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[178342_s_at]

Description T20D3.9 /REP_DB=WormBase Gene ID /WP=CE23991 /TR=O01261 /GB=CAA92492.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 11      6grp_high1_10_10 > 07      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 75      6grp_total > 07      4grp_total > 54      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 784
1 2 3 4 range
A 1133.7
(3)
P 		772.9
(-0.1)
P 		759.2
(-0.3)
P 		443.7
(-3)
P 		690
B 1055.2
(3)
P 		774.4
(-0.4)
P 		677
(-1.6)
P 		565.6
(-3)
P 		490
C 1129.1
(3)
P 		733.3
(-0)
P 		603.2
(-1)
P 		349.6
(-3)
P 		780
avr 1106
(3) 		760.2
(-0.2) 		679.8
(-0.9) 		453
(-3) 		653

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 666
1 2 3 4 5 6 range
A 998.7
(2.7)
P 		1007.6
(3)
P 		820.7
(-3)
P 		905.2
(-0.3)
P 		898.4
(-0.5)
P 		921
(0.2)
P 		187
B 925.1
(0.2)
P 		1054.1
(1.9)
P 		1027.3
(1.6)
P 		1134.2
(3)
P 		680.9
(-3)
P 		916
(0.1)
P 		453
C 1347.3
(3)
P 		1000.1
(-2.4)
P 		1011.9
(-2.2)
P 		1024.9
(-2)
P 		988.4
(-2.6)
P 		960.3
(-3)
P 		387
avr 1090.4
(3) 		1020.6
(1.2) 		953.3
(-0.5) 		1021.4
(1.2) 		855.9
(-3) 		932.4
(-1) 		235
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 354
1 2 3 4 range
A 412.8
(3)
P 		167.8
(-1.2)
P 		198.5
(-0.7)
P 		65
(-3)
P 		348
B 336.5
(3)
P 		191.3
(-1)
P 		156.9
(-2)
P 		120.5
(-3)
P 		216
C 373.8
(3)
P 		210.8
(-0.1)
P 		210.2
(-0.1)
P 		58.9
(-3)
P 		315
avr 374.4
(3) 		190
(-0.8) 		188.5
(-0.8) 		81.5
(-3) 		293

