[Home] | [Total List]

[175422_s_at]

Description AU114976_rc /REP_DB=TREMBL Accession /GB=AU114976 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk724c9 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 29      4grp_highest_8_8 > 31      4grp_high_8_8 > 20      6grp_total > 27      4grp_total > 20      6grp_high1_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 274
1 2 3 4 range
A 342.9
(-3)
P 		581.3
(3)
P 		373.3
(-2.2)
P 		517.6
(1.4)
P 		238
B 449.6
(-0.1)
P 		370.2
(-1.8)
P 		318.6
(-3)
P 		585.3
(3)
P 		267
C 506.7
(0.8)
P 		407.8
(-1.7)
P 		357.7
(-3)
P 		592.6
(3)
P 		235
avr 433.1
(-0.7) 		453.1
(-0.1) 		349.9
(-3) 		565.2
(3) 		215

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 228
1 2 3 4 5 6 range
A 368.9
(3)
P 		315.8
(0.9)
P 		217.8
(-3)
P 		259.6
(-1.3)
P 		224.9
(-2.7)
M 		278.2
(-0.6)
P 		151
B 377.2
(3)
P 		355.9
(2.2)
P 		214
(-3)
P 		246.3
(-1.8)
P 		309.1
(0.5)
P 		321.6
(1)
P 		163
C 409.2
(3)
P 		319.2
(0.6)
P 		333.9
(1)
P 		181.1
(-3)
P 		301.6
(0.2)
M 		288.1
(-0.2)
P 		228
avr 385.1
(3) 		330.3
(0.9) 		255.2
(-2) 		229
(-3) 		278.5
(-1.1) 		296
(-0.4) 		156
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 124.9
(2.8)
P 		126.2
(3)
P 		97.6
(-0.4)
P 		75.8
(-3)
P 		50
B 143.4
(3)
P 		91.4
(-1.5)
P 		73.8
(-3)
P 		124.7
(1.4)
P 		70
C 167.7
(3)
P 		117.2
(-1.5)
P 		124.7
(-0.8)
P 		99.9
(-3)
P 		68
avr 145.3
(3) 		111.6
(-1.3) 		98.7
(-3) 		100.1
(-2.8) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 68
(-1.1)
P 		112.3
(3)
P 		47.4
(-3)
P 		65.8
(-1.3)
P 		67.9
(-1.1)
M 		67.7
(-1.1)
P 		65
B 131.2
(3)
P 		118.4
(2)
P 		52
(-3)
P 		65.2
(-2)
P 		125.6
(2.6)
P 		119.9
(2.1)
P 		79
C 151.7
(3)
P 		97.4
(0.2)
P 		85
(-0.5)
P 		36.4
(-3)
P 		97.6
(0.2)
M 		96.5
(0.1)
P 		115
avr 117
(3) 		109.4
(2.3) 		61.5
(-2.4) 		55.8
(-3) 		97
(1) 		94.7
(0.8) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175422_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20646
Sequence Type Exemplar sequence
Representative Public ID AU114976 NCBI
Target Description AU114976_rc /REP_DB=TREMBL Accession /GB=AU114976 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk724c9 : 3prime end, single read.
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_064444(11), NM_064445(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064444 NCBI Caenorhabditis elegans Y48E1B.2a (Y48E1B.2) mRNA, complete cds. 11/11 None
NM_064445 NCBI Caenorhabditis elegans Y48E1B.2b (Y48E1B.2) mRNA, complete cds. 11/11 None
SNAP00000010059 ENSEMBL cdna:SNAP chromosome:CEL140:II:13533528:13585325:-1 11/11 None
GENEFINDER00000010069 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13533528:13540967:-1 11/11 None
Y48E1B.2a ENSEMBL cdna:known chromosome:CEL140:II:13533455:13540967:-1 gene:Y48E1B.2 11/11 None
Y48E1B.2b ENSEMBL cdna:known chromosome:CEL140:II:13533528:13540952:-1 gene:Y48E1B.2 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:13533512-13535082(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y48E1B.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07689 Hypothetical protein Y48E1B.2a [Caenorhabditis elegans] ref|NP_496845.1| Y48E1B.2a [Caenorhabditis elegans] 0.0
blast CAE73333 Hypothetical protein CBG20762 [Caenorhabditis briggsae] 0.0
blast CAB54438 Hypothetical protein Y48E1B.2b [Caenorhabditis elegans] ref|NP_496846.1| Y48E1B.2b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 0.015
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 0.011
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 5.2E-9
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 7.8E-4
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 0.049
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496845.1 2 44-66,73-95
Y48E1B.2a 2 44-66,73-95
SNAP00000010059 2 1554-1576,1588-1610
GENEFINDER00000010069 2 33-55,92-114
Sequence
Target Sequence 
>C. ELEGANS:175422_S_AT
gagctcgattggatgggttatggtgacgtcggagagggatgttacgttgagtgccttcac
ccctgcgaacaaaggaatcactgcccgaatccaaccaattctaccgtattcggcttctct
acgtggaaaacgtctacccggaagccgattttacaaggttcaacctattcaatttccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTCGATTGGATGGGTTATGGTG 217 385 15 Antisense
GGATGGGTTATGGTGACGTCGGAGA 307 515 25 Antisense
TGGTGACGTCGGAGAGGGATGTTAC 349 553 35 Antisense
GGATGTTACGTTGAGTGCCTTCACC 147 515 51 Antisense
CTTCACCCCTGCGAACAAAGGAATC 42 217 69 Antisense
CAAAGGAATCACTGCCCGAATCCAA 555 189 84 Antisense
CCAACCAATTCTACCGTATTCGGCT 182 277 105 Antisense
GTATTCGGCTTCTCTACGTGGAAAA 455 449 120 Antisense
TCTCTACGTGGAAAACGTCTACCCG 619 585 130 Antisense
TCTACCCGGAAGCCGATTTTACAAG 645 595 147 Antisense
CAAGGTTCAACCTATTCAATTTCCG 524 183 168 Antisense
Sequence Source Affymetrix Proprietary Database