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[179122_at]

Description R10E4.9 /REP_DB=WormBase Gene ID /WP=CE03563 /TR=Q21905 /GB=CAA90769.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 33      6grp_total > 51      4grp_total > 59      6grp_highest_sub > 03_04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 905
1 2 3 4 range
A 1302.7
(2.4)
P 		1362.6
(3)
P 		1313.9
(2.5)
P 		780.4
(-3)
P 		582
B 1246.1
(0.8)
P 		1563.2
(2.9)
P 		1572.8
(3)
P 		667.6
(-3)
P 		905
C 1189.6
(0.4)
P 		1529.5
(3)
P 		1435.8
(2.3)
P 		746.4
(-3)
P 		783
avr 1246.1
(1.1) 		1485.1
(3) 		1440.8
(2.6) 		731.5
(-3) 		754

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1745
1 2 3 4 5 6 range
A 1875.6
(0)
P 		1444.1
(-1.5)
P 		2741.6
(3)
P 		2079.9
(0.7)
P 		1189.1
(-2.3)
P 		996.7
(-3)
P 		1745
B 1754.3
(0.4)
P 		1685.2
(0.1)
P 		2307.7
(3)
P 		2189.3
(2.4)
P 		1155.6
(-2.4)
P 		1038.8
(-3)
P 		1269
C 1781.7
(0.3)
P 		1479
(-1)
P 		2174.9
(2)
P 		2410.5
(3)
P 		1246.4
(-2.1)
P 		1027.6
(-3)
P 		1383
avr 1803.9
(0.4) 		1536.1
(-0.8) 		2408.1
(3) 		2226.6
(2.2) 		1197
(-2.2) 		1021
(-3) 		1387
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 386
1 2 3 4 range
A 474.3
(3)
P 		295.8
(0)
P 		343.5
(0.8)
P 		114.2
(-3)
P 		360
B 397.4
(3)
P 		386.1
(2.7)
P 		364.4
(2.2)
P 		142.3
(-3)
P 		255
C 393.8
(1.3)
P 		439.7
(2)
P 		500.4
(3)
P 		125.8
(-3)
P 		375
avr 421.8
(3) 		373.9
(2) 		402.8
(2.6) 		127.4
(-3) 		294

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 418
1 2 3 4 5 6 range
A 345.7
(-1.3)
P 		513.6
(1.6)
P 		597.1
(3)
P 		527.5
(1.8)
P 		358.8
(-1)
P 		242.7
(-3)
P 		354
B 610.4
(3)
P 		560.9
(1.7)
P 		560.4
(1.7)
P 		579.9
(2.2)
P 		469.5
(-0.8)
P 		387.4
(-3)
P 		223
C 660.4
(3)
P 		451.3
(-1)
P 		553.5
(1)
P 		484.7
(-0.3)
P 		403.3
(-1.9)
P 		344
(-3)
P 		316
avr 538.8
(2.2) 		508.6
(1.5) 		570.3
(3) 		530.7
(2) 		410.5
(-0.9) 		324.7
(-3) 		246
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179122_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7569
Sequence Type Exemplar sequence
Representative Public ID R10E4.9 NCBI
Target Description R10E4.9 /REP_DB=WormBase Gene ID /WP=CE03563 /TR=Q21905 /GB=CAA90769.1 /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_065463(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065463 NCBI Caenorhabditis elegans R10E4.9 (R10E4.9) mRNA, complete cds. 11/11 None
GENEFINDER00000016411 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4299306:4302351:-1 11/11 None
SNAP00000016401 ENSEMBL cdna:SNAP chromosome:CEL140:III:4301648:4302351:-1 11/11 None
R10E4.9 ENSEMBL cdna:known chromosome:CEL140:III:4301648:4302351:-1 gene:R10E4.9 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
chrIII:4301647-4302351(-) 99.18 100.0
Public Domain and Genome References
Gene Title
Ensembl R10E4.9
Entrez Gene 187773 Entrez gene
SwissProt Q21905 EMBL-EBI
WormBase CE03563 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90770 Hypothetical protein R10E4.11 [Caenorhabditis elegans] ref|NP_497863.1| R10E4.11 [Caenorhabditis elegans] 1.0E-151
blast CAA90769 Hypothetical protein R10E4.9 [Caenorhabditis elegans] ref|NP_497864.1| R10E4.9 [Caenorhabditis elegans] 1.0E-105
blast CAA90769 Hypothetical protein R10E4.9 [Caenorhabditis elegans] ref|NP_497864.1| R10E4.9 [Caenorhabditis elegans] 1.0E-104
blast CAE73717 Hypothetical protein CBG21231 [Caenorhabditis briggsae] 9.0E-67
blast CAE73717 Hypothetical protein CBG21231 [Caenorhabditis briggsae] 4.0E-66
blast AAL49155 RE57556p [Drosophila melanogaster] 2.0E-14
Protein Domains
Database ID Description E-Value
Pfam IPR007482 EMBL-EBI Protein tyrosine phosphatase-like protein, PTPLA 8.6E-62
Pfam IPR007482 EMBL-EBI Protein tyrosine phosphatase-like protein, PTPLA 6.0E-61
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497864.1 5 6-28,41-63,78-100,132-154,164-186
R10E4.9 5 6-28,41-63,78-100,132-154,164-186
GENEFINDER00000016411 5 7-29,39-61,68-90,134-153,165-184
SNAP00000016401 5 6-28,41-63,78-100,132-154,164-186
Sequence
Target Sequence 
>C. ELEGANS:179122_AT
atcctcttcatctacacgttggttctattcattcttcatggttacggtttcctctacatt
ttccacgcagagtacacttcggaattcaaatatcctgaaattatgtggttcttgctcttt
atcacatctctacagtatctcgatattccattttcgttctttttgacgaaatccaatcca
gtcgctgtttttgttcaggtttccggtcgtcttctggttctatgggtagcttctcacatg
gttagctggaaatacgcggcattctctttggtcgctgtgtacttgctcagtgagctgtgc
cgtggaccctattatctctcgaattgcctaggaacacccaaccgatcgttgacgtggctc
cggtacaacgctttcaaagttttgtatcctgtcggattcacttgtgaagcactcgttttc
atcaacgtgttctttgtgtctggaaagattccgattgatatcaaggatagatatttccag
tattcattgctcttcactgtgttcttcttgacaattgtcacgttcttgtaccgttccatg
agcaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCCTCTTCATCTACACGTTGGTTC 626 39 34 Antisense
ACGTTGGTTCTATTCATTCTTCATG 698 93 49 Antisense
TCATGGTTACGGTTTCCTCTACATT 246 623 69 Antisense
ACATTTTCCACGCAGAGTACACTTC 631 103 89 Antisense
AATTATGTGGTTCTTGCTCTTTATC 555 175 132 Antisense
GTCGTCTTCTGGTTCTATGGGTAGC 424 473 239 Antisense
GTCGCTGTGTACTTGCTCAGTGAGC 336 475 304 Antisense
TTATCTCTCGAATTGCCTAGGAACA 64 679 345 Antisense
GAACACCCAACCGATCGTTGACGTG 584 347 365 Antisense
GAAGCACTCGTTTTCATCAACGTGT 491 341 439 Antisense
GTTCTTGTACCGTTCCATGAGCAGA 301 443 555 Antisense
Sequence Source Affymetrix Proprietary Database