[Home] | [Total List]

[173023_at]

Description C33846_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C33846 /DEF=C.elegans cDNA clone yk376a2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 23      4grp_high_8_8 > 02      6grp_highest_nonorm > 71      6grp_total > 21      4grp_total > 14      6grp_highest_sub > 02      6grp_high1_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 252
1 2 3 4 range
A 303.3
(3)
P 		136.2
(-2.4)
P 		115.9
(-3)
P 		268
(1.9)
P 		187
B 197.4
(0)
P 		112.3
(-2)
P 		69.8
(-3)
A 		321.9
(3)
P 		252
C 244.1
(1.7)
P 		122.3
(-3)
P 		124.8
(-2.9)
P 		276.6
(3)
P 		154
avr 248.3
(1.7) 		123.6
(-2.3) 		103.5
(-3) 		288.8
(3) 		185

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 227
1 2 3 4 5 6 range
A 304.3
(0.3)
P 		374.6
(3)
P 		344.9
(1.9)
P 		280
(-0.6)
P 		260.1
(-1.4)
P 		218.6
(-3)
P 		156
B 410.4
(2.7)
P 		418.1
(3)
P 		384.6
(1.9)
P 		361.6
(1.1)
P 		259.5
(-2.4)
P 		243.1
(-3)
P 		175
C 260.5
(-2.8)
P 		445.9
(3)
P 		309.6
(-1.2)
P 		297.6
(-1.6)
P 		252.8
(-3)
P 		273.8
(-2.3)
P 		193
avr 325.1
(-0.1) 		412.9
(3) 		346.4
(0.6) 		313.1
(-0.6) 		257.5
(-2.6) 		245.2
(-3) 		168
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 110.4
(3)
P 		29.6
(-3)
P 		30.3
(-2.9)
P 		39.2
(-2.3)
P 		81
B 62.9
(2.3)
P 		27.7
(-1.7)
P 		16.2
(-3)
A 		68.6
(3)
P 		52
C 80.8
(3)
P 		35.2
(-3)
P 		43.5
(-1.9)
P 		46.6
(-1.5)
P 		46
avr 84.7
(3) 		30.8
(-2.9) 		30
(-3) 		51.5
(-0.6) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 56.1
(-2.8)
P 		133.2
(3)
P 		75.1
(-1.4)
P 		71
(-1.7)
P 		78.5
(-1.1)
P 		53.2
(-3)
P 		80
B 142.8
(3)
P 		139.2
(2.6)
P 		93.4
(-2.7)
P 		95.8
(-2.4)
P 		105.4
(-1.3)
P 		90.6
(-3)
P 		52
C 96.6
(-0.1)
P 		136
(3)
P 		78.8
(-1.5)
P 		59.8
(-3)
P 		81.8
(-1.3)
P 		91.6
(-0.5)
P 		76
avr 98.5
(-0.7) 		136.1
(3) 		82.4
(-2.3) 		75.5
(-3) 		88.6
(-1.7) 		78.5
(-2.7) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173023_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26330
Sequence Type Exemplar sequence
Representative Public ID C33846 NCBI
Target Description C33846_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C33846 /DEF=C.elegans cDNA clone yk376a2 : 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_065132(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065132 NCBI Caenorhabditis elegans Y54F10BM.9 (Y54F10BM.9) mRNA, complete cds. 11/11 None
GENEFINDER00000027500 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2295456:2307995:-1 9/11 None
Y54F10BM.9 ENSEMBL cdna:known chromosome:CEL140:III:2295331:2304902:-1 gene:Y54F10BM.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000027486 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:2295399-2295699(-) 99.67 99.67
Public Domain and Genome References
Gene Title
Ensembl Y54F10BM.9
Entrez Gene 175351 Entrez gene
SwissProt Q95XL0 EMBL-EBI
WormBase CE29121 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68900 Hypothetical protein Y54F10BM.9 [Caenorhabditis elegans] ref|NP_497533.1| Y54F10BM.9 [Caenorhabditis elegans] 0.0
blast AAK68889 Hypothetical protein Y54F10BM.10 [Caenorhabditis elegans] ref|NP_497534.1| Y54F10BM.10 [Caenorhabditis elegans] 1.0E-135
blast CAB03494 Hypothetical protein ZC47.6 [Caenorhabditis elegans] ref|NP_497363.1| ZC47.6 [Caenorhabditis elegans] 2.0E-39
blast CAB03996 Hypothetical protein C54E10.1 [Caenorhabditis elegans] ref|NP_507677.2| C54E10.1 [Caenorhabditis elegans] 3.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 4.7E-35
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.2E-11
Sequence
Target Sequence 
>C. ELEGANS:173023_AT
ggtatatgtctcatcacaagcggtagatagtggtgcggagattacgtcgaagaatactag
tcgagccccatcagaacccgttggagaagttcaggaagagatcagagaaggcgatggnta
caatatgaatacagagcccatacttgttggagaagctccgggacttgcacaagttaaaca
agaggttccgggagacaataaaaaaagcttatttggaatgctagaacgcttttgaacaac
agattttcatcgggttta

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
GGTATATGTCTCATCACAAGCGGTA 605 503 22 Antisense
ACAAGCGGTAGATAGTGGTGCGGAG 259 111 37 Antisense
GTGGTGCGGAGATTACGTCGAAGAA 453 489 51 Antisense
CGAAGAATACTAGTCGAGCCCCATC 590 253 69 Antisense
GCCCCATCAGAACCCGTTGGAGAAG 644 285 86 Antisense
GAATACAGAGCCCATACTTGTTGGA 275 327 148 Antisense
TTGGAGAAGCTCCGGGACTTGCACA 629 703 168 Antisense
AGAAGCTCCGGGACTTGCACAAGTT 550 73 172 Antisense
GCTTATTTGGAATGCTAGAACGCTT 555 303 228 Antisense
TGCTAGAACGCTTTTGAACAACAGA 709 573 240 Antisense
GAACAACAGATTTTCATCGGGTTTA 662 345 255 Antisense
Sequence Source Affymetrix Proprietary Database