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[183990_at]

Description F38B6.6 /REP_DB=WormBase Gene ID /WP=CE04519 /TR=Q20144 /GB=AAA81143.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 23      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 70      6grp_total > 21      4grp_total > 46      6grp_highest_sub > 02      6grp_high1_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 286
1 2 3 4 range
A 469.6
(3)
P 		342.8
(-0)
P 		251.3
(-2.2)
P 		218.4
(-3)
P 		251
B 474.6
(3)
P 		309.2
(-1)
P 		235.6
(-2.8)
P 		227.6
(-3)
P 		247
C 504.2
(3)
P 		371.8
(0.1)
P 		255.9
(-2.4)
P 		229.8
(-3)
P 		274
avr 482.8
(3) 		341.3
(-0.3) 		247.6
(-2.5) 		225.3
(-3) 		258

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 311
1 2 3 4 5 6 range
A 328.1
(1.5)
P 		386.7
(3)
P 		360.7
(2.3)
P 		271.8
(0.1)
P 		195.9
(-1.8)
P 		149.7
(-3)
P 		237
B 391.7
(1.6)
P 		460.6
(3)
P 		325.6
(0.3)
P 		282
(-0.5)
P 		158.4
(-3)
P 		182.5
(-2.5)
P 		302
C 216.6
(-1.9)
P 		458.5
(3)
P 		310.5
(-0)
P 		230.8
(-1.6)
P 		163.4
(-3)
P 		173.6
(-2.8)
P 		295
avr 312.1
(0.2) 		435.3
(3) 		332.3
(0.7) 		261.5
(-0.9) 		172.6
(-2.9) 		168.6
(-3) 		267
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 171
(3)
P 		74.4
(-1.2)
P 		65.7
(-1.5)
P 		32
(-3)
P 		139
B 151.4
(3)
P 		76.4
(-1.4)
P 		54.6
(-2.6)
P 		48.5
(-3)
P 		103
C 166.9
(3)
P 		106.9
(0.2)
P 		89.2
(-0.6)
P 		38.7
(-3)
P 		128
avr 163.1
(3) 		85.9
(-0.8) 		69.8
(-1.5) 		39.7
(-3) 		123

