[Home] | [Total List]

[175311_s_at]

Description AV200369_rc /REP_DB=TREMBL Accession /GB=AV200369 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk574c4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 73      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 63      6grp_total > 64      4grp_total > 54      6grp_high1_sub > 03_04      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 649
1 2 3 4 range
A 734.6
(3)
P 		346.4
(-2)
P 		505.7
(0.1)
P 		264.5
(-3)
P 		470
B 454.7
(1)
P 		557.9
(3)
P 		271.5
(-2.4)
P 		241.3
(-3)
P 		317
C 890.6
(3)
P 		311.9
(-2.7)
P 		398.6
(-1.9)
P 		286
(-3)
P 		605
avr 693.3
(3) 		405.4
(-1) 		391.9
(-1.2) 		263.9
(-3) 		429

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 938
1 2 3 4 5 6 range
A 328.9
(-3)
P 		561.1
(-1.5)
P 		1263.4
(3)
P 		993.1
(1.3)
P 		485.4
(-2)
P 		449.7
(-2.2)
P 		935
B 555.7
(-0.8)
P 		372.1
(-3)
P 		876.3
(3)
P 		699.3
(0.9)
P 		611.6
(-0.1)
P 		853.9
(2.7)
P 		504
C 325.4
(-3)
P 		524.4
(-1.1)
P 		739.4
(0.9)
P 		904.7
(2.5)
P 		701.6
(0.6)
P 		959.9
(3)
P 		635
avr 403.3
(-3) 		485.9
(-2.1) 		959.7
(3) 		865.7
(2) 		599.5
(-0.9) 		754.5
(0.8) 		556
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 256
1 2 3 4 range
A 267.5
(3)
P 		75.2
(-2)
P 		132.2
(-0.5)
P 		38.7
(-3)
P 		229
B 145
(3)
P 		137.8
(2.5)
P 		62.9
(-2.3)
P 		51.4
(-3)
P 		94
C 294.8
(3)
P 		89.7
(-2)
P 		138.9
(-0.8)
P 		48.2
(-3)
P 		247
avr 235.8
(3) 		100.9
(-1.3) 		111.3
(-0.9) 		46.1
(-3) 		190

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 261
1 2 3 4 5 6 range
A 60.6
(-3)
P 		199.6
(0.9)
P 		275.2
(3)
P 		251.9
(2.3)
P 		146.5
(-0.6)
P 		109.5
(-1.6)
P 		215
B 193.4
(-0.9)
P 		123.8
(-3)
P 		212.8
(-0.3)
P 		185.2
(-1.1)
P 		248.5
(0.8)
P 		318.4
(3)
P 		195
C 120.6
(-3)
P 		160
(-1.8)
P 		188.2
(-1)
P 		181.9
(-1.2)
P 		227
(0.2)
P 		321.3
(3)
P 		201
avr 124.9
(-3) 		161.1
(-1.3) 		225.4
(1.8) 		206.3
(0.9) 		207.3
(1) 		249.7
(3) 		125
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175311_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20712
Sequence Type Exemplar sequence
Representative Public ID AV200369 NCBI
Target Description AV200369_rc /REP_DB=TREMBL Accession /GB=AV200369 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk574c4 : 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_182200(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182200 NCBI Caenorhabditis elegans F39E9.11 (F39E9.11) mRNA, complete cds. 11/11 None
SNAP00000020865 ENSEMBL cdna:SNAP chromosome:CEL140:II:3295431:3296547:1 11/11 None
GENEFINDER00000020880 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3295431:3297973:1 11/11 None
F39E9.11 ENSEMBL cdna:known chromosome:CEL140:II:3295431:3296547:1 gene:F39E9.11 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_062098 3/11 Cross Hyb Matching Probes None
SNAP00000020866 3/11 Cross Hyb Matching Probes None
F39E9.2 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:3296169-3296500(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F39E9.11
Entrez Gene 173673 Entrez gene
SwissProt Q8ITZ2 EMBL-EBI
WormBase CE32653 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAN65317 Hypothetical protein F39E9.11 [Caenorhabditis elegans] ref|NP_872000.1| F39E9.11 [Caenorhabditis elegans] 0.0
blast H88094 protein F39E9.2 [imported] - Caenorhabditis elegans 0.0
blast AAN65317 Hypothetical protein F39E9.11 [Caenorhabditis elegans] ref|NP_872000.1| F39E9.11 [Caenorhabditis elegans] 1.0E-175
blast H88094 protein F39E9.2 [imported] - Caenorhabditis elegans 1.0E-174
blast AAN65319 Hypothetical protein F39E9.2 [Caenorhabditis elegans] ref|NP_494499.2| F39E9.2 [Caenorhabditis elegans] 1.0E-174
blast AAN65319 Hypothetical protein F39E9.2 [Caenorhabditis elegans] ref|NP_494499.2| F39E9.2 [Caenorhabditis elegans] 1.0E-139
Protein Domains
Database ID Description E-Value
Pfam IPR000210 EMBL-EBI BTB/POZ domain 6.8E-32
Pfam IPR000210 EMBL-EBI BTB/POZ domain 1.5E-34
Sequence
Target Sequence 
>C. ELEGANS:175311_S_AT
ggactactgatgaccacgatttatccgaaaacagagtttcctagtgaccgaactgcggag
aaaatcctagaaatggcagatcgtttcatggtgcaatccgccattgatcatgttgagtac
catttgcttcacaattcacgtatcacgaatgagagtatgatgtggatggctgacaagtat
ggaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACTACTGATGACCACGATTTATC 666 523 14 Antisense
GATGACCACGATTTATCCGAAAACA 570 409 22 Antisense
TATCCGAAAACAGAGTTTCCTAGTG 514 291 35 Antisense
CCGAACTGCGGAGAAAATCCTAGAA 206 261 61 Antisense
AAATCCTAGAAATGGCAGATCGTTT 103 119 75 Antisense
CAGATCGTTTCATGGTGCAATCCGC 641 205 90 Antisense
GTGCAATCCGCCATTGATCATGTTG 604 479 104 Antisense
GATCATGTTGAGTACCATTTGCTTC 325 421 119 Antisense
GTACCATTTGCTTCACAATTCACGT 79 459 130 Antisense
TTGCTTCACAATTCACGTATCACGA 31 705 137 Antisense
GTGGATGGCTGACAAGTATGGAATG 601 489 175 Antisense
Sequence Source Affymetrix Proprietary Database