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[187610_at]

Description F53F10.3 /REP_DB=WormBase Gene ID /WP=CE28447 /TR=SW:O01578 /GB=AAB52430.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 35      6grp_high1_10_10 > 31      4grp_high_8_8 > 43      6grp_highest_nonorm > 81      6grp_total > 53      4grp_total > 52      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 175
1 2 3 4 range
A 248.5
(2)
P 		272.3
(3)
P 		132.7
(-3)
P 		161.2
(-1.8)
P 		140
B 242.5
(1.3)
P 		266.8
(3)
P 		202.9
(-1.4)
P 		179.7
(-3)
A 		87
C 228.8
(1.1)
P 		276.1
(2.7)
P 		284.2
(3)
P 		109.5
(-3)
P 		175
avr 239.9
(1.4) 		271.7
(3) 		206.6
(-0.2) 		150.1
(-3) 		122

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 242
1 2 3 4 5 6 range
A 182.2
(-2.8)
P 		346.5
(3)
P 		311.2
(1.8)
P 		242.1
(-0.7)
P 		175.1
(-3)
P 		231.4
(-1)
P 		171
B 199.2
(-2.6)
P 		238.3
(-1.6)
P 		417.2
(3)
P 		202.4
(-2.6)
P 		223.4
(-2)
P 		185.1
(-3)
P 		232
C 279.3
(3)
P 		211.1
(-1.6)
P 		244
(0.6)
P 		189.4
(-3)
P 		272.4
(2.5)
P 		220.8
(-0.9)
P 		90
avr 220.2
(-2.5) 		265.3
(-0.1) 		324.1
(3) 		211.3
(-3) 		223.6
(-2.3) 		212.4
(-2.9) 		113
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 90.5
(3)
P 		59.1
(0.2)
P 		34.7
(-2)
P 		23.6
(-3)
P 		67
B 77.3
(3)
P 		65.9
(1.2)
P 		47
(-1.7)
P 		38.3
(-3)
A 		39
C 75.8
(1.3)
P 		79.4
(1.5)
P 		99.1
(3)
P 		18.5
(-3)
P 		81
avr 81.2
(3) 		68.1
(1.6) 		60.3
(0.7) 		26.8
(-3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 33.6
(-3)
P 		123.2
(3)
P 		67.8
(-0.7)
P 		61.4
(-1.1)
P 		52.8
(-1.7)
P 		56.3
(-1.5)
P 		90
B 69.3
(-1)
P 		79.3
(0.2)
P 		101.3
(3)
P 		53.6
(-3)
P 		90.8
(1.7)
P 		69
(-1.1)
P 		48
C 103.5
(3)
P 		64.4
(-0.6)
P 		62.1
(-0.8)
P 		38.1
(-3)
P 		88.1
(1.6)
P 		73.9
(0.3)
P 		65
avr 68.8
(-0.2) 		89
(3) 		77.1
(1.1) 		51
(-3) 		77.2
(1.1) 		66.4
(-0.6) 		38
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187610_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.331
Sequence Type Exemplar sequence
Representative Public ID F53F10.3 NCBI
Target Description F53F10.3 /REP_DB=WormBase Gene ID /WP=CE28447 /TR=SW:O01578 /GB=AAB52430.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
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_058833
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000021855 ENSEMBL cdna:SNAP chromosome:CEL140:I:3827239:3828039:1 None
F53F10.3.2 ENSEMBL cdna:known chromosome:CEL140:I:3827219:3828145:1 gene:F53F10.3 None
F53F10.3.1 ENSEMBL cdna:known chromosome:CEL140:I:3827221:3828133:1 gene:F53F10.3 None
GENEFINDER00000021861 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3828252:3828990:1 None
NM_058833 NCBI Caenorhabditis elegans F53F10.3 (F53F10.3) mRNA, complete cds. A 
GENEFINDER00000021863 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3826692:3828039:1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
C53D5.5.2 1/11 Cross Hyb Matching Probes A 
C53D5.5.1 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:3827238-3828990(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F53F10.3
Entrez Gene 171957 Entrez gene
SwissProt O01578 EMBL-EBI
WormBase CE28447 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:245571_AT expressed protein at
