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[189851_at] cytidine deaminase

Description C47D2.2 /REP_DB=WormBase Gene ID /WP=CE06962 /TR=Q22922 /GB=AAB04993.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=cytidine deaminase
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 06      4grp_highest_8_8 > 50      4grp_high_8_8 > 40      6grp_highest_nonorm > 30      6grp_total > 06      4grp_total > 55      6grp_highest_sub > De      6grp_cgc > 21      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 885
1 2 3 4 range
A 2042.1
(3)
P 		1316.5
(-2.4)
P 		1367.8
(-2)
P 		1237.2
(-3)
P 		805
B 1910.9
(3)
P 		1507.7
(-0.6)
P 		1243.3
(-3)
P 		1286
(-2.6)
P 		668
C 1949.9
(3)
P 		1251.6
(-2.3)
P 		1535.2
(-0.1)
P 		1156.8
(-3)
P 		793
avr 1967.6
(3) 		1358.6
(-1.9) 		1382.1
(-1.7) 		1226.7
(-3) 		741

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1380
1 2 3 4 5 6 range
A 1564.6
(3)
P 		1085.7
(0.5)
P 		829.4
(-0.8)
P 		497.9
(-2.5)
P 		396.6
(-3)
P 		403.6
(-3)
P 		1168
B 1727.2
(3)
P 		901.3
(-0.8)
P 		910.2
(-0.8)
P 		646.1
(-2)
P 		440.7
(-3)
P 		437.6
(-3)
P 		1290
C 1439
(3)
P 		1061.2
(0.9)
P 		870
(-0.1)
P 		622.5
(-1.5)
P 		347.1
(-3)
P 		377.7
(-2.8)
P 		1092
avr 1576.9
(3) 		1016.1
(0.2) 		869.9
(-0.6) 		588.8
(-2) 		394.8
(-3) 		406.3
(-2.9) 		1182
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 562
1 2 3 4 range
A 743.5
(3)
P 		285.8
(-1.9)
P 		357.6
(-1.1)
P 		181.1
(-3)
P 		562
B 609.4
(3)
P 		372.4
(-1.2)
P 		288.1
(-2.7)
P 		274.1
(-3)
P 		335
C 645.5
(3)
P 		359.8
(-0.8)
P 		535.1
(1.5)
P 		195
(-3)
P 		451
avr 666.1
(3) 		339.3
(-1.4) 		393.6
(-0.6) 		216.7
(-3) 		449

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 503
1 2 3 4 5 6 range
A 288.4
(1)
P 		386.1
(3)
P 		180.6
(-1.3)
P 		126.3
(-2.4)
P 		119.7
(-2.6)
P 		98.3
(-3)
P 		288
B 601
(3)
P 		300
(-1.1)
P 		221
(-2.2)
P 		171.1
(-2.9)
P 		179.1
(-2.8)
P 		163.2
(-3)
P 		438
C 533.4
(3)
P 		323.8
(0)
P 		221.4
(-1.4)
P 		125.2
(-2.8)
P 		112.3
(-3)
P 		126.5
(-2.8)
P 		421
avr 474.3
(3) 		336.6
(0.6) 		207.7
(-1.6) 		140.9
(-2.8) 		137
(-2.9) 		129.3
(-3) 		345
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189851_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16725
Sequence Type Exemplar sequence
Representative Public ID C47D2.2 NCBI
Target Description C47D2.2 /REP_DB=WormBase Gene ID /WP=CE06962 /TR=Q22922 /GB=AAB04993.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=cytidine deaminase
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_076983(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076983 NCBI Caenorhabditis elegans CytiDine Deaminase family member (cdd-1) (cdd-1) mRNA, complete cds. 11/11 None
SNAP00000002887 ENSEMBL cdna:SNAP chromosome:CEL140:X:8208758:8210733:-1 11/11 None
GENEFINDER00000002891 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8208758:8210733:-1 10/11 None
C47D2.2 ENSEMBL cdna:known chromosome:CEL140:X:8208715:8210736:-1 gene:C47D2.2 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
chrX:8208756-8210732(-) 100.0 100.0
Public Domain and Genome References
Gene Title cytidine deaminase
Gene Symbol cdd-1
Ensembl C47D2.2
Entrez Gene 183546 Entrez gene
SwissProt Q22922 EMBL-EBI
WormBase CE06962 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
46087 cytidine metabolism inferred from electronic annotation QuickGO AmiGO
16070 RNA metabolism inferred from sequence similarity QuickGO AmiGO
9451 RNA modification inferred from direct assay QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4126 cytidine deaminase activity inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
4126 cytidine deaminase activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB04993 Cytidine deaminase protein 1 [Caenorhabditis elegans] ref|NP_509384.1| CytiDine Deaminase family member (cdd-1) [Caenorhabditis elegans] 5.0E-88
blast AAB04993 Cytidine deaminase protein 1 [Caenorhabditis elegans] ref|NP_509384.1| CytiDine Deaminase family member (cdd-1) [Caenorhabditis elegans] 3.0E-84
blast CAE74856 Hypothetical protein CBG22709 [Caenorhabditis briggsae] 7.0E-74
blast CAE74856 Hypothetical protein CBG22709 [Caenorhabditis briggsae] 5.0E-70
blast AAB03151 Cytidine deaminase protein 2 [Caenorhabditis elegans] ref|NP_501221.1| CytiDine Deaminase family member (cdd-2) [Caenorhabditis elegans] 2.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR002125 EMBL-EBI Cytidine/deoxycytidylate deaminase, zinc-binding region 3.0E-39
Pfam IPR002125 EMBL-EBI Cytidine/deoxycytidylate deaminase, zinc-binding region 5.6E-36
Sequence
Target Sequence 
>C. ELEGANS:189851_AT
aaccttaccgagtttgagcagcaacttgttgataaagcaattggagcaatggagaatgct
tactgcaagtatagcaacttcaaagttggagctgcgctggtgtgtgacgacggagaaatt
atcataggagctaaccatgagaatgcgtcatacggagcaacgatttgtgcagagagaagc
gcaatagttaccgccttgaccaagggacacagaaaatttaagtacattgttgttgcaacc
gaactagaggctccctgctcgccatgtggagtatgccgacaggtccttatcgaatttgga
gactacaaggtcattctcgggtcttcgactagtgatcaaattatcgagactacaacatac
gagcttctgccatatgcattcactccaaaatcactcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCTTACCGAGTTTGAGCAGCAAC 691 147 31 Antisense
TGCGCTGGTGTGTGACGACGGAGAA 36 585 123 Antisense
CAATAGTTACCGCCTTGACCAAGGG 646 175 212 Antisense
TGTTGCAACCGAACTAGAGGCTCCC 117 563 261 Antisense
CCTGCTCGCCATGTGGAGTATGCCG 175 267 284 Antisense
GAGTATGCCGACAGGTCCTTATCGA 202 397 299 Antisense
TACAAGGTCATTCTCGGGTCTTCGA 410 641 334 Antisense
CGGGTCTTCGACTAGTGATCAAATT 509 243 348 Antisense
GACTACAACATACGAGCTTCTGCCA 425 373 378 Antisense
GAGCTTCTGCCATATGCATTCACTC 696 387 391 Antisense
TATGCATTCACTCCAAAATCACTCG 228 655 403 Antisense
Sequence Source Affymetrix Proprietary Database