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[174953_s_at] Zinc finger, C2H2 type (3 domains)

Description CEK094EXR_rc /REP_DB=TREMBL Accession /GB=D66261 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk94e10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 36      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 90      6grp_total > 36      4grp_total > 47      6grp_highest_sub > Cu      6grp_cgc > 15      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 169
1 2 3 4 range
A 189.2
(3)
P 		95.7
(-1)
P 		50.5
(-3)
P 		141
(0.9)
P 		139
B 219.7
(3)
P 		87.9
(-2.8)
P 		84.2
(-3)
P 		86.7
(-2.9)
P 		136
C 188.1
(3)
P 		92.2
(-2.2)
P 		108.9
(-1.3)
P 		76.9
(-3)
P 		111
avr 199
(3) 		91.9
(-2.5) 		81.2
(-3) 		101.5
(-2) 		118

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 155
1 2 3 4 5 6 range
A 123.4
(1.2)
P 		142.3
(2.3)
P 		129.4
(1.6)
P 		54.6
(-3)
P 		65.1
(-2.4)
P 		153.2
(3)
P 		99
B 202.9
(3)
P 		170.8
(1.3)
P 		139.3
(-0.3)
P 		101.5
(-2.2)
P 		86.4
(-3)
P 		119.4
(-1.3)
P 		117
C 210
(3)
P 		165.7
(1)
P 		115.3
(-1.3)
P 		106.7
(-1.7)
P 		77.9
(-3)
P 		131.6
(-0.6)
P 		132
avr 178.8
(3) 		159.6
(1.9) 		128
(0) 		87.6
(-2.3) 		76.5
(-3) 		134.7
(0.4) 		102
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 68.9
(3)
P 		20.8
(-2.2)
P 		13.2
(-3)
P 		20.6
(-2.2)
P 		56
B 70.1
(3)
P 		21.7
(-2.6)
P 		19.5
(-2.9)
P 		18.5
(-3)
P 		52
C 62.3
(3)
P 		26.5
(-1.4)
P 		37.9
(0)
P 		13
(-3)
P 		49
avr 67.1
(3) 		23
(-2.3) 		23.5
(-2.3) 		17.4
(-3) 		50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 22.7
(-1.6)
P 		50.6
(3)
P 		28.2
(-0.7)
P 		13.9
(-3)
P 		19.6
(-2.1)
P 		37.3
(0.8)
P 		37
B 70.6
(3)
P 		56.8
(1.1)
P 		33.8
(-2.1)
P 		26.9
(-3)
P 		35.1
(-1.9)
P 		44.5
(-0.6)
P 		44
C 77.9
(3)
P 		50.6
(0.1)
P 		29.4
(-2.2)
P 		21.5
(-3)
P 		25.2
(-2.6)
P 		44.1
(-0.6)
P 		56
avr 57.1
(3) 		52.7
(2.3) 		30.5
(-1.4) 		20.8
(-3) 		26.6
(-2) 		42
(0.5) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174953_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22324
Sequence Type Exemplar sequence
Representative Public ID CEK094EXR NCBI
Target Description CEK094EXR_rc /REP_DB=TREMBL Accession /GB=D66261 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk94e10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_078249(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078249 NCBI Caenorhabditis elegans Sex determination and Dosage Compensation defect family member (sdc-1) (sdc-1) mRNA, complete cds. 11/11 A 
SNAP00000003304 ENSEMBL cdna:SNAP chromosome:CEL140:X:16275686:16282213:1 11/11 None
GENEFINDER00000003308 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:16275686:16282213:1 11/11 None
F52E10.1 ENSEMBL cdna:known chromosome:CEL140:X:16275686:16282349:1 gene:F52E10.1 11/11 A 
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:16281853-16282339(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type (3 domains)
Gene Symbol sdc-1
Ensembl F52E10.1
Entrez Gene 181701 Entrez gene
SwissProt P24349 EMBL-EBI
WormBase CE03393 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
228 nuclear chromosome 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 CAA91056 Hypothetical protein F52E10.1 [Caenorhabditis elegans] ref|NP_510650.1| Sex determination and Dosage Compensation defect family member (sdc-1) [Caenorhabditis elegans] 0.0
blast P24349 Zinc finger protein sdc-1 emb|CAA41410.1| zinc-finger protein [Caenorhabditis elegans] prf||1709362A Zn finger protein 0.0
blast CAE56294 Hypothetical protein CBG23946 [Caenorhabditis briggsae] 1.0E-114
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.7E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.7E-5
Sequence
Target Sequence 
>C. ELEGANS:174953_S_AT
accgaatttatcactgcgaagacacgaatggcatttacaaatttgtttggccgcaggagc
aaagttttgaccccgattcgcttgcaaaaagtgctcgagtcagaatggtcaagcaagtca
aatacacatgatccatcacattgaagaaattgatgagtctattggacataattaccgact
gaatagaaaacggcgaaactcggaaacacgtgaacacgagctcattgaactcgatacgga
cgacctgaatgagccgagtactagtgatggaagatatagttttgggcatcacggatatcg
tt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCGAATTTATCACTGCGAAGACAC 331 89 13 Antisense
CAAATTTGTTTGGCCGCAGGAGCAA 495 193 50 Antisense
AGCAAAGTTTTGACCCCGATTCGCT 50 77 70 Antisense
GACCCCGATTCGCTTGCAAAAAGTG 645 381 81 Antisense
AAGTGCTCGAGTCAGAATGGTCAAG 419 157 101 Antisense
TCTATTGGACATAATTACCGACTGA 543 615 170 Antisense
GGCGAAACTCGGAAACACGTGAACA 435 539 204 Antisense
ACACGTGAACACGAGCTCATTGAAC 274 111 218 Antisense
CATTGAACTCGATACGGACGACCTG 145 217 235 Antisense
GGACGACCTGAATGAGCCGAGTACT 651 517 250 Antisense
AGTTTTGGGCATCACGGATATCGTT 485 63 290 Antisense
Sequence Source Affymetrix Proprietary Database