CANINE:1590738_AT similar to Brain protein 44 cfa
CANINE_2:CFA.13282.1.S1_S_AT similar to Brain protein 44 cfa
CANINE_2:CFA.13282.2.A1_A_AT similar to Brain protein 44 cfa
DROSOPHILA_2:1638009_S_AT dm
DROSGENOME1:149569_AT dm
HG-U95AV2:37000_AT brain protein 44 hs
HU35KSUBA:AA428006_AT brain protein 44 hs
HU35KSUBC:RC_AA281132_AT brain protein 44 hs
HG-U133A:202427_S_AT brain protein 44 hs
HG-U133_PLUS_2:202427_S_AT brain protein 44 hs
HG-U133A_2:202427_S_AT brain protein 44 hs
U133_X3P:G7661601_3P_A_AT brain protein 44 hs
HU35KSUBB:RC_R10684_AT Brain protein 44 hs
U133_X3P:HS.5794.0.A1_3P_AT Brain protein 44 hs
HG-U133_PLUS_2:227669_AT Brain protein 44 hs
HG-U133B:227669_AT Brain protein 44 hs
HG-U95B:46134_AT Brain protein 44 hs
MG-U74AV2:95058_F_AT brain protein 44 mm
MG-U74BV2:165362_F_AT brain protein 44 mm
MG-U74CV2:168915_R_AT brain protein 44 mm
MOE430A:1423833_A_AT brain protein 44 mm
MOUSE430A_2:1423833_A_AT brain protein 44 mm
MOUSE430_2:1423833_A_AT brain protein 44 mm
MOE430B:1430071_AT brain protein 44 mm
MOUSE430_2:1430071_AT brain protein 44 mm
MU19KSUBC:TC40770_AT Brain protein 44 (Brp44), mRNA mm
MU11KSUBB:W40971_S_AT Brain protein 44 (Brp44), mRNA mm
Protein Similarities
Method ID Description E-Value
blast AAB52430 Hypothetical protein F53F10.3 [Caenorhabditis elegans] ref|NP_491234.1| F53F10.3 [Caenorhabditis elegans] sp|O01578|YXX3_CAEEL Hypothetical UPF0041 protein F53F10.3 in chromosome I 7.0E-77
blast AAB52430 Hypothetical protein F53F10.3 [Caenorhabditis elegans] ref|NP_491234.1| F53F10.3 [Caenorhabditis elegans] sp|O01578|YXX3_CAEEL Hypothetical UPF0041 protein F53F10.3 in chromosome I 1.0E-76
blast CAE66673 Hypothetical protein CBG12012 [Caenorhabditis briggsae] 4.0E-74
blast CAE66673 Hypothetical protein CBG12012 [Caenorhabditis briggsae] 8.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR005336 EMBL-EBI Protein of unknown function UPF0041 3.2E-73
Pfam IPR005336 EMBL-EBI Protein of unknown function UPF0041 3.2E-73
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000021861 3 4-26,39-61,76-98
Sequence
Target Sequence 
>C. ELEGANS:187610_AT
cctctaccaggctctgtgcaaagccggagataaatttgtctatccggtgcttccagcatt
cgccaagccggcttggaatcatgcggccggtccgaaaactgtatttttctgggccccaac
catcaaatggactcttatcggcgctggactcgctgatttggccagacctgctgataagct
ttctctttatcagaactctgctctcttcgccactggagccatctggacgagatattgcct
tgtcatcaccccaatcaactactatttgagtagtgtgaactttttcgtcatgtgcaccgg
gctcgcccagctctgtagaattgcacattacaggatcgaggagacgccggagttccacca
aaacgagcacgccacggaaattgatgcacag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTCTACCAGGCTCTGTGCAAAGCC 45 269 30 Antisense
ACCAGGCTCTGTGCAAAGCCGGAGA 257 87 35 Antisense
GCTCTGTGCAAAGCCGGAGATAAAT 613 299 40 Antisense
TAAATTTGTCTATCCGGTGCTTCCA 508 641 60 Antisense
CAGCATTCGCCAAGCCGGCTTGGAA 196 205 83 Antisense
AAGCCGGCTTGGAATCATGCGGCCG 513 147 94 Antisense
ATCATGCGGCCGGTCCGAAAACTGT 208 29 107 Antisense
TGCGGCCGGTCCGAAAACTGTATTT 60 581 111 Antisense
AGGATCGAGGAGACGCCGGAGTTCC 352 55 361 Antisense
ACCAAAACGAGCACGCCACGGAAAT 455 53 386 Antisense
GCACGCCACGGAAATTGATGCACAG 595 315 396 Antisense
Sequence Source Affymetrix Proprietary Database