[Home] | [Total List]

[175236_at]

Description AV176225_rc /REP_DB=TREMBL Accession /GB=AV176225 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk509h2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 89      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 91      6grp_total > 99      4grp_total > 48      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 255
1 2 3 4 range
A 204.3
(-2.8)
P 		328.1
(0.2)
P 		448.7
(3)
P 		193.9
(-3)
P 		255
B 229.3
(-3)
P 		330.9
(3)
P 		249.2
(-1.8)
P 		253.9
(-1.5)
P 		102
C 293.8
(-1.6)
P 		272.9
(-3)
P 		362.8
(3)
P 		339.5
(1.4)
P 		90
avr 242.5
(-3) 		310.6
(0.7) 		353.6
(3) 		262.4
(-1.9) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 245
1 2 3 4 5 6 range
A 313.7
(0.7)
P 		263.3
(-0.8)
P 		203.3
(-2.6)
P 		190.7
(-3)
P 		389.5
(3)
P 		348.4
(1.8)
P 		199
B 225.4
(-0.2)
P 		222.7
(-0.5)
P 		190.9
(-3)
P 		227.8
(-0)
P 		263.7
(2.8)
P 		265.9
(3)
P 		75
C 245.3
(1.1)
P 		144.9
(-3)
P 		222.8
(0.2)
P 		250.3
(1.3)
P 		265.2
(1.9)
P 		290.8
(3)
P 		146
avr 261.5
(0.3) 		210.3
(-2.7) 		205.7
(-3) 		222.9
(-2) 		306.1
(3) 		301.7
(2.7) 		100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 74.4
(0.1)
P 		71.2
(-0.1)
P 		117.3
(3)
P 		28.4
(-3)
P 		89
B 73.1
(1.1)
P 		81.7
(3)
P 		57.7
(-2.2)
P 		54.1
(-3)
P 		28
C 97.3
(0.5)
P 		78.5
(-1.2)
P 		126.4
(3)
P 		57.2
(-3)
P 		69
avr 81.6
(0.9) 		77.1
(0.4) 		100.5
(3) 		46.6
(-3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 57.8
(-1.9)
P 		93.7
(1)
P 		44.3
(-3)
P 		48.4
(-2.7)
P 		117.5
(3)
P 		84.8
(0.3)
P 		73
B 78.4
(0.2)
P 		74.1
(-0.3)
P 		46.3
(-3)
P 		60.3
(-1.6)
P 		107.1
(3)
P 		99.2
(2.2)
P 		61
C 90.9
(2.3)
P 		44.2
(-3)
P 		56.7
(-1.6)
P 		50.3
(-2.3)
P 		85.8
(1.7)
P 		97.4
(3)
P 		53
avr 75.7
(-0.1) 		70.7
(-0.6) 		49.1
(-3) 		53
(-2.6) 		103.5
(3) 		93.8
(1.9) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175236_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22217
Sequence Type Exemplar sequence
Representative Public ID AV176225 NCBI
Target Description AV176225_rc /REP_DB=TREMBL Accession /GB=AV176225 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk509h2 : 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_077239(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077239 NCBI Caenorhabditis elegans T09B9.4 (T09B9.4) mRNA, complete cds. 11/11 None
T09B9.4.1 ENSEMBL cdna:known chromosome:CEL140:X:9771645:9774283:-1 gene:T09B9.4 11/11 None
T09B9.4.2 ENSEMBL cdna:known chromosome:CEL140:X:9771646:9774285:-1 gene:T09B9.4 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
chrX:9771698-9771999(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T09B9.4
Entrez Gene 181190 Entrez gene
SwissProt Q09350 EMBL-EBI
WormBase CE01652 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA87341 Hypothetical protein T09B9.4 [Caenorhabditis elegans] ref|NP_509640.1| T09B9.4 [Caenorhabditis elegans] sp|Q09350|YRU4_CAEEL Hypothetical protein T09B9.4 in chromosome X 0.0
blast CAE58706 Hypothetical protein CBG01890 [Caenorhabditis briggsae] 0.0
blast EAA11792 ENSANGP00000013465 [Anopheles gambiae str. PEST] ref|XP_315910.2| ENSANGP00000013465 [Anopheles gambiae str. PEST] 3.0E-24
Sequence
Target Sequence 
>C. ELEGANS:175236_AT
ttagctagccttgttcccaatgaattaatcactttgtcccaataatcattaggtatacac
atttacatgtgtctttccctcaaatatgttaaatcacatccagcatccctccaccggtct
tttgttcttttaaatgctcctgttcattataccaagtagactcatgcttaaccgcttgat
gcataatgttgcggaatattgaacatacacccatcccaccgcgtcttcccgtcccgtttt
atattttcattcggttttatggctccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTAGCTAGCCTTGTTCCCAATGAAT 362 681 13 Antisense
AATGAATTAATCACTTTGTCCCAAT 623 163 31 Antisense
ACTTTGTCCCAATAATCATTAGGTA 263 95 43 Antisense
CACATTTACATGTGTCTTTCCCTCA 223 195 70 Antisense
ATGTTAAATCACATCCAGCATCCCT 380 47 98 Antisense
CTTTTGTTCTTTTAAATGCTCCTGT 235 223 131 Antisense
ATGCTCCTGTTCATTATACCAAGTA 180 41 146 Antisense
AAGTAGACTCATGCTTAACCGCTTG 644 155 166 Antisense
TGCTTAACCGCTTGATGCATAATGT 533 579 177 Antisense
GAATATTGAACATACACCCATCCCA 514 325 206 Antisense
TTTTCATTCGGTTTTATGGCTCCCA 538 675 256 Antisense
Sequence Source Affymetrix Proprietary Database