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[192621_s_at] Zinc finger, CCHC class (2 domains)

Description K03D3.6 /REP_DB=WormBase Gene ID /WP=CE16212 /TR=O45644 /GB=CAB05243.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Zinc finger, CCHC class (2 domains)
Cluster 6grp_total > 74      4grp_total > 22      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 20.9
(-0.3)
A 		12.2
(-3)
A 		24.2
(0.7)
A 		31.7
(3)
A 		20
B 34.5
(3)
A 		29
(1.8)
A 		9.3
(-2.6)
A 		7.4
(-3)
A 		27
C 42
(0.2)
A 		16.4
(-2.3)
A 		9.7
(-3)
A 		69.7
(3)
A 		60
avr 32.5
(2) 		19.2
(-1.7) 		14.4
(-3) 		36.3
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 9.1
(-3)
A 		22.3
(-0.4)
A 		19.9
(-0.9)
A 		9.4
(-2.9)
A 		13.4
(-2.2)
A 		39.7
(3)
A 		31
B 14.7
(-1.8)
A 		13.5
(-2)
A 		31.4
(1.4)
A 		39.5
(3)
A 		33.5
(1.8)
A 		8.5
(-3)
A 		31
C 6.9
(-2.2)
A 		11.6
(0.6)
A 		10
(-0.4)
A 		10.4
(-0.1)
A 		5.5
(-3)
A 		15.8
(3)
A 		10
avr 10.2
(-3) 		15.8
(0) 		20.4
(2.5) 		19.8
(2.2) 		17.5
(0.9) 		21.3
(3) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 7.6
(3)
A 		2.6
(-3)
A 		6.3
(1.4)
A 		4.6
(-0.6)
A 		5
B 11
(3)
A 		7.2
(0.6)
A 		2.2
(-2.6)
A 		1.6
(-3)
A 		9
C 13.9
(3)
A 		4.7
(-2.3)
A 		3.4
(-3)
A 		11.8
(1.8)
A 		11
avr 10.8
(3) 		4.8
(-2.3) 		4
(-3) 		6
(-1.2) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 1.7
(-3)
A 		7.9
(1.7)
A 		4.3
(-1.1)
A 		2.4
(-2.5)
A 		4
(-1.3)
A 		9.7
(3)
A 		8
B 5.1
(-1.9)
A 		4.5
(-2.3)
A 		7.6
(-0.5)
A 		10.5
(1.2)
A 		13.6
(3)
A 		3.2
(-3)
A 		10
C 2.5
(-1.8)
A 		3.5
(-0.1)
A 		2.5
(-1.8)
A 		2.1
(-2.5)
A 		1.8
(-3)
A 		5.3
(3)
A 		4
avr 3.1
(-3) 		5.3
(0.9) 		4.8
(-0) 		5
(0.4) 		6.5
(3) 		6.1
(2.3) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192621_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10008
Sequence Type Exemplar sequence
Representative Public ID K03D3.6 NCBI
Target Description K03D3.6 /REP_DB=WormBase Gene ID /WP=CE16212 /TR=O45644 /GB=CAB05243.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Zinc finger, CCHC class (2 domains)
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_070539(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070539 NCBI Caenorhabditis elegans K03D3.6 (K03D3.6) mRNA, complete cds. 11/11 A 
GENEFINDER00000040354 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:16311040:16315080:1 11/11 None
K03D3.10d ENSEMBL cdna:known chromosome:CEL140:IV:16311040:16312402:1 gene:K03D3.10 11/11 None
K03D3.6 ENSEMBL cdna:known chromosome:CEL140:IV:16316585:16318547:1 gene:K03D3.6 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000040345 4/11 Cross Hyb Matching Probes None
SNAP00000040347 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:16316590-16318553(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, CCHC class (2 domains)
Ensembl K03D3.10
K03D3.6
Entrez Gene 186937 Entrez gene
SwissProt O45644 EMBL-EBI
WormBase CE16212 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05243 Hypothetical protein K03D3.6 [Caenorhabditis elegans] ref|NP_502940.1| K03D3.6 [Caenorhabditis elegans] 0.0
blast CAB05245 Hypothetical protein K03D3.8 [Caenorhabditis elegans] ref|NP_502939.1| K03D3.8 [Caenorhabditis elegans] 0.0
blast AAF99964 Hypothetical protein F49F1.8 [Caenorhabditis elegans] ref|NP_500489.2| F49F1.8 [Caenorhabditis elegans] 1.0E-85
blast CAA20985 Hypothetical protein Y38H6C.5 [Caenorhabditis elegans] ref|NP_507948.1| Y38H6C.5 [Caenorhabditis elegans] 1.0E-62
blast AAF99964 Hypothetical protein F49F1.8 [Caenorhabditis elegans] ref|NP_500489.2| F49F1.8 [Caenorhabditis elegans] 2.0E-34
blast CAB05244 Hypothetical protein K03D3.10c [Caenorhabditis elegans] ref|NP_502937.1| RAC related family member (rac-2) [Caenorhabditis elegans] 4.0E-33
blast CAB05247 Hypothetical protein K03D3.10a [Caenorhabditis elegans] ref|NP_502936.1| RAC related family member (rac-2) [Caenorhabditis elegans] sp|Q94124|RAC2_CAEEL RAS-related protein rac-2 gb|AAB40386.1| CeRac2 5.0E-32
blast AAC25820 Cell death abnormality protein 10, isoform a [Caenorhabditis elegans] ref|NP_500362.3| CEll Death abnormality family member (ced-10) [Caenorhabditis elegans] 5.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 3.2E-33
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 8.2E-5
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 1.2E-35
Pfam IPR005162 EMBL-EBI Retrotransposon gag protein 2.4E-19
Sequence
Target Sequence 
>C. ELEGANS:192621_S_AT
gacttacaagattcgccttctacagctcgttccaaccagtcgcacaagtgccgctaccct
ccgacgtcgaaccagacttgtaatgataattaccgtaacccgtgcaggcctgctccgccg
aactctctcggcagcgcgcgccacattttgcatttccttccggaacattcttgtctcgtc
ccgcccttccaccgcaacctgctatataagacgacaattccctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTTACAAGATTCGCCTTCTACAG 107 371 1344 Antisense
CTTACAAGATTCGCCTTCTACAGCT 435 219 1346 Antisense
TCCAACCAGTCGCACAAGTGCCGCT 184 587 1374 Antisense
CTCCGACGTCGAACCAGACTTGTAA 150 233 1402 Antisense
GTCGAACCAGACTTGTAATGATAAT 162 473 1409 Antisense
GATAATTACCGTAACCCGTGCAGGC 76 421 1428 Antisense
ACATTTTGCATTTCCTTCCGGAACA 535 103 1486 Antisense
TTTGCATTTCCTTCCGGAACATTCT 426 659 1490 Antisense
ATTTCCTTCCGGAACATTCTTGTCT 474 17 1495 Antisense
ACCGCAACCTGCTATATAAGACGAC 590 87 1534 Antisense
GCTATATAAGACGACAATTCCCTCA 243 303 1544 Antisense
Sequence Source Affymetrix Proprietary Database