[Home] | [Total List]

[173075_at]

Description AV183418_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV183418 /DEF=Caenorhabditis elegans cDNA clone:yk651d4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 90      6grp_high1_10_10 > 09      4grp_highest_8_8 > 46      4grp_high_8_8 > 11      6grp_highest_nonorm > 51      6grp_total > 92      4grp_total > 21      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 354
1 2 3 4 range
A 593.9
(3)
P 		422.9
(-0.8)
P 		326.1
(-3)
P 		534.1
(1.7)
P 		268
B 583.6
(1.2)
P 		368
(-3)
P 		374.2
(-2.9)
P 		679.6
(3)
P 		312
C 465.4
(-0.5)
P 		378.4
(-2.1)
P 		325.9
(-3)
P 		662
(3)
P 		336
avr 547.6
(1.4) 		389.8
(-2) 		342.1
(-3) 		625.2
(3) 		283

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 456
1 2 3 4 5 6 range
A 602.4
(1.2)
P 		627.9
(1.6)
P 		336.3
(-3)
P 		717.3
(3)
P 		720
(3)
P 		383.4
(-2.3)
P 		384
B 712
(3)
P 		576.4
(1.2)
P 		384
(-1.4)
P 		609
(1.6)
P 		630
(1.9)
P 		263.9
(-3)
P 		448
C 610.5
(1.2)
P 		535.6
(-0.3)
P 		477
(-1.4)
P 		563.9
(0.3)
P 		708
(3)
P 		390.5
(-3)
P 		318
avr 641.6
(2.2) 		580
(1.1) 		399.1
(-2.1) 		630.1
(2) 		686
(3) 		345.9
(-3) 		340
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 138
1 2 3 4 range
A 216.2
(3)
P 		91.8
(-2.4)
P 		85.3
(-2.7)
P 		78.2
(-3)
P 		138
B 186.1
(3)
P 		90.9
(-2.7)
P 		86.7
(-3)
P 		144.8
(0.5)
P 		99
C 154.1
(3)
P 		108.8
(-3)
P 		113.6
(-2.4)
P 		111.6
(-2.6)
P 		45
avr 185.5
(3) 		97.2
(-2.9) 		95.2
(-3) 		111.5
(-1.9) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 111.1
(-1.5)
P 		223.3
(3)
P 		73.2
(-3)
P 		181.9
(1.3)
P 		217.3
(2.8)
P 		93.4
(-2.2)
P 		150
B 247.7
(2.7)
P 		191.9
(0.6)
P 		93.3
(-3)
P 		161.3
(-0.5)
P 		256
(3)
P 		98.4
(-2.8)
P 		163
C 226.3
(2.9)
P 		163.4
(-0.4)
P 		121.4
(-2.6)
P 		113.4
(-3)
P 		229.1
(3)
P 		130.7
(-2.1)
P 		116
avr 195
(1.3) 		192.9
(1.2) 		96
(-3) 		152.2
(-0.6) 		234.1
(3) 		107.5
(-2.5) 		138
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173075_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26857
Sequence Type Exemplar sequence
Representative Public ID AV183418 NCBI
Target Description AV183418_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV183418 /DEF=Caenorhabditis elegans cDNA clone:yk651d4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_065331(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065331 NCBI Caenorhabditis elegans Protein Tyrosine Phosphatase family member (ptp-1) (ptp-1) mRNA, complete cds. 10/11 None
C48D5.2a ENSEMBL cdna:known chromosome:CEL140:III:3590717:3611974:1 gene:C48D5.2 10/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175463 3 1 NM_065331 173075_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:3611520-3611816(+) 91.67 91.67
Public Domain and Genome References
Ensembl C48D5.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA88287 Hypothetical protein C48D5.2a [Caenorhabditis elegans] emb|CAA85272.1| Hypothetical protein C48D5.2a [Caenorhabditis elegans] ref|NP_497732.1| Protein Tyrosine Phosphatase family member (ptp-1) [Caenorhabditis elegans] sp|P28191|PTP1_CAEEL Tyrosine-protein phosphatase 1 (Protein-tyrosine phosphatase 1) 0.0
blast CAE64934 Hypothetical protein CBG09764 [Caenorhabditis briggsae] 0.0
blast CAD44101 Hypothetical protein C48D5.2c [Caenorhabditis elegans] emb|CAD44107.1| Hypothetical protein C48D5.2c [Caenorhabditis elegans] ref|NP_741112.1| Protein Tyrosine Phosphatase family member (ptp-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 1.9E-27
Pfam IPR000299 EMBL-EBI Band 4.1 1.0E-126
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 2.2E-113
Sequence
Target Sequence 
>C. ELEGANS:173075_AT
attcgaaacgttgagcttttatccaaaaaatacatatatcgtttttgtttcttcaaattc
ttcttcccatcgaactctcatgaatcacggatcccgcgaggtgctagctatttttgcctt
ttttctttnttcttttttttattgcanagttanttagcgattgttttcntacacaaaaca
agtcaatgttttgagtaattaaacatcatcatttaatatttcatcg

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCGAAACGTTGAGCTTTTATCCA 208 3 24 Antisense
ACATATATCGTTTTTGTTTCTTCAA 333 105 55 Antisense
TTCTTCCCATCGAACTCTCATGAAT 82 691 84 Antisense
TTCCCATCGAACTCTCATGAATCAC 383 697 87 Antisense
GAACTCTCATGAATCACGGATCCCG 644 349 95 Antisense
CATGAATCACGGATCCCGCGAGGTG 561 209 102 Antisense
ATCCCGCGAGGTGCTAGCTATTTTT 347 37 114 Antisense
CCGCGAGGTGCTAGCTATTTTTGCC 196 263 117 Antisense
GGTGCTAGCTATTTTTGCCTTTTTT 278 499 123 Antisense
GCTAGCTATTTTTGCCTTTTTTCTT 157 303 126 Antisense
AACATCATCATTTAATATTTCATCG 82 139 225 Antisense
Sequence Source Affymetrix Proprietary Database