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[187040_at]

Description Y38A10A.4 /REP_DB=WormBase Gene ID /WP=CE21561 /TR=Q9UAX8 /GB=AAD14745.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 09      4grp_total > 26      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 28.4
(-3)
A 		50.1
(3)
A 		46.5
(2)
A 		42.2
(0.8)
A 		22
B 32.5
(1.5)
M 		38.2
(3)
A 		16
(-3)
A 		35.6
(2.3)
A 		22
C 9.7
(-3)
A 		47.4
(0.5)
A 		32.4
(-0.9)
A 		73.9
(3)
A 		64
avr 23.5
(-3) 		45.2
(1.8) 		31.6
(-1.2) 		50.6
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 41.1
(1.5)
A 		23
(-0.6)
A 		43.1
(1.8)
P 		53.4
(3)
A 		26.2
(-0.2)
A 		3.1
(-3)
A 		50
B 30
(1.8)
A 		30.8
(1.9)
A 		32.8
(2.3)
A 		4.3
(-3)
A 		34.2
(2.6)
A 		36.5
(3)
A 		32
C 34.1
(0.9)
A 		26.7
(-0.8)
A 		20.8
(-2.3)
A 		34.3
(1)
A 		17.7
(-3)
A 		42.7
(3)
A 		25
avr 35.1
(3) 		26.8
(-2.5) 		32.2
(1.1) 		30.7
(0.1) 		26
(-3) 		27.4
(-2.1) 		9
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 10.4
(1.3)
A 		10.9
(1.8)
A 		12.1
(3)
A 		6.2
(-3)
A 		6
B 10.4
(3)
M 		9.4
(2.1)
A 		3.7
(-3)
A 		7.6
(0.5)
A 		7
C 3.2
(-3)
A 		13.6
(3)
A 		11.3
(1.7)
A 		12.5
(2.4)
A 		10
avr 8
(-3) 		11.3
(3) 		9
(-1.2) 		8.8
(-1.5) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 7.6
(0.2)
A 		8.2
(0.5)
A 		9.4
(1.1)
P 		13.5
(3)
A 		7.9
(0.4)
A 		0.8
(-3)
A 		13
B 10.5
(1.4)
A 		10.2
(1.3)
A 		8
(0.2)
A 		1.1
(-3)
A 		13.9
(3)
A 		13.6
(2.9)
A 		13
C 12.6
(1.9)
A 		8.2
(-1.1)
A 		5.3
(-3)
A 		6.9
(-1.9)
A 		5.7
(-2.7)
A 		14.3
(3)
A 		9
avr 10.2
(3) 		8.9
(0.4) 		7.6
(-2.2) 		7.2
(-3) 		9.2
(1) 		9.6
(1.8) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187040_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12067
Sequence Type Exemplar sequence
Representative Public ID Y38A10A.4 NCBI
Target Description Y38A10A.4 /REP_DB=WormBase Gene ID /WP=CE21561 /TR=Q9UAX8 /GB=AAD14745.1 /SUBMIT=ST.LOUIS /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_072171(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072171 NCBI Caenorhabditis elegans Y38A10A.4 (Y38A10A.4) mRNA, complete cds. 11/11 None
SNAP00000035781 ENSEMBL cdna:SNAP chromosome:CEL140:V:6070831:6094592:-1 11/11 None
GENEFINDER00000035787 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:6070410:6074559:-1 11/11 None
Y38A10A.4 ENSEMBL cdna:known chromosome:CEL140:V:6070405:6072719:-1 gene:Y38A10A.4 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:6070830-6072662(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38A10A.4
Entrez Gene 178995 Entrez gene
SwissProt Q9UAX8 EMBL-EBI
WormBase CE21561 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD14745 Hypothetical protein Y38A10A.4 [Caenorhabditis elegans] ref|NP_504572.1| Y38A10A.4 [Caenorhabditis elegans] 1.0E-166
blast AAD14745 Hypothetical protein Y38A10A.4 [Caenorhabditis elegans] ref|NP_504572.1| Y38A10A.4 [Caenorhabditis elegans] 1.0E-161
blast AAD14745 Hypothetical protein Y38A10A.4 [Caenorhabditis elegans] ref|NP_504572.1| Y38A10A.4 [Caenorhabditis elegans] 1.0E-122
blast NP_503412 R09B5.1 [Caenorhabditis elegans] gb|AAB94210.1| Hypothetical protein R09B5.1 [Caenorhabditis elegans] 9.0E-53
blast NP_503412 R09B5.1 [Caenorhabditis elegans] gb|AAB94210.1| Hypothetical protein R09B5.1 [Caenorhabditis elegans] 4.0E-52
blast NP_503412 R09B5.1 [Caenorhabditis elegans] gb|AAB94210.1| Hypothetical protein R09B5.1 [Caenorhabditis elegans] 1.0E-43
blast NP_500676 Y9C9A.8 [Caenorhabditis elegans] gb|AAF60932.1| Hypothetical protein Y9C9A.8 [Caenorhabditis elegans] 6.0E-26
blast NP_500676 Y9C9A.8 [Caenorhabditis elegans] gb|AAF60932.1| Hypothetical protein Y9C9A.8 [Caenorhabditis elegans] 1.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 4.3E-13
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 2.3E-7
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 4.3E-13
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 6.1E-9
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 3.6E-9
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 4.0E-8
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 5.8E-7
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 8.5E-20
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 2.3E-7
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 1.9E-8
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 1.1E-7
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 1.6E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000035781 3 21-43,53-75,96-118
GENEFINDER00000035787 3 7-26,36-58,71-93
Sequence
Target Sequence 
>C. ELEGANS:187040_AT
tttgaagacgggttccattgccctggatatttttgacaccggtaccattgcacagagcga
agtattctatattgattactcggatgaaaatggtatcgtctaccaattcccaacatctgc
gaaaaatagaaagtcaaggaaagaggaagcgagccatttggaggttgctatgagagaggt
cgaattattgttcaacaatcccaataatcaggtggattacattcaattaaaacttgtacg
tgatgaagagatcagaaattcaaattggaatttgctcgaaacctctttcaagaagatgaa
gaacagtagaatttgcacagtctcgtttgctggatttttgaacaaggaaattgctacgat
gatgcaatcattcacacctggaatactgagcgatctatacgccaatatcgtcgattcgca
actttcgtatattatgaaaacggatcattggaaacaattgaagattgttaaagtaaaagc
accatatcatctttctgtgccgatcgataatatcattcatttgacacatttcgatatacc
ggtagagaaacttacaaccactggtgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGAAGACGGGTTCCATTGCCCTG 16 265 324 Antisense
TTGCCCTGGATATTTTTGACACCGG 109 701 341 Antisense
TTGACACCGGTACCATTGCACAGAG 710 703 356 Antisense
TGGTATCGTCTACCAATTCCCAACA 685 551 414 Antisense
GAAGCGAGCCATTTGGAGGTTGCTA 44 345 469 Antisense
GGAATTTGCTCGAAACCTCTTTCAA 116 533 590 Antisense
GAATTTGCACAGTCTCGTTTGCTGG 689 325 632 Antisense
ATGATGCAATCATTCACACCTGGAA 389 45 682 Antisense
CTATACGCCAATATCGTCGATTCGC 32 225 718 Antisense
ATCATCTTTCTGTGCCGATCGATAA 417 29 809 Antisense
AGAGAAACTTACAACCACTGGTGCT 531 67 867 Antisense
Sequence Source Affymetrix Proprietary Database