[Home] | [Total List]

[176360_at]

Description R13A5.10 /REP_DB=WormBase Gene ID /WP=CE01371 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 59      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 85      6grp_total > 38      4grp_total > 25      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 462
1 2 3 4 range
A 866.6
(-3)
P 		1006.1
(-1.2)
P 		1159.4
(0.8)
P 		1328.6
(3)
P 		462
B 952.4
(-3)
P 		1151.4
(1.9)
P 		1026.7
(-1.2)
P 		1197.5
(3)
P 		245
C 882.5
(-3)
P 		1161.1
(1.9)
P 		1137.5
(1.4)
P 		1226.9
(3)
P 		344
avr 900.5
(-3) 		1106.2
(0.5) 		1107.9
(0.6) 		1251
(3) 		351

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 589
1 2 3 4 5 6 range
A 998.7
(3)
P 		917
(1.8)
P 		803
(0.2)
P 		575.4
(-3)
P 		710.9
(-1.1)
P 		792.1
(0.1)
P 		423
B 795.7
(1.4)
P 		921.2
(3)
P 		622.7
(-0.9)
P 		456.5
(-3)
P 		889.6
(2.6)
P 		854.4
(2.1)
P 		465
C 728.2
(-1.3)
P 		884.4
(0.8)
P 		662.2
(-2.2)
P 		604.2
(-3)
P 		712.1
(-1.5)
P 		1045.4
(3)
P 		441
avr 840.9
(1.9) 		907.5
(3) 		696
(-0.5) 		545.4
(-3) 		770.9
(0.7) 		897.3
(2.8) 		362
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 202
1 2 3 4 range
A 315.5
(3)
P 		218.4
(-1.8)
P 		303.1
(2.4)
P 		194.5
(-3)
P 		121
B 303.7
(3)
P 		284.4
(1.2)
P 		237.9
(-3)
P 		255.2
(-1.4)
P 		66
C 292.1
(-0.3)
P 		333.8
(1)
P 		396.5
(3)
P 		206.9
(-3)
P 		190
avr 303.8
(2.4) 		278.9
(0.8) 		312.5
(3) 		218.9
(-3) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 241
1 2 3 4 5 6 range
A 184.1
(-1.7)
P 		326.1
(3)
P 		174.9
(-2)
P 		145.9
(-3)
P 		214.5
(-0.7)
P 		192.8
(-1.4)
P 		180
B 276.9
(0.9)
P 		306.6
(1.6)
P 		151.2
(-2.2)
P 		120.9
(-3)
P 		361.4
(3)
P 		318.6
(1.9)
P 		241
C 269.9
(0.9)
P 		269.9
(0.9)
P 		168.5
(-1.8)
P 		121.5
(-3)
P 		230.4
(-0.1)
P 		350
(3)
P 		229
avr 243.6
(1) 		300.9
(3) 		164.9
(-1.8) 		129.4
(-3) 		268.8
(1.9) 		287.1
(2.5) 		172
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176360_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7207
Sequence Type Exemplar sequence
Representative Public ID R13A5.10 NCBI
Target Description R13A5.10 /REP_DB=WormBase Gene ID /WP=CE01371 /SUBMIT=ST.LOUIS /CHR=3 /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_066262(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066262 NCBI Caenorhabditis elegans R13A5.10 (R13A5.10) mRNA, complete cds. 11/11 None
SNAP00000038250 ENSEMBL cdna:SNAP chromosome:CEL140:III:7582030:7582897:-1 11/11 None
GENEFINDER00000038260 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7582030:7582897:-1 11/11 None
R13A5.10 ENSEMBL cdna:known chromosome:CEL140:III:7582030:7582897:-1 gene:R13A5.10 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
chrIII:7582027-7582895(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R13A5.10
Entrez Gene 260136 Entrez gene
SwissProt Q95Y87 EMBL-EBI
WormBase CE01371 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246702_AT cytidine/deoxycytidylate deaminase family protein at
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK84461 Hypothetical protein R13A5.10 [Caenorhabditis elegans] ref|NP_498663.1| R13A5.10 [Caenorhabditis elegans] 3.0E-88
blast CAE64443 Hypothetical protein CBG09150 [Caenorhabditis briggsae] 2.0E-79
blast CAE71327 Hypothetical protein CBG18226 [Caenorhabditis briggsae] 6.0E-56
Protein Domains
Database ID Description E-Value
Pfam IPR002125 EMBL-EBI Cytidine/deoxycytidylate deaminase, zinc-binding region 1.4E-31
Sequence
Target Sequence 
>C. ELEGANS:176360_AT
tcaccaaggatccaacagcacacgccgaagttacagccatcagaaatacttgtaagaatg
tcgacaactttgatctatccggttgtcaactctacacttcctgctatccatgtccaatgt
gtatgggagctgctctctggtctcgtgtcgatgcaatttactacggtgccacgtcacaag
acgccgcgaatatcggatttggagatcatgagttccatgagttccttcaaaacccaaaat
cggatgataaacgaaagttggaacaattcaaggtggacaactacttagagccattccaac
ttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCACCAAGGATCCAACAGCACACGC 368 625 140 Antisense
CACACGCCGAAGTTACAGCCATCAG 487 195 158 Antisense
GTCGACAACTTTGATCTATCCGGTT 665 473 199 Antisense
TATCCGGTTGTCAACTCTACACTTC 462 657 215 Antisense
TTCCTGCTATCCATGTCCAATGTGT 497 697 237 Antisense
TGTATGGGAGCTGCTCTCTGGTCTC 613 559 259 Antisense
TCTCTGGTCTCGTGTCGATGCAATT 379 611 273 Antisense
GCAATTTACTACGGTGCCACGTCAC 436 323 292 Antisense
ACGTCACAAGACGCCGCGAATATCG 153 93 310 Antisense
GAGTTCCATGAGTTCCTTCAAAACC 613 397 349 Antisense
AACTACTTAGAGCCATTCCAACTTT 253 139 418 Antisense
Sequence Source Affymetrix Proprietary Database