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[192775_at] Zinc finger, C3HC4 type (RING finger)

Description C53A5.6 /REP_DB=WormBase Gene ID /WP=CE08955 /TR=O17698 /GB=CAB03987.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_total > 64      4grp_total > 27      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 44.4
(-1.1)
A 		70.2
(2.1)
P 		28.9
(-3)
A 		77.7
(3)
A 		49
B 37.9
(-3)
A 		71
(3)
A 		41.4
(-2.4)
A 		68.2
(2.5)
P 		33
C 41.9
(1.7)
A 		18.6
(-3)
A 		36.1
(0.5)
M 		48.6
(3)
A 		30
avr 41.4
(-1.8) 		53.3
(0.6) 		35.5
(-3) 		64.8
(3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 18
(-3)
A 		28.8
(-1.4)
A 		59.8
(3)
A 		41.1
(0.3)
A 		47.2
(1.2)
A 		32.7
(-0.9)
A 		42
B 3.8
(-3)
A 		11.2
(-2)
A 		47.7
(3)
A 		32.4
(0.9)
A 		5.6
(-2.8)
A 		45.5
(2.7)
P 		44
C 37.5
(0.4)
A 		48.3
(2.3)
A 		36
(0.2)
A 		35.8
(0.1)
A 		17.6
(-3)
A 		52.6
(3)
P 		35
avr 19.8
(-3) 		29.4
(-0.9) 		47.8
(3) 		36.4
(0.6) 		23.5
(-2.2) 		43.6
(2.1) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 16.2
(3)
A 		15.2
(2.3)
P 		7.6
(-3)
A 		11.4
(-0.3)
A 		9
B 12.1
(-1.1)
A 		17.5
(3)
A 		9.6
(-3)
A 		14.5
(0.7)
P 		8
C 13.9
(3)
A 		5.3
(-3)
A 		12.6
(2.1)
M 		8.2
(-1)
A 		9
avr 14.1
(3) 		12.7
(1) 		9.9
(-3) 		11.4
(-0.9) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 3.3
(-3)
A 		10.2
(0.8)
A 		13
(2.3)
A 		10.4
(0.9)
A 		14.2
(3)
A 		8
(-0.4)
A 		11
B 1.3
(-3)
A 		3.7
(-2.1)
A 		11.6
(0.9)
A 		8.6
(-0.2)
A 		2.3
(-2.6)
A 		17
(3)
P 		16
C 13.9
(1.1)
A 		14.7
(1.5)
A 		9.2
(-1.2)
A 		7.2
(-2.2)
A 		5.7
(-3)
A 		17.6
(3)
P 		12
avr 6.2
(-3) 		9.5
(-0.5) 		11.3
(0.8) 		8.7
(-1.1) 		7.4
(-2.1) 		14.2
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192775_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13380
Sequence Type Exemplar sequence
Representative Public ID C53A5.6 NCBI
Target Description C53A5.6 /REP_DB=WormBase Gene ID /WP=CE08955 /TR=O17698 /GB=CAB03987.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
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_074201(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074201 NCBI Caenorhabditis elegans C53A5.6 (C53A5.6) mRNA, complete cds. 11/11 None
SNAP00000009288 ENSEMBL cdna:SNAP chromosome:CEL140:V:14546308:14548250:-1 11/11 None
GENEFINDER00000009296 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14546308:14548410:-1 11/11 None
C53A5.6 ENSEMBL cdna:known chromosome:CEL140:V:14546308:14548410:-1 gene:C53A5.6 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
chrV:14546307-14548410(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl C53A5.6
Entrez Gene 183737 Entrez gene
SwissProt O17698 EMBL-EBI
WormBase CE08955 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03987 Hypothetical protein C53A5.6 [Caenorhabditis elegans] ref|NP_506602.1| C53A5.6 [Caenorhabditis elegans] 0.0
blast CAE56161 Hypothetical protein CBG23781 [Caenorhabditis briggsae] 1.0E-131
blast CAB03989 Hypothetical protein C53A5.9 [Caenorhabditis elegans] ref|NP_506605.1| C53A5.9 [Caenorhabditis elegans] 1.0E-101
Protein Domains
Database ID Description E-Value
Pfam IPR006652 EMBL-EBI Kelch repeat 0.18
Pfam IPR006652 EMBL-EBI Kelch repeat 1.5E-11
Pfam IPR006652 EMBL-EBI Kelch repeat 3.5E-14
Pfam IPR006652 EMBL-EBI Kelch repeat 1.7E-8
Pfam IPR006652 EMBL-EBI Kelch repeat 1.8E-14
Pfam IPR006652 EMBL-EBI Kelch repeat 1.5E-7
Pfam IPR001841 EMBL-EBI Zn-finger, RING 7.2E-6
Pfam IPR006652 EMBL-EBI Kelch repeat 0.18
Pfam IPR006652 EMBL-EBI Kelch repeat 1.5E-11
Pfam IPR006652 EMBL-EBI Kelch repeat 3.5E-14
Pfam IPR006652 EMBL-EBI Kelch repeat 1.7E-8
Pfam IPR006652 EMBL-EBI Kelch repeat 1.8E-14
Pfam IPR006652 EMBL-EBI Kelch repeat 1.5E-7
Sequence
Target Sequence 
>C. ELEGANS:192775_AT
gaacacgaacgtcggcgggaatccataacaacaaaatgtacgtggccggtggatatgata
gcacttatatgaattctgtggaagtttatgatactgatcaaggagagtggaaggatggac
catcgttgcaaaggcctcgtgccgatgcagcggttgttccatgcaatggagaggtttatg
tgttgggaggtttcaatggaaaagaatatgaagagaagattgagaagctgtcagaacctg
gtcaaaagttcgaaattgtgggcgacatgcaaggaagtcgcgccggatttggatcgtgtg
ccttcagaggaagaatctacattgctggtggatggagtaactcgagtaatacgttgagat
cagttcgaagctatgatccattgacgaaatcatggagagatgagccatcgttgagcaaag
atcgaaaatatttcactcttcactcgacgaacgaagctatttatgctattcgcggatgtg
ctgacaattggagcttaatcaatgaagtcgagcgatttgatccagaaaaacgtgcatggg
agattattagttgctccggaccaatggttggagccggttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACACGAACGTCGGCGGGAATCCA 306 351 1115 Antisense
GTACGTGGCCGGTGGATATGATAGC 162 459 1152 Antisense
GATGGACCATCGTTGCAAAGGCCTC 211 407 1228 Antisense
CCGATGCAGCGGTTGTTCCATGCAA 21 263 1256 Antisense
GAGAAGCTGTCAGAACCTGGTCAAA 134 391 1336 Antisense
AAGGAAGTCGCGCCGGATTTGGATC 294 159 1385 Antisense
ATTTGGATCGTGTGCCTTCAGAGGA 269 17 1401 Antisense
TTCACTCTTCACTCGACGAACGAAG 697 681 1546 Antisense
TGCTATTCGCGGATGTGCTGACAAT 494 579 1578 Antisense
GATTATTAGTTGCTCCGGACCAATG 581 427 1656 Antisense
CGGACCAATGGTTGGAGCCGGTTCA 302 241 1671 Antisense
Sequence Source Affymetrix Proprietary Database