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[192294_s_at] Zinc finger, C2H2 type

Description C25D7.3 /REP_DB=WormBase Gene ID /WP=CE08389 /GEN=sdc-3 /TR=O17596 /GB=CAB02774.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 36      4grp_highest_8_8 > 60      4grp_high_8_8 > 25      6grp_highest_nonorm > 70      6grp_total > 25      4grp_total > 38      6grp_highest_sub > Cu      6grp_cgc > 24      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 272
1 2 3 4 range
A 476.1
(3)
P 		280.4
(-2.2)
P 		249.4
(-3)
P 		319.1
(-1.2)
P 		227
B 469.7
(3)
P 		284.5
(-1.2)
P 		204
(-3)
P 		238.7
(-2.2)
P 		266
C 476
(3)
P 		267.9
(-1.7)
P 		209.3
(-3)
P 		382.2
(0.9)
P 		267
avr 473.9
(3) 		277.6
(-1.7) 		220.9
(-3) 		313.3
(-0.8) 		253

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 253
1 2 3 4 5 6 range
A 438.4
(3)
P 		381.4
(1.5)
P 		273
(-1.3)
P 		289
(-0.9)
P 		206.2
(-3)
P 		288.5
(-0.9)
P 		232
B 441.1
(3)
P 		334
(0.4)
P 		313.8
(-0.1)
P 		256.4
(-1.4)
P 		191.2
(-3)
P 		301.5
(-0.4)
P 		250
C 370.4
(1.3)
P 		441.1
(3)
P 		373.4
(1.4)
P 		298.6
(-0.4)
P 		187.8
(-3)
P 		307.8
(-0.2)
P 		253
avr 416.6
(3) 		385.5
(2.2) 		320.1
(0.4) 		281.3
(-0.7) 		195.1
(-3) 		299.3
(-0.2) 		222
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 173.4
(3)
P 		60.9
(-2.3)
P 		65.2
(-2.1)
P 		46.7
(-3)
P 		127
B 149.8
(3)
P 		70.3
(-1.7)
P 		47.3
(-3)
P 		50.9
(-2.8)
P 		103
C 157.6
(3)
P 		77
(-2.2)
P 		72.9
(-2.5)
P 		64.5
(-3)
P 		93
avr 160.3
(3) 		69.4
(-2.1) 		61.8
(-2.6) 		54
(-3) 		106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 80.8
(-1.3)
P 		135.6
(3)
P 		59.5
(-3)
P 		73.3
(-1.9)
P 		62.2
(-2.8)
P 		70.3
(-2.1)
P 		76
B 153.5
(3)
P 		111.2
(0)
P 		76.2
(-2.4)
P 		67.9
(-3)
P 		77.7
(-2.3)
P 		112.4
(0.1)
P 		86
C 137.3
(3)
P 		134.6
(2.8)
P 		95
(-0.3)
P 		60.1
(-3)
P 		60.8
(-2.9)
P 		103
(0.3)
P 		77
avr 123.9
(2.7) 		127.1
(3) 		76.9
(-2) 		67.1
(-3) 		66.9
(-3) 		95.2
(-0.2) 		60
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192294_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13753
Sequence Type Exemplar sequence
Representative Public ID C25D7.3 NCBI
Target Description C25D7.3 /REP_DB=WormBase Gene ID /WP=CE08389 /GEN=sdc-3 /TR=O17596 /GB=CAB02774.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
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_074302(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074302 NCBI Caenorhabditis elegans Sex determination and Dosage Compensation defect family member (sdc-3) (sdc-3) mRNA, complete cds. 11/11 None
SNAP00000019706 ENSEMBL cdna:SNAP chromosome:CEL140:V:15041943:15050377:-1 11/11 None
GENEFINDER00000019718 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15040381:15055800:-1 10/11 None
C25D7.3 ENSEMBL cdna:known chromosome:CEL140:V:15041943:15050377:-1 gene:C25D7.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019702 8/11 Cross Hyb Matching Probes None
GENEFINDER00000019726 6/11 Cross Hyb Matching Probes None
C25D7.13 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15041942-15050377(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type
Gene Symbol sdc-3
Ensembl C25D7.3
Entrez Gene 180009 Entrez gene
SwissProt P34706 EMBL-EBI
WormBase CE08389 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
16457 dosage compensation complex assembly (sensu Insecta) inferred from direct assay QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02774 Hypothetical protein C25D7.3 [Caenorhabditis elegans] ref|NP_506703.1| Sex determination and Dosage Compensation defect family member (sdc-3) [Caenorhabditis elegans] sp|P34706|SDC3_CAEEL Zinc finger protein sdc-3 0.0
blast AAB25348 Sdc-3=sex determination and dosage compensation control [Caenorhabditis elegans, Peptide, 2150 aa] gb|AAA28144.1| zinc finger protein 0.0
blast CAB02775 Hypothetical protein C25D7.4 [Caenorhabditis elegans] ref|NP_506704.1| C25D7.4 [Caenorhabditis elegans] 1.0E-143
blast CAE66331 Hypothetical protein CBG11582 [Caenorhabditis briggsae] 4.0E-94
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.2E-32
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 8.5E-10
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 3.5E-30
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 3.4E-7
Sequence
Target Sequence 
>C. ELEGANS:192294_S_AT
tgctccgtatgactgcacaatcacaggtgtcgtgggcacatccagagtatattaagagaa
gattggaaatgatctactatggctggcggatgttcctcggaagtggtggattcttccgtg
ttgctcttgccatcaatcggaaggacgtgaagccaatgagtcaacagttccgagactttt
tcatcgagtatctaaaagatgtaaatgaaaattatgcgaaagcggtagaattggtccaaa
tggatgaagacaaactgatggaagctatgattgaaaaagcgggtttgtcatcgatagatc
tgctggctttggatgaagatgttcagggacaagttagtgagagtcacaaacataaatgcg
ttcaatgttcaatccgtaaccaatccgtatacttctcgtcatattcacttttggagctac
acggaaaacttcaccaaaacctgcacgaacttgctccggaagacgcagatgactgtcaag
attgctatgaaacgttgacatcatcatttgaagttatcgttcatcgaatcaatcaccatc
a

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTCCGTATGACTGCACAATCACA 199 581 5894 Antisense
AATCACAGGTGTCGTGGGCACATCC 671 169 5912 Antisense
TACTATGGCTGGCGGATGTTCCTCG 286 643 5968 Antisense
TCAACAGTTCCGAGACTTTTTCATC 56 629 6054 Antisense
GTCATCGATAGATCTGCTGGCTTTG 330 467 6180 Antisense
AAATGCGTTCAATGTTCAATCCGTA 237 119 6247 Antisense
AACCAATCCGTATACTTCTCGTCAT 390 145 6271 Antisense
GTCATATTCACTTTTGGAGCTACAC 6 469 6291 Antisense
AACTTCACCAAAACCTGCACGAACT 350 139 6320 Antisense
TGCACGAACTTGCTCCGGAAGACGC 492 577 6335 Antisense
TCGTTCATCGAATCAATCACCATCA 21 605 6410 Antisense
Sequence Source Affymetrix Proprietary Database