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[177057_s_at]

Description R53.5 /REP_DB=WormBase Gene ID /WP=CE03575 /TR=Q22020 /GB=CAA91349.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 39      6grp_high1_10_10 > 93      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 55      6grp_total > 84      4grp_total > 40      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 297
1 2 3 4 range
A 331.1
(-3)
P 		416.9
(-0.7)
P 		552.8
(3)
P 		402.3
(-1.1)
P 		222
B 326.6
(-3)
P 		442.5
(-0.4)
P 		598.2
(3)
P 		466.7
(0.1)
P 		272
C 388.7
(-3)
P 		503.5
(-0.1)
P 		624
(3)
P 		602.1
(2.4)
P 		235
avr 348.8
(-3) 		454.3
(-0.4) 		591.7
(3) 		490.4
(0.5) 		243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1989
1 2 3 4 5 6 range
A 721.7
(-3)
P 		877.5
(-2.5)
P 		2059.5
(1.6)
P 		2360.4
(2.6)
P 		2480.4
(3)
P 		1961.7
(1.2)
P 		1759
B 875.1
(-3)
P 		887.9
(-3)
P 		1458.3
(-1.1)
P 		2710.9
(3)
P 		2605.2
(2.7)
P 		2209.4
(1.4)
P 		1836
C 956.4
(-2.9)
P 		922.1
(-3)
P 		1884.9
(0.5)
P 		2222.5
(1.8)
P 		2561.7
(3)
P 		1989.7
(0.9)
P 		1640
avr 851.1
(-3) 		895.8
(-2.8) 		1800.9
(0.4) 		2431.3
(2.6) 		2549.1
(3) 		2053.6
(1.2) 		1698
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 120.5
(1.3)
P 		90.5
(-0.8)
P 		144.5
(3)
P 		58.9
(-3)
P 		86
B 104.1
(-2.3)
P 		109.3
(-1.5)
P 		138.6
(3)
P 		99.5
(-3)
P 		39
C 128.7
(-1.6)
P 		144.7
(-0.8)
P 		217.5
(3)
P 		101.5
(-3)
P 		116
avr 117.8
(-0.7) 		114.8
(-0.9) 		166.9
(3) 		86.6
(-3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 925
1 2 3 4 5 6 range
A 133
(-3)
P 		312.1
(-1.3)
P 		448.5
(0.1)
P 		598.6
(1.5)
P 		748.5
(3)
P 		477.6
(0.4)
P 		616
B 304.5
(-2.9)
P 		295.6
(-3)
P 		354.1
(-2.5)
P 		718
(0.3)
P 		1058.4
(3)
P 		823.9
(1.2)
P 		763
C 354.5
(-2.2)
P 		281.4
(-3)
P 		479.7
(-0.8)
P 		446.9
(-1.2)
P 		828.9
(3)
P 		666.1
(1.2)
P 		548
avr 264
(-3) 		296.4
(-2.7) 		427.4
(-1.4) 		587.8
(0.2) 		878.6
(3) 		655.9
(0.8) 		615
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177057_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3460
Sequence Type Exemplar sequence
Representative Public ID R53.5 NCBI
Target Description R53.5 /REP_DB=WormBase Gene ID /WP=CE03575 /TR=Q22020 /GB=CAA91349.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
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_063753(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063753 NCBI Caenorhabditis elegans R53.5 (R53.5) mRNA, complete cds. 11/11 None
SNAP00000040704 ENSEMBL cdna:SNAP chromosome:CEL140:II:9969604:9970396:-1 11/11 None
GENEFINDER00000040709 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9969604:9970396:-1 11/11 None
R53.5 ENSEMBL cdna:known chromosome:CEL140:II:9969543:9970396:-1 gene:R53.5 11/11 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
chrII:9969600-9970393(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R53.5
Entrez Gene 174555 Entrez gene
SwissProt Q22020 EMBL-EBI
WormBase CE03575 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583306_AT similar to R53.5 cfa
CANINE_2:CFA.1095.1.A1_AT similar to R53.5 cfa
CANINE_2:CFAAFFX.24312.1.S1_S_AT similar to R53.5 cfa
HG-U133_PLUS_2:224435_AT chromosome 10 open reading frame 58 hs
HG-U133B:224435_AT chromosome 10 open reading frame 58 hs
HU35KSUBA:W81268_AT chromosome 10 open reading frame 58 hs
HU35KSUBD:RC_AA452860_AT chromosome 10 open reading frame 58 hs
