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[193274_s_at] Uncharacterized protein family UPF0024

Description B0024.11 /REP_DB=WormBase Gene ID /WP=CE05155 /TR=SW:Q17426 /GB=CAA94883.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Uncharacterized protein family UPF0024
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 97      4grp_highest_8_8 > 34      4grp_high_8_8 > 57      6grp_highest_nonorm > 85      6grp_total > 97      4grp_total > 63      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 446
1 2 3 4 range
A 797.1
(3)
P 		522.1
(-3)
P 		671.6
(0.3)
P 		534.5
(-2.7)
P 		275
B 693.6
(0.7)
P 		695.4
(0.7)
P 		786.8
(3)
P 		543.8
(-3)
P 		243
C 968.3
(3)
P 		665
(-1.8)
P 		790.3
(0.2)
P 		585.7
(-3)
P 		383
avr 819.7
(3) 		627.5
(-1.4) 		749.6
(1.4) 		554.7
(-3) 		265

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 403
1 2 3 4 5 6 range
A 555.3
(-3)
P 		695.9
(-0.9)
P 		564.4
(-2.9)
P 		650.8
(-1.6)
P 		827.3
(1)
P 		958.6
(3)
P 		403
B 675.9
(-2.6)
P 		657.7
(-3)
P 		711.4
(-1.8)
P 		776.6
(-0.4)
P 		832.5
(0.8)
P 		931.8
(3)
P 		274
C 589.4
(-3)
P 		634.1
(-2.2)
P 		730.3
(-0.6)
P 		684.8
(-1.4)
P 		803.6
(0.7)
P 		936.9
(3)
P 		348
avr 606.9
(-3) 		662.6
(-2) 		668.7
(-1.9) 		704.1
(-1.3) 		821.1
(0.8) 		942.4
(3) 		336
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 242
1 2 3 4 range
A 290.2
(3)
P 		113.3
(-2)
P 		175.6
(-0.2)
P 		78.2
(-3)
P 		212
B 221.2
(3)
P 		171.7
(0.2)
P 		182.3
(0.8)
P 		115.9
(-3)
P 		105
C 320.5
(3)
P 		191.2
(-0.5)
P 		275.5
(1.8)
P 		98.8
(-3)
P 		222
avr 277.3
(3) 		158.7
(-1) 		211.1
(0.8) 		97.6
(-3) 		180

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 245
1 2 3 4 5 6 range
A 102.4
(-3)
P 		247.5
(2.9)
P 		122.9
(-2.2)
P 		165.1
(-0.4)
P 		249.6
(3)
P 		233.4
(2.3)
P 		147
B 235.2
(-0.9)
P 		218.9
(-1.4)
P 		172.7
(-3)
P 		205.7
(-1.9)
P 		338.2
(2.7)
P 		347.5
(3)
P 		175
C 218.5
(-0.2)
P 		193.5
(-1.1)
P 		185.9
(-1.4)
P 		137.7
(-3)
P 		260
(1.2)
P 		313.6
(3)
P 		176
avr 185.4
(-1.9) 		220
(-0.4) 		160.5
(-3) 		169.5
(-2.6) 		282.6
(2.3) 		298.2
(3) 		138
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193274_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11673
Sequence Type Exemplar sequence
Representative Public ID B0024.11 NCBI
Target Description B0024.11 /REP_DB=WormBase Gene ID /WP=CE05155 /TR=SW:Q17426 /GB=CAA94883.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Uncharacterized protein family UPF0024
Cluster Evidence This cluster is supported by a 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_073252(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073252 NCBI Caenorhabditis elegans B0024.11 (B0024.11) mRNA, complete cds. 11/11 None
SNAP00000027137 ENSEMBL cdna:SNAP chromosome:CEL140:V:10320154:10322114:-1 11/11 None
GENEFINDER00000027151 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10320154:10322114:-1 11/11 None
B0024.11 ENSEMBL cdna:known chromosome:CEL140:V:10320100:10322114:-1 gene:B0024.11 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
chrV:10320153-10322114(-) 100.0 100.0
Public Domain and Genome References
Gene Title Uncharacterized protein family UPF0024
Ensembl B0024.11
Entrez Gene 179436 Entrez gene
SwissProt Q17426 EMBL-EBI
WormBase CE05155 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8033 tRNA processing inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16836 hydro-lyase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94883 Hypothetical protein B0024.11 [Caenorhabditis elegans] ref|NP_505653.1| B0024.11 [Caenorhabditis elegans] sp|Q17426|YQ4B_CAEEL Hypothetical pseudouridine synthase in chromosome V 0.0
blast NP_001016884 hypothetical protein LOC549638 [Xenopus tropicalis] 2.0E-61
blast CAG08629 unnamed protein product [Tetraodon nigroviridis] 3.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR001656 EMBL-EBI Protein of unknown function UPF0024 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:193274_S_AT
atgtccacgcttatcaaagcctcatttggaataaagtagcttctcgtcgagttaaggaat
atggtactcgagtacatgaaagtgacgttggagccaatggattctctcttggcgagcatg
caactcattatgatatccatataccactaccgggagaaaacttgccatttgagggtagtt
atggcgctaagtggatctctgaattgcttgaagaagatggactcactcaatcgagcttca
cagcactaaaagatcggttttcacttggcgaatcatcaagatgcttgtttgttgaagcga
aggagctcaaatggaagtttattcgatatggaaatgcacgagatctcttgcaagatggat
tacaaacacgtgctatcccagaagcagaacagaaaggtccacttctggcattgcaaattc
agtttagcttgatatctggatcatatgcaactgtagctcttcgtgaggtaactggaagtg
atatgggcaagaaggctatgagagatgcttcgttcaaaacacgtgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTCCACGCTTATCAAAGCCTCAT 524 47 1133 Antisense
GAATAAAGTAGCTTCTCGTCGAGTT 558 325 1161 Antisense
GATTCTCTCTTGGCGAGCATGCAAC 318 431 1232 Antisense
GATATCCATATACCACTACCGGGAG 98 425 1264 Antisense
GGCGCTAAGTGGATCTCTGAATTGC 661 541 1315 Antisense
GGACTCACTCAATCGAGCTTCACAG 281 525 1351 Antisense
TCGGTTTTCACTTGGCGAATCATCA 549 603 1386 Antisense
ATTACAAACACGTGCTATCCCAGAA 172 11 1491 Antisense
AAAGGTCCACTTCTGGCATTGCAAA 236 121 1525 Antisense
CATATGCAACTGTAGCTCTTCGTGA 260 213 1574 Antisense
GAGATGCTTCGTTCAAAACACGTGG 9 397 1634 Antisense
Sequence Source Affymetrix Proprietary Database