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[171758_x_at]

Description CEK004C7F /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F49E2.5E /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27443 /WB_GENE_ID=F49E2.5E /WP=CE16091 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk4c7 : 5prime end, single read.
Cluster 6grp_high1_10_10 > 55      4grp_highest_8_8 > 35      4grp_high_8_8 > 56      6grp_total > 55      4grp_total > 63      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 235
1 2 3 4 range
A 774.9
(3)
P 		539.5
(-3)
P 		651.4
(-0.1)
P 		578
(-2)
P 		235
B 718.2
(3)
P 		555.6
(-3)
P 		664
(1)
P 		673.6
(1.4)
P 		163
C 738.6
(3)
P 		576.7
(-3)
P 		666.8
(0.3)
P 		648.8
(-0.3)
P 		162
avr 743.9
(3) 		557.3
(-3) 		660.7
(0.3) 		633.5
(-0.5) 		187

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 445
1 2 3 4 5 6 range
A 459
(2.4)
P 		422.9
(1.5)
P 		485.4
(3)
P 		235.9
(-3)
P 		300.3
(-1.5)
P 		415.3
(1.3)
P 		250
B 474.8
(1.2)
P 		448
(0.9)
P 		605.3
(3)
P 		429.1
(0.6)
P 		159.9
(-3)
P 		556.6
(2.3)
P 		445
C 295.5
(-1.3)
M 		351.2
(-0)
P 		484.7
(3)
P 		293.8
(-1.3)
P 		217.7
(-3)
P 		486.6
(3)
P 		269
avr 409.8
(0.7) 		407.4
(0.6) 		525.1
(3) 		319.6
(-1.1) 		226
(-3) 		486.2
(2.2) 		299
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 282.1
(3)
P 		117.1
(-2)
P 		170.3
(-0.4)
P 		84.6
(-3)
P 		198
B 229
(3)
P 		137.2
(-3)
P 		153.9
(-1.9)
P 		143.5
(-2.6)
P 		92
C 244.5
(3)
P 		165.8
(-0.5)
P 		232.4
(2.5)
P 		109.4
(-3)
P 		135
avr 251.9
(3) 		140
(-1.8) 		185.5
(0.1) 		112.5
(-3) 		139