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 60.5
(-1.6)
P 		137.5
(3)
P 		78.5
(-0.5)
P 		68.9
(-1.1)
P 		59.1
(-1.7)
P 		36.4
(-3)
P 		101
B 136.3
(1.9)
P 		153.3
(3)
P 		79.1
(-2)
P 		74.7
(-2.3)
P 		64.4
(-3)
P 		68.1
(-2.8)
P 		89
C 80.3
(-0.8)
P 		139.9
(3)
P 		79
(-0.9)
P 		46.4
(-3)
P 		52.9
(-2.6)
P 		58.1
(-2.2)
P 		94
avr 92.4
(-0.4) 		143.6
(3) 		78.9
(-1.3) 		63.3
(-2.4) 		58.8
(-2.7) 		54.2
(-3) 		89
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183990_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17016
Sequence Type Exemplar sequence
Representative Public ID F38B6.6 NCBI
Target Description F38B6.6 /REP_DB=WormBase Gene ID /WP=CE04519 /TR=Q20144 /GB=AAA81143.1 /SUBMIT=ST.LOUIS /CHR=X /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_076722(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076722 NCBI Caenorhabditis elegans F38B6.6 (F38B6.6) mRNA, complete cds. 11/11 None
SNAP00000034004 ENSEMBL cdna:SNAP chromosome:CEL140:X:6684513:6686707:-1 11/11 None
GENEFINDER00000034013 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6684513:6690022:-1 11/11 None
F38B6.6 ENSEMBL cdna:known chromosome:CEL140:X:6684417:6690038:-1 gene:F38B6.6 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
chrX:6684512-6686707(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F38B6.6
Entrez Gene 185454 Entrez gene
SwissProt Q20144 EMBL-EBI
WormBase CE30976 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1598681_AT similar to CG5038-PA cfa
CANINE_2:CFA.13446.1.A1_AT similar to CG5038-PA cfa
CANINE_2:CFAAFFX.9762.1.S1_S_AT similar to CG5038-PA cfa
CANINE_2:CFAAFFX.9768.1.S1_S_AT similar to CG5038-PA cfa
DROSOPHILA_2:1638306_AT dm
DROSGENOME1:149951_AT dm
CHICKEN:GGA.10766.1.S1_S_AT similar to hypothetical protein FLJ14624 gga
CHICKEN:GGAAFFX.25096.1.S1_AT similar to hypothetical protein FLJ14624 gga
MG-U74BV2:114722_AT RIKEN cDNA 4930403J22 gene mm
MG-U74BV2:163334_AT RIKEN cDNA 4930403J22 gene mm
MOE430A:1428113_AT RIKEN cDNA 4930403J22 gene mm
MOUSE430A_2:1428113_AT RIKEN cDNA 4930403J22 gene mm
MOUSE430_2:1428113_AT RIKEN cDNA 4930403J22 gene mm
MOE430A:1432360_A_AT RIKEN cDNA 4930403J22 gene mm
MOUSE430A_2:1432360_A_AT RIKEN cDNA 4930403J22 gene mm
MOUSE430_2:1432360_A_AT RIKEN cDNA 4930403J22 gene mm
MOUSE430_2:1459568_AT RIKEN cDNA 4930403J22 gene, mRNA (cDNA clone MGC:32342 IMAGE:5029461) mm
MOE430B:1459568_AT RIKEN cDNA 4930403J22 gene, mRNA (cDNA clone MGC:32342 IMAGE:5029461) mm
Protein Similarities
Method ID Description E-Value
blast AAA81143 Hypothetical protein F38B6.6 [Caenorhabditis elegans] ref|NP_509123.2| F38B6.6 [Caenorhabditis elegans] 0.0
blast CAE65772 Hypothetical protein CBG10865 [Caenorhabditis briggsae] 0.0
blast CAE65772 Hypothetical protein CBG10865 [Caenorhabditis briggsae] 1.0E-160
blast NP_082927 hypothetical protein LOC70551 [Mus musculus] dbj|BAC31518.1| unnamed protein product [Mus musculus] dbj|BAC33902.1| unnamed protein product [Mus musculus] dbj|BAC32288.1| unnamed protein product [Mus musculus] dbj|BAC28522.1| unnamed protein product [Mus musculus] dbj|BAC31900.1| unnamed protein product [Mus musculus] 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR001440 EMBL-EBI TPR repeat 2.3E-7
Pfam IPR001440 EMBL-EBI TPR repeat 8.0E-5
Pfam IPR001440 EMBL-EBI TPR repeat 2.8E-7
Pfam IPR001440 EMBL-EBI TPR repeat 7.7E-5
Pfam IPR001440 EMBL-EBI TPR repeat 2.2E-4
Pfam IPR001440 EMBL-EBI TPR repeat 9.5E-5
Pfam IPR001440 EMBL-EBI TPR repeat 2.3E-7
Pfam IPR001440 EMBL-EBI TPR repeat 8.0E-5
Pfam IPR001440 EMBL-EBI TPR repeat 2.8E-7
Pfam IPR001440 EMBL-EBI TPR repeat 7.7E-5
Pfam IPR001440 EMBL-EBI TPR repeat 2.2E-4
Pfam IPR001440 EMBL-EBI TPR repeat 9.5E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509123.2 9 31-53,112-134,141-158,168-187,232-254,274-296,309-328,338-360,367-389
F38B6.6 9 31-53,112-134,141-158,168-187,232-254,274-296,309-328,338-360,367-389
SNAP00000034004 5 25-47,54-71,81-100,145-167,187-209
GENEFINDER00000034013 9 31-53,112-134,141-158,168-187,232-254,274-296,309-328,338-360,367-389
Sequence
Target Sequence 
>C. ELEGANS:183990_AT
aaaacagccgagagcttgcttgcccgagcagtcacgctacggcccagttttgcagttgct
tggatgaatcttggtatttctcaaatgaacttaaaaaaatattatgaagcggaaaaatca
ttgaaaaattcactattaatacgtccaaattctgcacattgtctattcaacttgggagtt
ttgtatcaaagaactaatcgtgacgaaatggcaatgtccgcatggaaaaatgcgacaaga
attgacccatcccactctcaatcttggaccaatttgttcgtagtgttggatcatttaagt
caatgttctcaagtaattgatctatcctatcaggctttatcaagtgtaccaaacgaatca
cgagttcatatgcaaatcggatcttgccacgctaaacattcaaatttcacggctgcagaa
aatcatataaaaagtgctatagatctgaatccaacttcagttttgtttcatgcgaatctc
ggtattctctaccaacgaatgagtcgtcacaaagaagctgaaagccagtatcgaattgtc
ttggcacttgattcgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAACAGCCGAGAGCTTGCTTGCCC 32 131 1198 Antisense
GGCCCAGTTTTGCAGTTGCTTGGAT 519 541 1238 Antisense
ACGTCCAAATTCTGCACATTGTCTA 291 95 1338 Antisense
GACGAAATGGCAATGTCCGCATGGA 1 381 1399 Antisense
TGCGACAAGAATTGACCCATCCCAC 462 583 1428 Antisense
TCCCACTCTCAATCTTGGACCAATT 242 597 1447 Antisense
GATCTATCCTATCAGGCTTTATCAA 456 419 1516 Antisense
AATCGGATCTTGCCACGCTAAACAT 677 167 1572 Antisense
AACATTCAAATTTCACGGCTGCAGA 264 139 1592 Antisense
GCGAATCTCGGTATTCTCTACCAAC 624 287 1669 Antisense
AATTGTCTTGGCACTTGATTCGAAA 153 179 1731 Antisense
Sequence Source Affymetrix Proprietary Database