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[192112_s_at]

Description C28H8.11 /REP_DB=WormBase Gene ID /WP=CE01822 /TR=SW:Q09474 /GB=AAA62299.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=tryptophan 2,3-dioxygenase
Cluster 6grp_highest_10_10 > 27      6grp_high1_10_10 > 61      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 34      6grp_total > 71      4grp_total > 25      6grp_highest_sub > 03_04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3755
1 2 3 4 range
A 1296.4
(-3)
P 		3780.7
(1.3)
P 		3596.5
(1)
P 		4751.5
(3)
P 		3455
B 1164.1
(-3)
P 		3155.5
(0.6)
P 		3110.4
(0.5)
P 		4518.1
(3)
P 		3354
C 996.3
(-3)
P 		2812.3
(0)
P 		3339.8
(0.9)
P 		4604.8
(3)
P 		3609
avr 1152.3
(-3) 		3249.5
(0.6) 		3348.9
(0.8) 		4624.8
(3) 		3473

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3402
1 2 3 4 5 6 range
A 1793.2
(-2.3)
P 		1984.7
(-1.8)
P 		3734.6
(2.6)
P 		3878.9
(3)
P 		2416.9
(-0.7)
P 		1504.8
(-3)
P 		2374
B 1527.6
(-3)
P 		2661.2
(-0.2)
P 		3928.1
(3)
P 		3930.5
(3)
P 		2368.5
(-0.9)
P 		1953.4
(-1.9)
P 		2403
C 1095.4
(-3)
P 		2810.7
(0)
P 		3138.1
(0.6)
P 		4497.7
(3)
P 		1811.1
(-1.7)
P 		1666.7
(-2)
P 		3402
avr 1472.1
(-3) 		2485.5
(-0.7) 		3600.3
(1.9) 		4102.4
(3) 		2198.8
(-1.3) 		1708.3
(-2.5) 		2630
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 834
1 2 3 4 range
A 472
(-3)
P 		820.7
(1.5)
P 		940.2
(3)
P 		695.5
(-0.1)
P 		468
B 371.2
(-3)
P 		779.3
(1.1)
P 		720.7
(0.5)
P 		962.8
(3)
P 		592
C 329.8
(-3)
P 		808.6
(0.4)
P 		1164
(3)
P 		776.4
(0.2)
P 		834
avr 391
(-3) 		802.9
(1.5) 		941.6
(3) 		811.6
(1.6) 		551

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 711
1 2 3 4 5 6 range
A 330.6
(-3)
P 		705.9
(0.4)
P 		813.3
(1.4)
P 		983.8
(3)
P 		729.3
(0.7)
P 		366.4
(-2.7)
P 		653
B 531.5
(-3)
P 		885.8
(1.2)
P 		953.9
(2)
P 		1041.1
(3)
P 		962.3
(2.1)
P 		728.4
(-0.7)
P 		510
C 406
(-3)
P 		857.6
(2.4)
P 		798.7
(1.7)
P 		904.5
(3)
P 		586
(-0.8)
P 		557.9
(-1.2)
P 		499
avr 422.7
(-3) 		816.4
(1.3) 		855.3
(1.7) 		976.5
(3) 		759.2
(0.6) 		550.9
(-1.6) 		554
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192112_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7826
Sequence Type Exemplar sequence
Representative Public ID C28H8.11 NCBI
Target Description C28H8.11 /REP_DB=WormBase Gene ID /WP=CE01822 /TR=SW:Q09474 /GB=AAA62299.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=tryptophan 2,3-dioxygenase
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_065883(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065883 NCBI Caenorhabditis elegans C28H8.11a (C28H8.11) mRNA, complete cds. 11/11 None
SNAP00000005436 ENSEMBL cdna:SNAP chromosome:CEL140:III:5917659:5919900:-1 11/11 None
GENEFINDER00000005444 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5917659:5919900:-1 11/11 None
C28H8.11a ENSEMBL cdna:known chromosome:CEL140:III:5917589:5919900:-1 gene:C28H8.11 11/11 None
C28H8.11b.1 ENSEMBL cdna:known chromosome:CEL140:III:5917612:5919904:-1 gene:C28H8.11 10/11 None
C28H8.11b.2 ENSEMBL cdna:known chromosome:CEL140:III:5917612:5919925:-1 gene:C28H8.11 10/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175836 2 1 NM_065883 192112_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5917657-5919899(-) 100.0 100.0
Public Domain and Genome References
Ensembl C28H8.11
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498284 C28H8.11a [Caenorhabditis elegans] gb|AAA62299.1| Hypothetical protein C28H8.11a [Caenorhabditis elegans] sp|Q09474|T23O_CAEEL Putative tryptophan 2,3-dioxygenase (Tryptophan pyrrolase) (Tryptophanase) (Tryptophan oxygenase) (Tryptamin 2,3-dioxygenase) (TRPO) 0.0
blast CAE64359 Hypothetical protein CBG09046 [Caenorhabditis briggsae] 0.0
blast NP_871645 C28H8.11b [Caenorhabditis elegans] gb|AAN63440.1| Hypothetical protein C28H8.11b [Caenorhabditis elegans] 1.0E-137
Protein Domains
Database ID Description E-Value
scop a.4.5.Replication terminator protein (RTP) All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Replication terminator protein (RTP) 3.90000009536743
scop a.4.5.Replication terminator protein (RTP) All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Replication terminator protein (RTP) 9.0
Pfam IPR004981 EMBL-EBI Tryptophan 2,3-dioxygenase 1.0E-126
Pfam IPR004981 EMBL-EBI Tryptophan 2,3-dioxygenase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:192112_S_AT
gaaacaagcagcggacccatcaaacacggaggagattgccaagcaactgacggccgaata
tcataaaactgcggatgctttccagtcaatcttggacccaaggcaacatgaacaacatat
tagaaatggaaatcgtcttctctcccatgatgctacaaaaggagccatgatgatctactt
ctaccgtgacatgccacgtttctcacagccatatcagatccttacattcctgatggatat
cgacagtttgttcacaaagtggagatacaaccacgtgcttcttgtacaaagaatgctggg
tgctaaacaaggaaccggtggctcatcaggatacatgtaccttcgttcaacagtcagtga
ccgttacaaagtattcttagatctattcaatttatcaacatggttgattccacgtgaata
cattccaatgctttctcctcgaatggtcaaaactctttccgaacattc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACAAGCAGCGGACCCATCAAAC 57 357 720 Antisense
GCTTTCCAGTCAATCTTGGACCCAA 13 305 796 Antisense
TCTTCTCTCCCATGATGCTACAAAA 400 617 855 Antisense
CATGATGATCTACTTCTACCGTGAC 259 211 885 Antisense
CTACCGTGACATGCCACGTTTCTCA 470 225 900 Antisense
GTTTCTCACAGCCATATCAGATCCT 289 451 917 Antisense
ACAAGGAACCGGTGGCTCATCAGGA 523 111 1026 Antisense
GTACCTTCGTTCAACAGTCAGTGAC 69 459 1056 Antisense
GAATACATTCCAATGCTTTCTCCTC 361 327 1135 Antisense
TGCTTTCTCCTCGAATGGTCAAAAC 16 579 1148 Antisense
TGGTCAAAACTCTTTCCGAACATTC 15 553 1163 Antisense
Sequence Source Affymetrix Proprietary Database