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[192790_s_at] Zinc finger, C3HC4 type (RING finger)

Description F53F8.3 /REP_DB=WormBase Gene ID /WP=CE17857 /TR=O62260 /GB=CAB04460.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_total > 78      4grp_total > 17      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 2.2
(-3)
A 		5.9
(-0.7)
A 		2.8
(-2.6)
A 		11.7
(3)
A 		10
B 2.9
(-3)
A 		3.3
(-2.3)
A 		6.5
(3)
A 		6.3
(2.7)
A 		4
C 3.3
(-1.7)
A 		4.3
(-0.8)
A 		1.9
(-3)
A 		8.5
(3)
A 		7
avr 2.8
(-3) 		4.5
(-1.3) 		3.7
(-2.1) 		8.8
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 233
1 2 3 4 5 6 range
A 10.3
(-2.9)
A 		7.6
(-3)
A 		38
(-1.4)
A 		8.2
(-3)
A 		68.1
(0.1)
A 		123.9
(3)
A 		116
B 10
(-2.8)
A 		7.6
(-2.9)
A 		12.9
(-2.8)
A 		3.2
(-3)
A 		59.1
(-1.6)
A 		236.6
(3)
P 		233
C 14.8
(-2.7)
A 		6.5
(-2.9)
A 		3.5
(-3)
A 		9.8
(-2.8)
A 		56.8
(-1.4)
A 		207.2
(3)
P 		204
avr 11.7
(-2.8) 		7.2
(-3) 		18.1
(-2.6) 		7.1
(-3) 		61.3
(-1.2) 		189.2
(3) 		182
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1
1 2 3 4 range
A 0.8
(-2.4)
A 		1.3
(0.6)
A 		0.7
(-3)
A 		1.7
(3)
A 		1
B 0.9
(-2.1)
A 		0.8
(-3)
A 		1.5
(3)
A 		1.4
(2.1)
A 		1
C 1.1
(0.4)
A 		1.2
(1.3)
A 		0.7
(-3)
A 		1.4
(3)
A 		1
avr 0.9
(-3) 		1.1
(-1) 		1
(-2) 		1.5
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 1.9
(-3)
A 		2.7
(-2.8)
A 		8.3
(-1.6)
A 		2.1
(-3)
A 		20.6
(1)
A 		30.2
(3)
A 		28
B 3.5
(-2.8)
A 		2.5
(-2.9)
A 		3.1
(-2.8)
A 		0.8
(-3)
A 		24
(-1.4)
A 		88.2
(3)
P 		87
C 5.5
(-2.6)
A 		2
(-2.9)
A 		0.9
(-3)
A 		2
(-2.9)
A 		18.4
(-1.5)
A 		69.3
(3)
P 		68
avr 3.6
(-2.8) 		2.4
(-2.9) 		4.1
(-2.8) 		1.6
(-3) 		21
(-1.1) 		62.6
(3) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192790_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12753
Sequence Type Exemplar sequence
Representative Public ID F53F8.3 NCBI
Target Description F53F8.3 /REP_DB=WormBase Gene ID /WP=CE17857 /TR=O62260 /GB=CAB04460.1 /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_075595(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075595 NCBI Caenorhabditis elegans F53F8.3 (F53F8.3) mRNA, complete cds. 11/11 None
SNAP00000039377 ENSEMBL cdna:SNAP chromosome:CEL140:V:20686887:20687569:-1 11/11 None
GENEFINDER00000039383 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20686887:20689735:-1 11/11 None
F53F8.3 ENSEMBL cdna:known chromosome:CEL140:V:20686856:20687580:-1 gene:F53F8.3 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:20686886-20687569(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl F53F8.3
Entrez Gene 180353 Entrez gene
SwissProt O62260 EMBL-EBI
WormBase CE17857 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04460 Hypothetical protein F53F8.3 [Caenorhabditis elegans] ref|NP_507996.1| F53F8.3 [Caenorhabditis elegans] 1.0E-109
blast CAB04461 Hypothetical protein F53F8.4 [Caenorhabditis elegans] ref|NP_507997.1| F53F8.4 [Caenorhabditis elegans] 1.0E-100
blast CAE61681 Hypothetical protein CBG05625 [Caenorhabditis briggsae] 3.0E-87
blast CAE67264 Hypothetical protein CBG12711 [Caenorhabditis briggsae] 2.0E-18
blast CAB60579 Hypothetical protein Y6D1A.2 [Caenorhabditis elegans] ref|NP_496525.1| Y6D1A.2 [Caenorhabditis elegans] 1.0E-16
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.4E-9
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 4.8E-46
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.4E-9
Sequence
Target Sequence 
>C. ELEGANS:192790_S_AT
ctcgaggcacgcggaccaaagaaagaatggtgcacagttgagagcagaggaagaagccaa
caaggtcaaattgagattaaccgcggagaatgaaaagttgaagagtgaagtggaaaagtt
gaagaaagatcatgaagaactgtcaagggttaccctgaaagtcaatacagaattcactat
tcaagaatcacacatggcacgattactgcgagaaaacatgagtttgaaggagcaacttaa
cgacttttccttcaaattgcgattcagagacgatatgtctcgcgtcgaagaacaagtgaa
aaaagagcagggagtcacagacgggtatcgaaggagagtgaaccaattgacagaatttca
tgtgaagagtcaggaagagcaacgaggagaaccgttcccatggagaacctgcgaaatttg
tgcttgcaagtttgagggagaaactatggatcagactccgcgagttttgggctgtggtca
cacgatgtgcatgggatgtgttcaaaaaattgtcgggcaagggtacatcaaatgcccttt
ctgccggattgtcacaaaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCGAGGCACGCGGACCAAAGAAAG 435 233 27 Antisense
ATCACACATGGCACGATTACTGCGA 623 27 213 Antisense
GAGCAACTTAACGACTTTTCCTTCA 669 385 256 Antisense
ACGATATGTCTCGCGTCGAAGAACA 230 93 296 Antisense
GCAGGGAGTCACAGACGGGTATCGA 96 287 333 Antisense
AGAACCGTTCCCATGGAGAACCTGC 706 71 414 Antisense
GAGAACCTGCGAAATTTGTGCTTGC 645 391 429 Antisense
GGATCAGACTCCGCGAGTTTTGGGC 29 503 474 Antisense
TTTGGGCTGTGGTCACACGATGTGC 659 665 492 Antisense
GGGTACATCAAATGCCCTTTCTGCC 219 497 547 Antisense
CCTTTCTGCCGGATTGTCACAAAAA 558 269 562 Antisense
Sequence Source Affymetrix Proprietary Database