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 321
1 2 3 4 5 6 range
A 184.1
(-2.8)
P 		358.3
(3)
P 		178.7
(-3)
P 		229.6
(-1.3)
P 		271.1
(0.1)
P 		224.2
(-1.5)
P 		180
B 321.9
(1.3)
P 		350.9
(3)
P 		249.5
(-3)
P 		300.4
(0)
P 		276.6
(-1.4)
P 		341.6
(2.4)
P 		101
C 499.4
(3)
P 		305.2
(-1)
P 		257.6
(-1.9)
P 		206.1
(-3)
P 		319.8
(-0.7)
P 		321.5
(-0.6)
P 		293
avr 335.1
(2.8) 		338.1
(3) 		228.6
(-3) 		245.4
(-2.1) 		289.2
(0.3) 		295.8
(0.7) 		110
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178342_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9737
Sequence Type Exemplar sequence
Representative Public ID T20D3.9 NCBI
Target Description T20D3.9 /REP_DB=WormBase Gene ID /WP=CE23991 /TR=O01261 /GB=CAA92492.2 /SUBMIT=HINXTON /CHR=4 /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_069245(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069245 NCBI Caenorhabditis elegans T20D3.9 (T20D3.9) mRNA, complete cds. 11/11 None
SNAP00000040163 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9343714:9347342:-1 11/11 None
GENEFINDER00000040167 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9343714:9355962:-1 11/11 None
T20D3.9 ENSEMBL cdna:known chromosome:CEL140:IV:9343335:9349117:-1 gene:T20D3.9 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
chrIV:9343719-9349123(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T20D3.9
Entrez Gene 177766 Entrez gene
SwissProt O01261 EMBL-EBI
WormBase CE23991 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.30408.1.S1_S_AT similar to Protein FAM38A cfa
CANINE_2:CFAAFFX.30417.1.S1_S_AT similar to Protein FAM38A cfa
HG-U133A:202771_AT family with sequence similarity 38, member A hs
HG-U133A_2:202771_AT family with sequence similarity 38, member A hs
HG-U133_PLUS_2:202771_AT family with sequence similarity 38, member A hs
HUGENEFL:D87071_AT family with sequence similarity 38, member A hs
U133_X3P:G7662013_3P_AT family with sequence similarity 38, member A hs
HG-U95AV2:37281_AT family with sequence similarity 38, member A hs
MOUSE430_2:1439387_X_AT RIKEN cDNA 2310061F22 gene mm
MOE430B:1439387_X_AT RIKEN cDNA 2310061F22 gene mm
MG-U74BV2:112302_AT RIKEN cDNA 2310061F22 gene mm
MG-U74BV2:115840_AT RIKEN cDNA 2310061F22 gene mm
MG-U74CV2:170002_AT RIKEN cDNA 2310061F22 gene mm
MOE430B:1428350_AT RIKEN cDNA 2310061F22 gene mm
MOUSE430_2:1428350_AT RIKEN cDNA 2310061F22 gene mm
MOE430B:1455157_A_AT RIKEN cDNA 2310061F22 gene mm
MOUSE430_2:1455157_A_AT RIKEN cDNA 2310061F22 gene mm
MOUSE430_2:1448079_AT RIKEN cDNA 2310061F22 gene, mRNA (cDNA clone MGC:27786 IMAGE:3156706) mm
MOE430B:1448079_AT RIKEN cDNA 2310061F22 gene, mRNA (cDNA clone MGC:27786 IMAGE:3156706) mm
MU19KSUBA:TC17030_AT RIKEN cDNA 2310061F22 gene, mRNA (cDNA clone MGC:27786 IMAGE:3156706) mm
MU19KSUBA:TC17406_AT MKIAA0233 protein mm
RG-U34B:RC_AI045546_AT family with sequence similarity 38, member A (predicted) rn
RAE230A:1376321_AT family with sequence similarity 38, member A (predicted) rn
RAT230_2:1376321_AT family with sequence similarity 38, member A (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA92492 Hypothetical protein T20D3.9 [Caenorhabditis elegans] ref|NP_501646.1| T20D3.9 [Caenorhabditis elegans] 0.0
blast CAE74040 Hypothetical protein CBG21691 [Caenorhabditis briggsae] 0.0
blast CAA92491 Hypothetical protein T20D3.11 [Caenorhabditis elegans] ref|NP_501647.1| T20D3.11 [Caenorhabditis elegans] 0.0
blast XP_391974 PREDICTED: similar to GA21110-PA [Apis mellifera] 1.0E-122
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501646.1 8 214-236,251-273,304-323,427-449,461-483,498-515,639-661,950-972
T20D3.9 8 214-236,251-273,304-323,427-449,461-483,498-515,639-661,950-972
SNAP00000040163 8 177-199,214-236,267-286,390-412,424-446,461-478,602-624,913-935
GENEFINDER00000040167 17 235-257,270-292,332-354,443-465,503-525,566-585,589-611,631-653,701-723,1019-1041,1056-1078,1109-1128,1232-1254,1266-1288,1303-1320,1444-1466,1755-1777
Sequence
Target Sequence 
>C. ELEGANS:178342_S_AT
ctcattccacagtcaattcctgcgtttattcaagttccaaatcaaggagaattgaccctt
ccaacatcaatcggaaatactattatcaatgacggaaatccacggattaatacgaccggg
atggaaaaatcagacgaagctcgggcttggttcgactcgttaaccttgaatctcgaacaa
ggaaaatcgcaaaacgagaaaatgtggatcgccacatccgaacatccaggagaccaaaat
gcgaaactctggataaagactgcaaatacgacgtattcgggaaggccgtaccttcaagtt
gtcggatttattgatagagcattcccatcatttttggcgaaagttttcaaaggaggagtc
attgcagtgtatctttcagttatcctcgtcgttggaagaggtctggttcgtggaatcttc
accacatctccaagcactgtcatgttcacagaattaccgaatgcggatcatcttctcaaa
atttgtctcgacatctatttggttcgagaagcgaaggacttcatgttggagcaggatctc
ttcgccaaattaatattcctgttccgatcaccagcgacactcatcgaatgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCATTCCACAGTCAATTCCTGCGT 698 229 2509 Antisense
ATTCCTGCGTTTATTCAAGTTCCAA 299 9 2524 Antisense
AGACGAAGCTCGGGCTTGGTTCGAC 172 71 2640 Antisense
GTTCGACTCGTTAACCTTGAATCTC 458 439 2658 Antisense
GCCACATCCGAACATCCAGGAGACC 356 279 2719 Antisense
AGGCCGTACCTTCAAGTTGTCGGAT 126 49 2791 Antisense
AGTGTATCTTTCAGTTATCCTCGTC 2 61 2874 Antisense
ATCTCCAAGCACTGTCATGTTCACA 95 33 2934 Antisense
ATGTTGGAGCAGGATCTCTTCGCCA 282 47 3031 Antisense
ATTAATATTCCTGTTCCGATCACCA 588 11 3057 Antisense
ATCACCAGCGACACTCATCGAATGG 262 29 3075 Antisense
Sequence Source Affymetrix Proprietary Database