U133_X3P:G13543426_3P_X_AT chromosome 10 open reading frame 58 hs
U133_X3P:G13543426_3P_AT chromosome 10 open reading frame 58 hs
U133_X3P:HS.30376.2.A1_3P_AT chromosome 10 open reading frame 58 hs
U133_X3P:224435_3P_AT chromosome 10 open reading frame 58 hs
HG-U133_PLUS_2:228155_AT chromosome 10 open reading frame 58 hs
HG-U133B:228155_AT chromosome 10 open reading frame 58 hs
HG-U95B:42960_R_AT chromosome 10 open reading frame 58 hs
HG-U95B:45747_AT chromosome 10 open reading frame 58 hs
HU35KSUBC:RC_T79586_AT Chromosome 10 open reading frame 58 hs
U133_X3P:HS.301519.0.S1_3P_X_AT Chromosome 10 open reading frame 58 hs
HG-U133_PLUS_2:232662_X_AT Chromosome 10 open reading frame 58 hs
HG-U133B:232662_X_AT Chromosome 10 open reading frame 58 hs
HG-U95B:57698_AT Chromosome 10 open reading frame 58 hs
HG-U95C:62918_AT Chromosome 10 open reading frame 58 hs
HG-U95E:72169_AT Chromosome 10 open reading frame 58 hs
MOUSE430A_2:1435496_AT RIKEN cDNA 5730469M10 gene mm
MOE430A:1435496_AT RIKEN cDNA 5730469M10 gene mm
MOUSE430_2:1435496_AT RIKEN cDNA 5730469M10 gene mm
MU11KSUBA:AA462409_S_AT RIKEN cDNA 5730469M10 gene mm
MG-U74AV2:96634_AT RIKEN cDNA 5730469M10 gene mm
MG-U74AV2:161735_R_AT RIKEN cDNA 5730469M10 gene mm
MOE430A:1452716_AT RIKEN cDNA 5730469M10 gene mm
MOUSE430A_2:1452716_AT RIKEN cDNA 5730469M10 gene mm
MOUSE430_2:1452716_AT RIKEN cDNA 5730469M10 gene mm
MOE430B:1447774_X_AT RIKEN cDNA 5730469M10 gene mm
MOUSE430_2:1447774_X_AT RIKEN cDNA 5730469M10 gene mm
MU19KSUBB:TC32406_I_AT RIKEN cDNA 5730469M10 gene (5730469M10Rik), mRNA mm
MU19KSUBB:TC32406_S_AT RIKEN cDNA 5730469M10 gene (5730469M10Rik), mRNA mm
MU19KSUBC:TC40365_AT RIKEN cDNA 5730469M10 gene (5730469M10Rik), mRNA mm
RG-U34C:RC_AI169367_AT similar to RIKEN cDNA 5730469M10 (predicted) rn
RAE230A:1372895_AT similar to RIKEN cDNA 5730469M10 (predicted) rn
RAT230_2:1372895_AT similar to RIKEN cDNA 5730469M10 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA91349 Hypothetical protein R53.5 [Caenorhabditis elegans] ref|NP_496154.1| R53.5 [Caenorhabditis elegans] 1.0E-112
blast CAE57917 Hypothetical protein CBG00969 [Caenorhabditis briggsae] 2.0E-97
blast NP_001014162 hypothetical protein LOC361118 [Rattus norvegicus] gb|AAH79275.1| Hypothetical LOC361118 [Rattus norvegicus] sp|Q6AXX6|CJ058_RAT Protein C10orf58 homolog precursor 4.0E-27
Sequence
Target Sequence 
>C. ELEGANS:177057_S_AT
gaatcttcccacttatttgacaatcggagctgttgctccaacctttgctcatttggcggc
cgcaaaacttgtcccaattcgtggtggaccgaaggaaaaagaagttgtggagagaaatga
gcagtttacggccgactcgttgttcaagaaaggtccgatcatggtgatggctgtacgtcg
tccgggatgtatgctgtgccgtcgtgaagctgctgaattgcacacactgctcccgttgct
caaggaaaaaggaatcgaactggccgccgttgtgcacgagactcgtggagcaaatgagtt
caagtcttggttctccggcggtgatgtctatttggacactgatcgcactttctacggtcc
aaacgaacgctggctgccagtttggatgggatttcttcgtttcggaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCTTCCCACTTATTTGACAATC 43 329 69 Antisense
CTCCAACCTTTGCTCATTTGGCGGC 14 235 104 Antisense
TTTACGGCCGACTCGTTGTTCAAGA 152 623 193 Antisense
ATCATGGTGATGGCTGTACGTCGTC 611 27 226 Antisense
GTACGTCGTCCGGGATGTATGCTGT 308 459 241 Antisense
TGTATGCTGTGCCGTCGTGAAGCTG 115 561 256 Antisense
AGCTGCTGAATTGCACACACTGCTC 463 81 276 Antisense
GGTTCTCCGGCGGTGATGTCTATTT 390 507 377 Antisense
GTCTATTTGGACACTGATCGCACTT 703 467 394 Antisense
ATCGCACTTTCTACGGTCCAAACGA 556 35 410 Antisense
GATGGGATTTCTTCGTTTCGGAACT 82 407 453 Antisense
Sequence Source Affymetrix Proprietary Database