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[175540_at]

Description AV177651_rc /REP_DB=TREMBL Accession /GB=AV177651 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk531f11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 25      4grp_highest_8_8 > 05      4grp_high_8_8 > 29      6grp_highest_nonorm > 90      6grp_total > 15      4grp_total > 26      6grp_highest_sub > 01_02      6grp_high1_sub > 01_02      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 153
1 2 3 4 range
A 133.1
(-2.7)
P 		252.1
(3)
P 		127.4
(-3)
P 		191.6
(0.1)
P 		125
B 158.1
(-3)
P 		207.8
(-0)
P 		157.4
(-3)
P 		259.6
(3)
P 		102
C 106.4
(-3)
P 		192
(1)
P 		218.4
(2.2)
P 		235.9
(3)
P 		130
avr 132.5
(-3) 		217.3
(2.3) 		167.7
(-0.8) 		229
(3) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 146
1 2 3 4 5 6 range
A 211.8
(3)
P 		183
(1.7)
P 		134.2
(-0.5)
P 		112.9
(-1.4)
P 		110.1
(-1.5)
P 		76.9
(-3)
P 		135
B 128.8
(-0.3)
P 		173.2
(3)
P 		92.9
(-3)
P 		143.6
(0.8)
P 		139.3
(0.5)
P 		139.9
(0.5)
P 		80
C 222.6
(3)
P 		223.3
(3)
P 		86.9
(-3)
P 		97.5
(-2.5)
P 		133.2
(-1)
P 		113.1
(-1.8)
P 		136
avr 187.7
(2.6) 		193.2
(3) 		104.7
(-3) 		118
(-2.1) 		127.5
(-1.5) 		110
(-2.6) 		89
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 48.5
(1.6)
P 		54.7
(3)
P 		33.3
(-1.8)
P 		28
(-3)
P 		27
B 50.4
(1.4)
P 		51.3
(1.7)
P 		36.5
(-3)
P 		55.3
(3)
P 		19
C 35.2
(-3)
P 		55.2
(-0.1)
P 		76.1
(3)
P 		39.8
(-2.3)
P 		41
avr 44.7
(-1.3) 		53.7
(3) 		48.6
(0.6) 		41
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 39.1
(-0.4)
P 		65.1
(3)
P 		29.2
(-1.6)
P 		28.6
(-1.7)
P 		33.2
(-1.1)
P 		18.7
(-3)
P 		46
B 44.8
(0.8)
P 		57.6
(3)
P 		22.6
(-3)
P 		38
(-0.4)
P 		56.6
(2.8)
P 		52.2
(2.1)
P 		35
C 82.5
(3)
P 		68.1
(1.6)
P 		22.1
(-2.8)
P 		19.6
(-3)
P 		43.1
(-0.8)
P 		37.9
(-1.3)
P 		63
avr 55.5
(1.8) 		63.6
(3) 		24.6
(-3) 		28.7
(-2.4) 		44.3
(0) 		36.3
(-1.2) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175540_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22271
Sequence Type Exemplar sequence
Representative Public ID AV177651 NCBI
Target Description AV177651_rc /REP_DB=TREMBL Accession /GB=AV177651 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk531f11 : 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_077887(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077887 NCBI Caenorhabditis elegans C04A11.1 (C04A11.1) mRNA, complete cds. 11/11 None
C04A11.1 ENSEMBL cdna:known chromosome:CEL140:X:13660438:13662882:1 gene:C04A11.1 11/11 A 
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:13662545-13662821(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C04A11.1
Entrez Gene 181486 Entrez gene
SwissProt O17567 EMBL-EBI
WormBase CE23516 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03830 Hypothetical protein C04A11.1 [Caenorhabditis elegans] ref|NP_510288.1| C04A11.1 [Caenorhabditis elegans] 7.0E-78
blast CAE63104 Hypothetical protein CBG07396 [Caenorhabditis briggsae] 1.0E-72
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510288.1 1 24-46
C04A11.1 1 24-46
Sequence
Target Sequence 
>C. ELEGANS:175540_AT
tgctcattcgaattgtttcagagagagagtcttcatacggttttgaacatagaaaccgtt
ttgtaaatttctctacttaaatgtcatgattcgtgttatctacctataactcggtaatat
aattatctcctcaatccatgtctatctattcttcaaacttctacccaatcatcccccagt
cagcaaaatcgtacggttaatccatttcgcaccaaaaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTCATTCGAATTGTTTCAGAGAG 83 581 17 Antisense
CAGAGAGAGAGTCTTCATACGGTTT 17 207 35 Antisense
TTTCTCTACTTAAATGTCATGATTC 3 673 84 Antisense
GTCATGATTCGTGTTATCTACCTAT 41 467 99 Antisense
GTTATCTACCTATAACTCGGTAATA 456 445 111 Antisense
GGTAATATAATTATCTCCTCAATCC 161 505 129 Antisense
TCCTCAATCCATGTCTATCTATTCT 536 591 144 Antisense
CATGTCTATCTATTCTTCAAACTTC 13 211 153 Antisense
TCCCCCAGTCAGCAAAATCGTACGG 278 595 188 Antisense
ATCGTACGGTTAATCCATTTCGCAC 272 33 204 Antisense
GTTAATCCATTTCGCACCAAAAAAT 18 447 212 Antisense
Sequence Source Affymetrix Proprietary Database