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[178078_at]

Description T12D8.9 /REP_DB=WormBase Gene ID /WP=CE16406 /TR=O45785 /GB=CAB05819.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 14      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 31      6grp_total > 04      4grp_total > 53      6grp_highest_sub > De      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1079
1 2 3 4 range
A 1273.1
(3)
P 		743.9
(-0.5)
P 		640.1
(-1.2)
P 		366
(-3)
P 		907
B 1241.1
(3)
P 		864.3
(0.3)
P 		908.1
(0.6)
P 		409.5
(-3)
P 		832
C 1398
(3)
P 		923.4
(0.4)
P 		859.5
(0)
P 		319.1
(-3)
P 		1079
avr 1304.1
(3) 		843.9
(0.1) 		802.6
(-0.2) 		364.9
(-3) 		939

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 747
1 2 3 4 5 6 range
A 1019.3
(0.6)
P 		1300.4
(3)
P 		609.9
(-3)
P 		770.8
(-1.6)
P 		845.4
(-1)
P 		706.1
(-2.2)
P 		691
B 1100.4
(3)
P 		1055.6
(2.5)
P 		808.2
(-0.3)
P 		877.4
(0.5)
P 		775.9
(-0.6)
P 		562.3
(-3)
P 		538
C 1309.5
(3)
P 		1037.8
(0.8)
P 		1024.4
(0.7)
P 		818.8
(-1)
P 		893
(-0.4)
P 		565.6
(-3)
P 		744
avr 1143.1
(3) 		1131.3
(2.9) 		814.2
(-0.7) 		822.3
(-0.6) 		838.1
(-0.4) 		611.3
(-3) 		532
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 410
1 2 3 4 range
A 463.5
(3)
P 		161.5
(-1.4)
P 		167.3
(-1.3)
P 		53.6
(-3)
P 		410
B 395.8
(3)
P 		213.5
(-0.5)
P 		210.4
(-0.6)
P 		87.3
(-3)
P 		309
C 462.8
(3)
P 		265.5
(0.1)
P 		299.6
(0.6)
P 		53.8
(-3)
P 		409
avr 440.7
(3) 		213.5
(-0.6) 		225.8
(-0.4) 		64.9
(-3) 		376

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 353
1 2 3 4 5 6 range
A 187.9
(-2)
P 		462.5
(3)
P 		132.8
(-3)
P 		195.5
(-1.9)
P 		255.1
(-0.8)
P 		171.9
(-2.3)
P 		330
B 382.9
(3)
P 		351.4
(2)
P 		196.3
(-3)
P 		232.4
(-1.8)
P 		315.2
(0.8)
P 		209.7
(-2.6)
P 		187
C 485.4
(3)
P 		316.7
(-0.2)
P 		260.7
(-1.2)
P 		164.7
(-3)
P 		289
(-0.7)
P 		189.3
(-2.5)
P 		321
avr 352.1
(2.2) 		376.9
(3) 		196.6
(-2.8) 		197.5
(-2.8) 		286.4
(0.1) 		190.3
(-3) 		187
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178078_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7996
Sequence Type Exemplar sequence
Representative Public ID T12D8.9 NCBI
Target Description T12D8.9 /REP_DB=WormBase Gene ID /WP=CE16406 /TR=O45785 /GB=CAB05819.1 /SUBMIT=HINXTON /CHR=3 /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_001027588(11), NM_001027587(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027588 NCBI Caenorhabditis elegans T12D8.9b (T12D8.9) mRNA, complete cds. 11/11 None
NM_001027587 NCBI Caenorhabditis elegans T12D8.9a (T12D8.9) mRNA, complete cds. 11/11 None
SNAP00000041261 ENSEMBL cdna:SNAP chromosome:CEL140:III:13618085:13620800:1 11/11 None
T12D8.9b ENSEMBL cdna:known chromosome:CEL140:III:13616621:13620957:1 gene:T12D8.9 11/11 None
T12D8.9a ENSEMBL cdna:known chromosome:CEL140:III:13616652:13620800:1 gene:T12D8.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000041281 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:13617708-13620796(+) 94.82 100.0
Public Domain and Genome References
Ensembl T12D8.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH10815 Hypothetical protein T12D8.9b [Caenorhabditis elegans] emb|CAH10791.1| Hypothetical protein T12D8.9b [Caenorhabditis elegans] ref|NP_001022759.1| T12D8.9b [Caenorhabditis elegans] 0.0
blast CAB03350 Hypothetical protein T12D8.9a [Caenorhabditis elegans] emb|CAB05819.3| Hypothetical protein T12D8.9a [Caenorhabditis elegans] ref|NP_001022758.1| T12D8.9a [Caenorhabditis elegans] 0.0
blast CAE71351 Hypothetical protein CBG18254 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.Helicase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Helicase DNA-binding domain 0.0230000000447035
Pfam IPR003367 EMBL-EBI Thrombospondin type 3 repeat 0.69
Pfam IPR003367 EMBL-EBI Thrombospondin type 3 repeat 0.32
Pfam IPR003367 EMBL-EBI Thrombospondin type 3 repeat 0.69
Pfam IPR003367 EMBL-EBI Thrombospondin type 3 repeat 0.32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022759.1 1 7-29
NP_001022758.1 1 5-27
T12D8.9b 1 7-29
T12D8.9a 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:178078_AT
ttcttccaaccatccagcagtggagtgaagctccaactctcactgaaactattgcccttg
gctcgaaaaatgcaaaaatgcaaaagtgcaaatacagaaagtcttgctatgaagctgcag
gaatcactgacaaggatgatgatgtaaaggacaatgaggaacgccatctcaaggagaagc
tgaagcctgtagaatcagaacgccaccaccaccaccattccaaacacgggaagaagaagc
atcaggagcccgaggatgaggaggatgatgatgaagaggagaaagaggagaagcagaaga
acaaggaagagaaaaaggaagatgcgaagatccacgagcagactgataaggagactatcg
agcaaggtgtgaaggatatctccttgtcagccgcggaaaaaagctggtgtaagtacagaa
agtcgtgctattcatcagtggaaccgaaggctgcaaagcaagatcactctggaacaatgg
ccaggagagaaggaagcggtaaaaagtgtcacatctactacttgtcttgtcgcgaagcaa
tgggtcttccaccaaagaagaaggcaccaatgggtcccaacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTTCCAACCATCCAGCAGTGGAG 414 689 2309 Antisense
AAGCTCCAACTCTCACTGAAACTAT 548 149 2336 Antisense
GAAACTATTGCCCTTGGCTCGAAAA 59 357 2353 Antisense
GCCTGTAGAATCAGAACGCCACCAC 663 279 2493 Antisense
GAAGAAGCATCAGGAGCCCGAGGAT 275 341 2541 Antisense
GCGAAGATCCACGAGCAGACTGATA 192 289 2632 Antisense
TATCTCCTTGTCAGCCGCGGAAAAA 568 659 2685 Antisense
GTCGTGCTATTCATCAGTGGAACCG 275 473 2730 Antisense
GTCACATCTACTACTTGTCTTGTCG 343 465 2816 Antisense
GTCGCGAAGCAATGGGTCTTCCACC 631 473 2837 Antisense
AAGAAGGCACCAATGGGTCCCAACG 506 151 2866 Antisense
Sequence Source Affymetrix Proprietary Database