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[175247_s_at]

Description AV185009_rc /REP_DB=TREMBL Accession /GB=AV185009 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk672d2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 37      4grp_highest_8_8 > 14      4grp_high_8_8 > 15      6grp_highest_nonorm > 76      6grp_total > 37      4grp_total > 09      6grp_highest_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3216
1 2 3 4 range
A 854.9
(-3)
P 		1154.8
(-2.2)
P 		1424.4
(-1.4)
P 		2993.4
(3)
P 		2139
B 872.6
(-3)
P 		1032.3
(-2.7)
P 		1594.2
(-1.6)
P 		4055.5
(3)
P 		3183
C 839.6
(-3)
P 		1049.7
(-2.5)
P 		1245.7
(-2.1)
P 		3473.6
(3)
P 		2634
avr 855.7
(-3) 		1078.9
(-2.5) 		1421.4
(-1.7) 		3507.5
(3) 		2652

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1005
1 2 3 4 5 6 range
A 1757.1
(3)
P 		1076.6
(-1.7)
P 		940.9
(-2.7)
P 		893.7
(-3)
P 		909.9
(-2.9)
P 		1397.3
(0.5)
P 		863
B 1318.1
(2.5)
P 		1034.5
(-0.2)
P 		1164.9
(1)
P 		988.6
(-0.7)
P 		752
(-3)
P 		1368
(3)
P 		616
C 1411.6
(3)
P 		1012.7
(-0.8)
P 		1078.9
(-0.2)
P 		953.5
(-1.3)
P 		779.3
(-3)
P 		1124.3
(0.3)
P 		632
avr 1495.6
(3) 		1041.3
(-1) 		1061.6
(-0.8) 		945.3
(-1.8) 		813.7
(-3) 		1296.5
(1.2) 		682
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 614
1 2 3 4 range
A 311.3
(-1.1)
P 		250.7
(-3)
P 		372.4
(0.9)
P 		438.2
(3)
P 		188
B 278.3
(-2.8)
P 		254.9
(-3)
P 		369.4
(-1.9)
P 		864.2
(3)
P 		609
C 277.9
(-3)
P 		301.8
(-2.5)
P 		434.2
(0)
P 		585.7
(3)
P 		308
avr 289.2
(-2.7) 		269.1
(-3) 		392
(-1) 		629.4
(3) 		360

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 331
1 2 3 4 5 6 range
A 323.9
(1)
P 		382.9
(3)
P 		204.9
(-3)
P 		226.7
(-2.3)
P 		274.6
(-0.7)
P 		340.2
(1.6)
P 		178
B 458.6
(1.8)
P 		344.4
(-1)
P 		282.9
(-2.5)
P 		261.8
(-3)
P 		305.5
(-1.9)
P 		510.1
(3)
P 		248
C 523.2
(3)
P 		309
(-0.9)
P 		274.6
(-1.5)
P 		191.8
(-3)
P 		252.2
(-1.9)
P 		376.4
(0.3)
P 		331
avr 435.2
(3) 		345.4
(0.4) 		254.1
(-2.2) 		226.8
(-3) 		277.4
(-1.5) 		408.9
(2.2) 		208
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175247_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22325
Sequence Type Exemplar sequence
Representative Public ID AV185009 NCBI
Target Description AV185009_rc /REP_DB=TREMBL Accession /GB=AV185009 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk672d2 : 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_078463(11), NM_078464(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078463 NCBI Caenorhabditis elegans 6R55.1b (6R55.1) mRNA, complete cds. 11/11 A 
NM_078464 NCBI Caenorhabditis elegans 6R55.1a (6R55.1) mRNA, complete cds. 11/11 A 
GENEFINDER00000030213 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:17714876:17718529:1 11/11 None
SNAP00000030212 ENSEMBL cdna:SNAP chromosome:CEL140:X:17716885:17718496:1 9/11 None
6R55.1b ENSEMBL cdna:known chromosome:CEL140:X:17714874:17718629:1 gene:6R55.1 11/11 A 
6R55.1a ENSEMBL cdna:known chromosome:CEL140:X:17714876:17718593:1 gene:6R55.1 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:17717278-17718551(+) 100.0 100.0
Public Domain and Genome References
Ensembl 6R55.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA20192 Hypothetical protein 6R55.1a [Caenorhabditis elegans] ref|NP_510865.1| 6R55.1a [Caenorhabditis elegans] 1.0E-127
blast CAC35870 Hypothetical protein 6R55.1b [Caenorhabditis elegans] ref|NP_510864.1| 6R55.1b [Caenorhabditis elegans] 1.0E-121
blast CAE70007 Hypothetical protein CBG16421 [Caenorhabditis briggsae] 1.0E-103
blast CAA20192 Hypothetical protein 6R55.1a [Caenorhabditis elegans] ref|NP_510865.1| 6R55.1a [Caenorhabditis elegans] 1.0E-91
blast CAA20192 Hypothetical protein 6R55.1a [Caenorhabditis elegans] ref|NP_510865.1| 6R55.1a [Caenorhabditis elegans] 2.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR006838 EMBL-EBI FAR-17a/AIG1-like protein 1.8E-91
Pfam IPR006838 EMBL-EBI FAR-17a/AIG1-like protein 3.3E-78
Pfam IPR006838 EMBL-EBI FAR-17a/AIG1-like protein 6.8E-68
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510864.1 5 5-27,42-64,76-98,113-135,142-164
NP_510865.1 6 5-27,42-64,76-98,113-132,145-167,187-209
6R55.1b 5 5-27,42-64,76-98,113-135,142-164
6R55.1a 6 5-27,42-64,76-98,113-132,145-167,187-209
GENEFINDER00000030213 6 5-27,42-64,76-98,113-132,145-167,187-209
SNAP00000030212 4 27-49,64-83,96-118,138-160
Sequence
Target Sequence 
>C. ELEGANS:175247_S_AT
ccagcgccatcctcaagggaatcgctgtttttgtgacgctctacttgattgatttccagc
ctccattacgtcttctacacttctggcttctgggcgtacccgattctcggagaacttgcc
gcaccattccgccttgtgttcattgctgcctgcatgttcattgtctacctcggctacgtg
tggctatctttcctcggtgccctcgtgcacggagtcgagaaaccaaaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAGCGCCATCCTCAAGGGAATCGC 291 273 33 Antisense
CGCCATCCTCAAGGGAATCGCTGTT 630 257 37 Antisense
AGGGAATCGCTGTTTTTGTGACGCT 239 59 48 Antisense
CCATTACGTCTTCTACACTTCTGGC 430 267 95 Antisense
GGCGTACCCGATTCTCGGAGAACTT 316 501 125 Antisense
ACCCGATTCTCGGAGAACTTGCCGC 92 89 130 Antisense
ATTCTCGGAGAACTTGCCGCACCAT 351 11 135 Antisense
TGTTCATTGCTGCCTGCATGTTCAT 309 561 169 Antisense
ATTGCTGCCTGCATGTTCATTGTCT 336 7 174 Antisense
TGCCCTCGTGCACGGAGTCGAGAAA 439 583 230 Antisense
GTGCACGGAGTCGAGAAACCAAAGA 697 473 237 Antisense
Sequence Source Affymetrix Proprietary Database