[Home] | [Total List]

[175384_at]

Description AV183447_rc /REP_DB=TREMBL Accession /GB=AV183447 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk651g3 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 18      4grp_high_8_8 > 22      6grp_total > 18      4grp_total > 07      6grp_cgc > 02      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 100.9
(1)
P 		94.1
(-0.2)
A 		111.5
(3)
P 		79.1
(-3)
M 		32
B 94.1
(-0.8)
P 		71
(-3)
A 		100.3
(-0.2)
P 		134.1
(3)
P 		63
C 115.1
(3)
P 		107.2
(-3)
P 		114
(2.2)
P 		109.3
(-1.4)
P 		8
avr 103.4
(1.2) 		90.8
(-3) 		108.6
(3) 		107.5
(2.6) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 170
1 2 3 4 5 6 range
A 132
(3)
P 		74
(-2)
P 		77
(-1.8)
M 		63
(-3)
P 		116.7
(1.7)
P 		66.7
(-2.7)
P 		69
B 140.2
(3)
P 		82.5
(-1.1)
P 		54.8
(-3)
P 		67
(-2.1)
P 		94.8
(-0.2)
P 		63.9
(-2.4)
P 		85
C 207.7
(3)
P 		95.8
(-0.9)
P 		82.1
(-1.4)
A 		37.7
(-3)
P 		93.9
(-1)
P 		70.2
(-1.9)
P 		170
avr 160
(3) 		84.1
(-1.4) 		71.3
(-2.1) 		55.9
(-3) 		101.8
(-0.4) 		66.9
(-2.4) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 36.7
(3)
P 		20.4
(-0.9)
A 		29.2
(1.2)
P 		11.6
(-3)
M 		25
B 30
(3)
P 		17.5
(-3)
A 		23.2
(-0.3)
P 		28.6
(2.3)
P 		13
C 38.1
(2.5)
P 		30.8
(0.5)
P 		39.7
(3)
P 		18.4
(-3)
P 		21
avr 34.9
(3) 		22.9
(-1.7) 		30.7
(1.4) 		19.5
(-3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 24.3
(-0.4)
P 		26.3
(0.2)
P 		16.8
(-2.8)
M 		16
(-3)
P 		35.2
(3)
P 		16.2
(-2.9)
P 		19
B 48.8
(3)
P 		27.5
(-0.6)
P 		13.3
(-3)
P 		17.8
(-2.2)
P 		38.5
(1.3)
P 		23.8
(-1.2)
P 		36
C 77
(3)
P 		29.2
(-1.1)
P 		20.9
(-1.9)
A 		7.6
(-3)
P 		30.4
(-1)
P 		23.5
(-1.6)
P 		69
avr 50
(3) 		27.7
(-0.7) 		17
(-2.5) 		13.8
(-3) 		34.7
(0.5) 		21.2
(-1.8) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175384_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20610
Sequence Type Exemplar sequence
Representative Public ID AV183447 NCBI
Target Description AV183447_rc /REP_DB=TREMBL Accession /GB=AV183447 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk651g3 : 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_001027093(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027093 NCBI Caenorhabditis elegans Connection Of Gonad defective family member (cog-1) (cog-1) mRNA, complete cds. 11/11 None
R03C1.3a ENSEMBL cdna:known chromosome:CEL140:II:14902383:14907423:1 gene:R03C1.3 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175149 2 1 NM_001027093 175384_at (11), 189136_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:14907062-14907342(+) 100.0 100.0
Public Domain and Genome References
Ensembl R03C1.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05260 Hypothetical protein R03C1.3a [Caenorhabditis elegans] ref|NP_001022264.1| Connection Of Gonad defective family member (cog-1) [Caenorhabditis elegans] gb|AAN72826.1| COG-1A [Caenorhabditis elegans] 1.0E-111
blast CAE73438 Hypothetical protein CBG20882 [Caenorhabditis briggsae] 3.0E-94
blast CAD62039 Hypothetical protein R03C1.3b [Caenorhabditis elegans] ref|NP_871915.1| Connection Of Gonad defective family member (cog-1) [Caenorhabditis elegans] gb|AAN72827.1| COG-1B [Caenorhabditis elegans] 1.0E-54
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.99999984132761E-20
Pfam IPR001356 EMBL-EBI Homeobox 1.9E-28
Sequence
Target Sequence 
>C. ELEGANS:175384_AT
tgcaattttttcctgaagccctttaagaaaatccaaaatcatgaccttcttccgtcttta
cacctgattacctgaataccaacaccccacacagatgccatgatctctcgtcttttctcg
tacttttgtataatttttttcttaatttttttgcatgttttcccatagttatagccattt
ttttttctttttttttccaaatcatcgtcacttatacaaaaacca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCAATTTTTTCCTGAAGCCCTTTA 310 575 38 Antisense
AATCCAAAATCATGACCTTCTTCCG 489 165 67 Antisense
AAAATCATGACCTTCTTCCGTCTTT 487 133 72 Antisense
CGTCTTTACACCTGATTACCTGAAT 350 243 90 Antisense
CCTGATTACCTGAATACCAACACCC 17 267 100 Antisense
ACACAGATGCCATGATCTCTCGTCT 476 111 126 Antisense
TCGTCTTTTCTCGTACTTTTGTATA 221 605 145 Antisense
TTTTTTGCATGTTTTCCCATAGTTA 368 675 184 Antisense
TCCCATAGTTATAGCCATTTTTTTT 188 599 198 Antisense
TTTTTCCAAATCATCGTCACTTATA 652 673 229 Antisense
ATCATCGTCACTTATACAAAAACCA 689 29 238 Antisense
Sequence Source Affymetrix Proprietary Database