[Home] | [Total List]

[175577_at]

Description CEXT00246 /REP_DB=TREMBL Accession /GB=M79709 /CHR=5 /FEA=Genomic Cluster /DEF=wEST00246 Mixed stage, Stratagene (cat. no. 937006) Caenorhabditis elegans cDNA clone CEMSC58, mRNA sequence.
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 59      4grp_highest_8_8 > 18      4grp_high_8_8 > 63      6grp_highest_nonorm > 75      6grp_total > 0      4grp_total > 56      6grp_total_sub > Hat      6grp_highest_sub > Cu      6grp_high1_sub > Cu      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 798
1 2 3 4 range
A 994.3
(-0.4)
P 		949.5
(-0.8)
P 		1334.1
(3)
P 		732.5
(-3)
P 		602
B 824.5
(-2.4)
P 		804.1
(-2.6)
P 		1365.4
(3)
P 		759.2
(-3)
P 		606
C 805.9
(-1)
P 		905.4
(-0.2)
P 		1287.9
(3)
P 		567.7
(-3)
P 		720
avr 874.9
(-1.2) 		886.3
(-1.1) 		1329.1
(3) 		686.5
(-3) 		643

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 329
1 2 3 4 5 6 range
A 657.9
(-3)
P 		896.1
(2.5)
P 		728.4
(-1.4)
P 		854.2
(1.5)
P 		799.5
(0.3)
P 		917.9
(3)
P 		260
B 968.7
(3)
P 		916.5
(2)
P 		655.3
(-3)
P 		659.2
(-2.9)
P 		958
(2.8)
P 		906.7
(1.8)
P 		313
C 871.3
(1.4)
P 		956.6
(3)
P 		889.9
(1.7)
P 		640.1
(-3)
P 		911.5
(2.1)
P 		720.9
(-1.5)
P 		317
avr 832.6
(0.4) 		923.1
(3) 		757.9
(-1.8) 		717.8
(-3) 		889.7
(2) 		848.5
(0.8) 		205
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 353
1 2 3 4 range
A 362
(3)
P 		206.1
(-0.7)
P 		348.8
(2.7)
P 		107.2
(-3)
P 		255
B 262.9
(0.9)
P 		198.6
(-1.6)
P 		316.4
(3)
P 		161.8
(-3)
P 		155
C 266.8
(-0.1)
P 		260.3
(-0.2)
P 		448.9
(3)
P 		95.7
(-3)
P 		353
avr 297.2
(1.2) 		221.7
(-0.6) 		371.4
(3) 		121.6
(-3) 		250

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 268
1 2 3 4 5 6 range
A 121.3
(-3)
P 		318.7
(3)
P 		158.6
(-1.9)
P 		216.6
(-0.1)
P 		241.3
(0.6)
P 		223.5
(0.1)
P 		197
B 337.1
(1.6)
P 		305.1
(0.8)
P 		159.1
(-3)
P 		174.6
(-2.6)
P 		389.2
(3)
P 		338.1
(1.7)
P 		230
C 323
(3)
P 		291.9
(2)
P 		226.5
(0)
P 		128.7
(-3)
P 		294.9
(2.1)
P 		241.3
(0.5)
P 		194
avr 260.5
(0.9) 		305.2
(2.9) 		181.4
(-2.6) 		173.3
(-3) 		308.5
(3) 		267.6
(1.2) 		135
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175577_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22029
Sequence Type Exemplar sequence
Representative Public ID CEXT00246 NCBI
Target Description CEXT00246 /REP_DB=TREMBL Accession /GB=M79709 /CHR=5 /FEA=Genomic Cluster /DEF=wEST00246 Mixed stage, Stratagene (cat. no. 937006) Caenorhabditis elegans cDNA clone CEMSC58, mRNA sequence.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_001028585(11), NM_001028586(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028585 NCBI Caenorhabditis elegans D2063.3a (D2063.3) mRNA, complete cds. 11/11 None
NM_001028586 NCBI Caenorhabditis elegans D2063.3b (D2063.3) mRNA, complete cds. 10/11 None
SNAP00000042162 ENSEMBL cdna:SNAP chromosome:CEL140:V:4338821:4341121:-1 11/11 None
GENEFINDER00000042166 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4338821:4341121:-1 11/11 None
D2063.3a ENSEMBL cdna:known chromosome:CEL140:V:4338696:4341122:-1 gene:D2063.3 11/11 None
D2063.3b ENSEMBL cdna:known chromosome:CEL140:V:4338726:4341121:-1 gene:D2063.3 10/11 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:4338776-4339817(-) 100.0 100.0
Public Domain and Genome References
Ensembl D2063.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001023756 D2063.3a [Caenorhabditis elegans] gb|AAL27238.1| Hypothetical protein D2063.3a [Caenorhabditis elegans] 1.0E-180
blast NP_001023757 D2063.3b [Caenorhabditis elegans] gb|AAT68898.1| Hypothetical protein D2063.3b [Caenorhabditis elegans] 1.0E-165
blast CAE74190 Hypothetical protein CBG21865 [Caenorhabditis briggsae] 1.0E-153
Sequence
Target Sequence 
>C. ELEGANS:175577_AT
gagacaccaaagtgcggattttcacgaactatcgttgatttgttgaacaaggctcgtgct
gattatcatacttttgatatcttggaggatgaggaagtcaggcaagggcttaagaaattc
tccaattggccaacttatccacagctctatctcgacggagagctcgtcggagggcttgat
gtcgtcaaggaagagctcttggatacgcatttccttcgtcagattccaagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGACACCAAAGTGCGGATTTTCAC 235 387 14 Antisense
GTGCGGATTTTCACGAACTATCGTT 37 471 25 Antisense
ACAAGGCTCGTGCTGATTATCATAC 467 113 60 Antisense
AGGCAAGGGCTTAAGAAATTCTCCA 331 53 113 Antisense
AAATTCTCCAATTGGCCAACTTATC 697 115 128 Antisense
AATTGGCCAACTTATCCACAGCTCT 697 179 137 Antisense
TCCACAGCTCTATCTCGACGGAGAG 166 589 151 Antisense
AGAGCTCGTCGGAGGGCTTGATGTC 373 69 172 Antisense
TTGATGTCGTCAAGGAAGAGCTCTT 145 705 189 Antisense
TCTTGGATACGCATTTCCTTCGTCA 406 609 210 Antisense
CATTTCCTTCGTCAGATTCCAAGAA 104 215 221 Antisense
Sequence Source Affymetrix Proprietary Database