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[183009_at]

Description Y38F1A.8 /REP_DB=WormBase Gene ID /WP=CE21613 /TR=Q9XWM2 /GB=CAA21633.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 91      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 63      6grp_total > 93      4grp_total > 04      6grp_highest_sub > 05      6grp_high1_sub > 05      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 952
1 2 3 4 range
A 922.6
(-1.3)
P 		666.5
(-3)
P 		796
(-2.1)
P 		1577.4
(3)
P 		911
B 912.3
(-0.4)
P 		740
(-2)
P 		625
(-3)
P 		1282.9
(3)
P 		658
C 919.3
(-1.1)
P 		728.6
(-2.5)
P 		670
(-3)
P 		1437.3
(3)
P 		767
avr 918.1
(-1.2) 		711.7
(-2.9) 		697
(-3) 		1432.5
(3) 		736

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1236
1 2 3 4 5 6 range
A 434.3
(-2.5)
P 		355.9
(-2.9)
P 		331.2
(-3)
P 		583.8
(-1.8)
P 		1565.7
(3)
P 		349.1
(-2.9)
P 		1235
B 333.1
(-3)
P 		492.8
(-2.1)
P 		388.1
(-2.7)
P 		726.1
(-0.8)
P 		1383.3
(3)
P 		472.6
(-2.2)
P 		1050
C 352.6
(-2.8)
P 		416.6
(-2.4)
P 		329.7
(-3)
P 		729.1
(-0.2)
P 		1189.2
(3)
P 		451
(-2.2)
P 		860
avr 373.3
(-2.9) 		421.8
(-2.6) 		349.7
(-3) 		679.7
(-1.1) 		1379.4
(3) 		424.2
(-2.6) 		1030
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 191
1 2 3 4 range
A 335.9
(3)
P 		144.7
(-3)
P 		208.1
(-1)
P 		230.9
(-0.3)
P 		191
B 290.9
(3)
P 		182.8
(-1.4)
P 		144.8
(-3)
P 		273.4
(2.3)
P 		146
C 304.3
(3)
P 		209.5
(-3)
P 		233.5
(-1.5)
P 		242.3
(-0.9)
P 		95
avr 310.4
(3) 		179
(-3) 		195.5
(-2.2) 		248.9
(0.2) 		131

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 490
1 2 3 4 5 6 range
A 80.1
(-2.9)
P 		126.6
(-2.2)
P 		72.1
(-3)
P 		148.1
(-1.9)
P 		472.5
(3)
P 		85
(-2.8)
P 		400
B 115.9
(-2.7)
P 		164
(-2.1)
P 		94.2
(-3)
P 		192.3
(-1.7)
P 		562
(3)
P 		176.2
(-1.9)
P 		468
C 130.7
(-2.1)
P 		127.1
(-2.1)
P 		83.9
(-3)
P 		146.6
(-1.7)
P 		384.8
(3)
P 		151
(-1.7)
P 		301
avr 108.9
(-2.6) 		139.2
(-2.1) 		83.4
(-3) 		162.3
(-1.8) 		473.1
(3) 		137.4
(-2.2) 		390
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183009_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3972
Sequence Type Exemplar sequence
Representative Public ID Y38F1A.8 NCBI
Target Description Y38F1A.8 /REP_DB=WormBase Gene ID /WP=CE21613 /TR=Q9XWM2 /GB=CAA21633.1 /SUBMIT=HINXTON /CHR=2 /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_064365(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064365 NCBI Caenorhabditis elegans Y38F1A.8 (Y38F1A.8) mRNA, complete cds. 11/11 None
SNAP00000020285 ENSEMBL cdna:SNAP chromosome:CEL140:II:12997997:13000700:-1 9/11 None
GENEFINDER00000020295 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12997997:13000700:-1 11/11 None
Y38F1A.8 ENSEMBL cdna:known chromosome:CEL140:II:12997896:13000750:-1 gene:Y38F1A.8 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
chrII:12997993-13000697(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38F1A.8
Entrez Gene 189674 Entrez gene
SwissProt Q9XWM2 EMBL-EBI
WormBase CE21613 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21633 Hypothetical protein Y38F1A.8 [Caenorhabditis elegans] ref|NP_496766.1| Y38F1A.8 [Caenorhabditis elegans] 1.0E-170
blast CAE59408 Hypothetical protein CBG02772 [Caenorhabditis briggsae] 1.0E-152
blast CAA21633 Hypothetical protein Y38F1A.8 [Caenorhabditis elegans] ref|NP_496766.1| Y38F1A.8 [Caenorhabditis elegans] 1.0E-142
blast CAE59408 Hypothetical protein CBG02772 [Caenorhabditis briggsae] 1.0E-126
blast EAA12919 ENSANGP00000018474 [Anopheles gambiae str. PEST] ref|XP_317623.2| ENSANGP00000018474 [Anopheles gambiae str. PEST] 1.0E-9
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496766.1 6 45-67,104-121,141-160,170-192,213-235,245-267
Y38F1A.8 6 45-67,104-121,141-160,170-192,213-235,245-267
SNAP00000020285 4 45-67,150-172,193-215,225-247
GENEFINDER00000020295 6 45-67,104-121,141-160,170-192,213-235,245-267
Sequence
Target Sequence 
>C. ELEGANS:183009_AT
atccatgtaccgcccaggttatttttcttgatgctctaccgccgcttattcctcatttcc
gctccaaaatctgtatggtacgccagagtcaactacgtctatatgctaacactttgggct
gagccgttaggattggttttggtatcggtggtggatattaatgggggatttatccttcac
gctcttggctttgcaatttggatcatttgcttcaacttcaacatgttgttcaatatcatt
ttgcatcattttggaggttgcagggatgttcatgatacgatggaaaccacatggcgaata
aaatgcgtcatcttcctggttgggtacttctgtgccatatcaacgcctataacgtaccca
tattttacagcacattgctccccatatgcctacaacctcttctcgcttgctgaactaatt
gaagttggctgtaattccttgttctattcaatcgcctactttgaattccccaaaactcgc
atcacaatcggaatcaaaagtgtgcagcgcaatctcaacgagct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCCATGTACCGCCCAGGTTATTTT 355 39 346 Antisense
GTTATTTTTCTTGATGCTCTACCGC 249 447 363 Antisense
GGTACGCCAGAGTCAACTACGTCTA 573 503 422 Antisense
AATGGGGGATTTATCCTTCACGCTC 485 161 505 Antisense
GGATCATTTGCTTCAACTTCAACAT 414 511 545 Antisense
TCATCTTCCTGGTTGGGTACTTCTG 210 619 653 Antisense
GGTACTTCTGTGCCATATCAACGCC 82 505 668 Antisense
TATTTTACAGCACATTGCTCCCCAT 93 663 706 Antisense
CTCTTCTCGCTTGCTGAACTAATTG 75 231 742 Antisense
TTCCTTGTTCTATTCAATCGCCTAC 117 701 780 Antisense
GTGTGCAGCGCAATCTCAACGAGCT 554 483 845 Antisense
Sequence Source Affymetrix Proprietary Database