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[171863_x_at]

Description C34858_rc /REP_DB=TREMBL Accession /GB=C34858 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk414g10 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 47      4grp_high_8_8 > 37      6grp_total > 48      4grp_total > 43      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 182.1
(-1.6)
P 		190.5
(3)
P 		182
(-1.6)
P 		179.5
(-3)
P 		11
B 67.5
(-3)
P 		213.4
(3)
P 		152.7
(0.5)
P 		138.9
(-0.1)
A 		146
C 180.1
(3)
P 		148.8
(0.1)
P 		115
(-3)
P 		138.7
(-0.8)
P 		65
avr 143.2
(-3) 		184.2
(3) 		149.9
(-2) 		152.4
(-1.7) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 238.9
(3)
P 		154.4
(-0.6)
P 		99.1
(-3)
A 		149.5
(-0.8)
P 		152.4
(-0.7)
P 		166.1
(-0.1)
P 		140
B 156.4
(1.7)
P 		113
(-2.5)
A 		107.9
(-3)
M 		149.4
(1)
P 		114.7
(-2.3)
P 		170.4
(3)
P 		63
C 150.5
(-1.3)
P 		179.5
(1.6)
P 		133.4
(-3)
P 		137
(-2.6)
P 		136.5
(-2.7)
P 		194.1
(3)
P 		61
avr 181.9
(3) 		149
(0.1) 		113.5
(-3) 		145.3
(-0.2) 		134.5
(-1.2) 		176.9
(2.6) 		68
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 66.3
(3)
P 		41.4
(-0.7)
P 		47.6
(0.2)
P 		26.3
(-3)
P 		40
B 21.5
(-3)
P 		52.7
(3)
P 		35.4
(-0.3)
P 		29.6
(-1.4)
A 		31
C 59.6
(3)
P 		42.8
(0.2)
P 		40.1
(-0.2)
P 		23.4
(-3)
P 		36
avr 49.1
(3) 		45.6
(2.1) 		41
(0.9) 		26.4
(-3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 44
(1)
P 		54.9
(3)
P 		21.6
(-3)
A 		37.9
(-0.1)
P 		46
(1.4)
P 		40.5
(0.4)
P 		33
B 54.4
(1.5)
P 		37.6
(-1.2)
A 		26.2
(-3)
M 		39.6
(-0.8)
P 		46.6
(0.3)
P 		63.5
(3)
P 		37
C 55.8
(1.5)
P 		54.8
(1.4)
P 		34
(-2)
P 		27.5
(-3)
P 		44.2
(-0.3)
P 		65
(3)
P 		38
avr 51.4
(2) 		49.1
(1.5) 		27.3
(-3) 		35
(-1.4) 		45.6
(0.8) 		56.3
(3) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171863_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27852
Sequence Type Exemplar sequence
Representative Public ID C34858 NCBI
Target Description C34858_rc /REP_DB=TREMBL Accession /GB=C34858 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk414g10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_077161
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
B0416.5a.5 ENSEMBL cdna:known chromosome:CEL140:X:9268511:9270783:-1 gene:B0416.5 None
B0416.5a.2 ENSEMBL cdna:known chromosome:CEL140:X:9268564:9270785:-1 gene:B0416.5 A 
B0416.5a.1 ENSEMBL cdna:known chromosome:CEL140:X:9268564:9270783:-1 gene:B0416.5 A 
B0416.5a.3 ENSEMBL cdna:known chromosome:CEL140:X:9268568:9271086:-1 gene:B0416.5 A 
NM_077161 NCBI Caenorhabditis elegans B0416.5a (B0416.5) mRNA, complete cds. None
B0416.5a.4 ENSEMBL cdna:known chromosome:CEL140:X:9268568:9271086:-1 gene:B0416.5 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:9268706-9268948(-) 79.0 79.0
Public Domain and Genome References
Ensembl B0416.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAG38882 Hypothetical protein B0416.5a [Caenorhabditis elegans] ref|NP_509562.1| B0416.5a [Caenorhabditis elegans] sp|Q11073|YT45_CAEEL Hypothetical protein B0416.5 in chromosome X 0.0
blast CAE69845 Hypothetical protein CBG16171 [Caenorhabditis briggsae] 0.0
blast AAL11101 Hypothetical protein B0416.5b [Caenorhabditis elegans] ref|NP_509563.1| B0416.5b [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509562.1 12 46-65,80-102,107-129,139-161,182-201,207-229,262-284,299-318,331-348,353-375,387-409,444-466
B0416.5a.5 12 46-65,80-102,107-129,139-161,182-201,207-229,262-284,299-318,331-348,353-375,387-409,444-466
B0416.5a.2 12 46-65,80-102,107-129,139-161,182-201,207-229,262-284,299-318,331-348,353-375,387-409,444-466
B0416.5a.1 12 46-65,80-102,107-129,139-161,182-201,207-229,262-284,299-318,331-348,353-375,387-409,444-466
B0416.5a.3 12 46-65,80-102,107-129,139-161,182-201,207-229,262-284,299-318,331-348,353-375,387-409,444-466
B0416.5a.4 12 46-65,80-102,107-129,139-161,182-201,207-229,262-284,299-318,331-348,353-375,387-409,444-466
Sequence
Target Sequence 
>C. ELEGANS:171863_X_AT
gtggaaccaaatgtcctccagctttctaattttccagtaatatcctcaaactccaacaat
tnnnnnttaatttaatgtactgttatgttgttgcaagcctctcgttctatttctctctac
aatttattattgagcatttccctgcattagagtgcttggttgtgttgttcgagtatacct
gacagccgtaagt

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGGAACCAAATGTCCTCCAGCTTT 229 485 88 Antisense
CCTCCAGCTTTCTAATTTTCCAGTA 348 267 102 Antisense
GTAATATCCTCAAACTCCAACAATT 133 461 124 Antisense
TGTTATGTTGTTGCAAGCCTCTCGT 392 561 168 Antisense
TCGTTCTATTTCTCTCTACAATTTA 647 603 189 Antisense
TATTATTGAGCATTTCCCTGCATTA 52 663 212 Antisense
GCATTTCCCTGCATTAGAGTGCTTG 503 307 221 Antisense
TCCCTGCATTAGAGTGCTTGGTTGT 627 595 226 Antisense
GCTTGGTTGTGTTGTTCGAGTATAC 183 307 241 Antisense
GTTGTTCGAGTATACCTGACAGCCG 549 437 251 Antisense
TCGAGTATACCTGACAGCCGTAAGT 287 597 256 Antisense
Sequence Source Affymetrix Proprietary Database