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 84.6
(-1.4)
P 		150.4
(3)
P 		105.7
(0)
P 		59.8
(-3)
P 		90.6
(-1)
P 		101.1
(-0.3)
P 		91
B 165.2
(1.2)
P 		149.1
(0.5)
P 		147
(0.5)
P 		113.6
(-1)
P 		65
(-3)
P 		207.6
(3)
P 		143
C 109.5
(-0.1)
M 		107.2
(-0.2)
P 		123.4
(0.7)
P 		59.1
(-3)
P 		70.4
(-2.3)
P 		162.9
(3)
P 		104
avr 119.8
(0.3) 		135.6
(1.4) 		125.4
(0.7) 		77.5
(-2.8) 		75.3
(-3) 		157.2
(3) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171758_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25756
Sequence Type Exemplar sequence
Representative Public ID CEK004C7F NCBI
Target Description CEK004C7F /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F49E2.5E /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27443 /WB_GENE_ID=F49E2.5E /WP=CE16091 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk4c7 : 5prime 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_001029524(9), NM_077204(9), NM_001029523(9), NM_077208(9), NM_171968(9), NM_077209(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029524 NCBI Caenorhabditis elegans F49E2.5j (F49E2.5) mRNA, complete cds. 9/11 None
NM_077204 NCBI Caenorhabditis elegans F49E2.5a (F49E2.5) mRNA, complete cds. 9/11 A 
NM_001029523 NCBI Caenorhabditis elegans F49E2.5i (F49E2.5) mRNA, complete cds. 9/11 None
NM_077208 NCBI Caenorhabditis elegans F49E2.5f (F49E2.5) mRNA, complete cds. 9/11 A 
NM_171968 NCBI Caenorhabditis elegans F49E2.5g (F49E2.5) mRNA, complete cds. 9/11 A 
NM_077209 NCBI Caenorhabditis elegans F49E2.5e (F49E2.5) mRNA, complete cds. 10/11 A 
SNAP00000006377 ENSEMBL cdna:SNAP chromosome:CEL140:X:9552823:9559810:1 9/11 None
GENEFINDER00000006386 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9552823:9559810:1 9/11 None
F49E2.5a ENSEMBL cdna:known chromosome:CEL140:X:9552823:9559810:1 gene:F49E2.5 9/11 A 
F49E2.5e ENSEMBL cdna:known chromosome:CEL140:X:9552823:9558426:1 gene:F49E2.5 10/11 A 
F49E2.5f ENSEMBL cdna:known chromosome:CEL140:X:9552823:9555527:1 gene:F49E2.5 9/11 A 
F49E2.5g ENSEMBL cdna:known chromosome:CEL140:X:9552823:9555527:1 gene:F49E2.5 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_077205 2/11 Cross Hyb Matching Probes A 
F49E2.5d.1 2/11 Cross Hyb Matching Probes A 
F49E2.5d.2 2/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
181175 10 6 NM_001029522 180309_s_at (10)
NM_001029523 171758_x_at (9), 172298_x_at (10), 180309_s_at (10)
NM_001029524 171758_x_at (9), 172298_x_at (10), 174674_at (11), 180098_s_at (11), 180309_s_at (10)
NM_077204 171758_x_at (9), 172298_x_at (10), 180309_s_at (10)
NM_077205 180309_s_at (10)
NM_077206 180309_s_at (10)
NM_077207 180309_s_at (10)
NM_077208 171758_x_at (9), 172298_x_at (10), 180098_s_at (11)
NM_077209 171758_x_at (10), 172298_x_at (11), 180098_s_at (11)
NM_171968 171758_x_at (9), 172298_x_at (10), 180098_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:9552823-9555348(+) 96.11 100.0
Public Domain and Genome References
Ensembl F49E2.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAI79255 Hypothetical protein F49E2.5j [Caenorhabditis elegans] ref|NP_001024695.1| F49E2.5j [Caenorhabditis elegans] 0.0
blast CAA86429 Hypothetical protein F49E2.5b [Caenorhabditis elegans] ref|NP_509607.2| F49E2.5b [Caenorhabditis elegans] 0.0
blast CAH04746 Hypothetical protein F49E2.5h [Caenorhabditis elegans] ref|NP_001024693.1| F49E2.5h [Caenorhabditis elegans] 0.0
blast CAA86428 Hypothetical protein F49E2.5a [Caenorhabditis elegans] ref|NP_509605.2| F49E2.5a [Caenorhabditis elegans] 0.0
blast CAA86424 Hypothetical protein F49E2.5c [Caenorhabditis elegans] ref|NP_509608.2| F49E2.5c [Caenorhabditis elegans] 0.0
blast CAI79254 Hypothetical protein F49E2.5i [Caenorhabditis elegans] ref|NP_001024694.1| F49E2.5i [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.0E-126
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 6.1E-15
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 2.3E-7
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 9.2E-50
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 3.4E-10
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.0E-126
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.7E-95
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 6.1E-15
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 3.4E-10
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 7.4E-56
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 6.8E-50
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.0E-126
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.0E-126
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 6.1E-15
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.4E-15
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 2.3E-7
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 4.9E-32
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 9.7E-9
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 1.4E-15
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 2.3E-7
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 4.9E-32
Pfam IPR006836 EMBL-EBI Protein of unknown function DUF612 9.7E-9
Sequence
Target Sequence 
>C. ELEGANS:171758_X_AT
gagcaaccggtggaatctgctccagctccaccacaagttgaacaagttgttgaggctacc
ccaccggcatctgaaaacaaaaagaaaaataagaaagacaagaagaagagtgaaagcgag
aaggctgttgaagagccagttcaagctgcgccctcatccaaaaagcctactgctgatgac
agcatggacttcttggactttgttactgctaaacctgaccgctccgaagtggcagctcca
gttgaggttgccaaggtagatgaatctaccgcagtcacctcagaaaacaggaaaaagaac
aagaaggacaagaaaaagagtgagagtgaaaaagcagttgaggagccagttcaggctgct
ccaacatccaaaaaaccaactgctgatgatagcatggactttttggatttcgtaactgct
aaggaagaacgtgttgaagaagtggctccagttcaagagcaagtaaaagagcaaaaggtg
atttcagatgaatgttttcttgttatgctatttgcacgagactcttgtccaatcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCAACCGGTGGAATCTGCTCCAG 380 391 1191 Antisense
TCCAGCTCCACCACAAGTTGAACAA 101 591 1211 Antisense
GAACAAGTTGTTGAGGCTACCCCAC 633 351 1230 Antisense
TGAAGAGCCAGTTCAAGCTGCGCCC 345 575 1319 Antisense
GACAGCATGGACTTCTTGGACTTTG 186 369 1368 Antisense
TTTGTTACTGCTAAACCTGACCGCT 295 665 1389 Antisense
GCAGCTCCAGTTGAGGTTGCCAAGG 172 313 1422 Antisense
TAGATGAATCTACCGCAGTCACCTC 517 653 1447 Antisense
GAGGAGCCAGTTCAGGCTGCTCCAA 707 403 1530 Antisense
GCTGCTCCAACATCCAAAAAACCAA 91 297 1545 Antisense
TTGCACGAGACTCTTGTCCAATCCA 22 703 1702 Antisense
Sequence Source Affymetrix Proprietary Database