4
(3) 		656
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 557
1 2 3 4 range
A 826.5
(3)
P 		444.4
(-1.1)
P 		404.6
(-1.5)
P 		269.9
(-3)
P 		557
B 819.7
(3)
P 		438.4
(-2)
P 		385.8
(-2.7)
P 		365.6
(-3)
P 		454
C 805.7
(3)
P 		525.9
(-0.2)
P 		605.5
(0.7)
P 		279.2
(-3)
P 		527
avr 817.3
(3) 		469.6
(-1.1) 		465.3
(-1.1) 		304.9
(-3) 		512

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 529
1 2 3 4 5 6 range
A 355.8
(-3)
P 		884.7
(3)
P 		382
(-2.7)
P 		663.2
(0.5)
P 		535.5
(-1)
P 		675.7
(0.6)
P 		529
B 603.9
(-2)
P 		672.4
(-0.7)
P 		555.7
(-3)
P 		589.3
(-2.3)
P 		842.8
(2.7)
P 		857.8
(3)
P 		302
C 737.7
(1.1)
P 		622.9
(-0.9)
P 		620.8
(-0.9)
P 		497.7
(-3)
P 		743.7
(1.2)
P 		853
(3)
P 		355
avr 565.8
(-2) 		726.7
(1.5) 		519.5
(-3) 		583.4
(-1.6) 		707.3
(1.1) 		795.5
(3) 		276
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183789_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13155
Sequence Type Exemplar sequence
Representative Public ID T09E8.1B NCBI
Target Description T09E8.1B /REP_DB=WormBase Gene ID /WP=CE23960 /TR=P90906 /GB=CAB54297.1 /SUBMIT=HINXTON /CHR=5 /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_182399(11), NM_073874(11), NM_073875(11), NM_182401(11), NM_182400(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182399 NCBI Caenorhabditis elegans T09E8.1c (T09E8.1) mRNA, complete cds. 11/11 None
NM_073874 NCBI Caenorhabditis elegans T09E8.1b (T09E8.1) mRNA, complete cds. 11/11 None
NM_073875 NCBI Caenorhabditis elegans T09E8.1a (T09E8.1) mRNA, complete cds. 11/11 None
NM_182401 NCBI Caenorhabditis elegans T09E8.1e (T09E8.1) mRNA, complete cds. 11/11 None
NM_182400 NCBI Caenorhabditis elegans T09E8.1d (T09E8.1) mRNA, complete cds. 11/11 None
SNAP00000032122 ENSEMBL cdna:SNAP chromosome:CEL140:V:13175438:13178174:1 11/11 None
GENEFINDER00000032130 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13175417:13178174:1 11/11 None
T09E8.1c ENSEMBL cdna:known chromosome:CEL140:V:13158417:13178732:1 gene:T09E8.1 11/11 None
T09E8.1b ENSEMBL cdna:known chromosome:CEL140:V:13162161:13178174:1 gene:T09E8.1 11/11 None
T09E8.1a ENSEMBL cdna:known chromosome:CEL140:V:13164076:13178174:1 gene:T09E8.1 11/11 None
T09E8.1e ENSEMBL cdna:known chromosome:CEL140:V:13170127:13178174:1 gene:T09E8.1 11/11 None
T09E8.1d ENSEMBL cdna:known chromosome:CEL140:V:13175201:13178174:1 gene:T09E8.1 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
chrV:13162318-13178174(+) 97.55 100.0
Public Domain and Genome References
Ensembl T09E8.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD54149 Hypothetical protein T09E8.1c [Caenorhabditis elegans] emb|CAD54155.1| Hypothetical protein T09E8.1c [Caenorhabditis elegans] ref|NP_872199.1| T09E8.1c [Caenorhabditis elegans] 0.0
blast CAB54265 Hypothetical protein T09E8.1a [Caenorhabditis elegans] emb|CAB54298.2| Hypothetical protein T09E8.1a [Caenorhabditis elegans] ref|NP_506276.2| T09E8.1a [Caenorhabditis elegans] 0.0
blast CAB54264 Hypothetical protein T09E8.1b [Caenorhabditis elegans] emb|CAB54297.2| Hypothetical protein T09E8.1b [Caenorhabditis elegans] ref|NP_506275.2| T09E8.1b [Caenorhabditis elegans] 0.0
blast G89260 protein T09E8.1 [imported] - Caenorhabditis elegans 0.0
blast CAD54150 Hypothetical protein T09E8.1e [Caenorhabditis elegans] emb|CAD54156.1| Hypothetical protein T09E8.1e [Caenorhabditis elegans] ref|NP_872201.1| T09E8.1e [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 8.0
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 7.59999990463257
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 5.59999990463257
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 3.70000004768372
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 2.70000004768372
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 2.29999995231628
Sequence
Target Sequence 
>C. ELEGANS:183789_S_AT
aacaccgcttgctgatgagatggagattatgtcagatatccgaccatcactcgccagacc
atacaccaaggctcattcgacactcgggtcccacaatatgtcaccactatcgcactcaaa
gtccagtggattaacgaagagtttttcgaattttgcgctcaactcatctaaacagcgtga
tgatatcaccgccaatatgagccgatcgattcgtgaacaaaaccgtcacataacaatgtg
tagagctatggttgtttgtctgaaggatacggtagaccgaatggcacgtggagagaatcc
tgatgttgctcgtctgctcggtgtcaagttgaatgtgatgtctgaaagtgaaatggaaga
tgatgaagatcatgaggctgatgcatcacaaccgttttcaatgatgtctgctgaatcagc
gctctcgaagcaatgcggaaaactcgctgatctcgataaagacctagatacaattcgctg
tcaactcgcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACACCGCTTGCTGATGAGATGGAG 528 133 1869 Antisense
ATGTCAGATATCCGACCATCACTCG 11 49 1897 Antisense
GACCATACACCAAGGCTCATTCGAC 336 383 1925 Antisense
TCGACACTCGGGTCCCACAATATGT 408 601 1945 Antisense
CACAATATGTCACCACTATCGCACT 64 191 1960 Antisense
GAATTTTGCGCTCAACTCATCTAAA 512 325 2016 Antisense
ATCACCGCCAATATGAGCCGATCGA 22 27 2053 Antisense
AGAGAATCCTGATGTTGCTCGTCTG 516 69 2160 Antisense
TCGTCTGCTCGGTGTCAAGTTGAAT 360 605 2178 Antisense
TGAGGCTGATGCATCACAACCGTTT 342 567 2241 Antisense
GATACAATTCGCTGTCAACTCGCAG 486 423 2335 Antisense
Sequence Source Affymetrix Proprietary Database