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[192861_at] Zinc finger, C3HC4 type (RING finger)

Description C56A3.4 /REP_DB=WormBase Gene ID /WP=CE09032 /TR=Q18875 /GB=CAB01133.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 89      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_highest_nonorm > 83      6grp_total > 98      4grp_total > 22      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 378
1 2 3 4 range
A 481
(2.8)
P 		222.4
(-3)
P 		233.1
(-2.8)
P 		489.7
(3)
P 		267
B 487.5
(1.7)
P 		268.8
(-1.8)
P 		193.5
(-3)
P 		571.6
(3)
P 		378
C 457.9
(3)
P 		305.4
(-2.5)
P 		292.2
(-3)
P 		442.9
(2.5)
P 		166
avr 475.5
(2.4) 		265.5
(-2.4) 		239.6
(-3) 		501.4
(3) 		262

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 383
1 2 3 4 5 6 range
A 499.7
(-0.7)
P 		407.9
(-3)
P 		406.3
(-3)
P 		513
(-0.4)
P 		493.2
(-0.9)
P 		655.3
(3)
P 		249
B 372.4
(-1.2)
P 		393.6
(-0.9)
P 		272.7
(-3)
P 		340.3
(-1.8)
P 		544.8
(1.8)
P 		613.5
(3)
P 		341
C 562.8
(0.7)
P 		456.6
(-2.4)
P 		434.7
(-3)
P 		508.3
(-0.9)
P 		640.6
(3)
P 		585.1
(1.4)
P 		206
avr 478.3
(-0.4) 		419.4
(-1.8) 		371.2
(-3) 		453.9
(-1) 		559.5
(1.6) 		618
(3) 		247
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 130
1 2 3 4 range
A 175.1
(3)
P 		48.3
(-3)
P 		60.9
(-2.4)
P 		71.7
(-1.9)
P 		127
B 155.5
(3)
P 		66.4
(-1.8)
P 		44.8
(-3)
P 		121.8
(1.2)
P 		111
C 151.6
(3)
P 		87.8
(-2)
P 		101.8
(-0.9)
P 		74.7
(-3)
P 		77
avr 160.7
(3) 		67.5
(-3) 		69.2
(-2.9) 		89.4
(-1.6) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 92.1
(-2.7)
P 		145.1
(1.8)
P 		88.5
(-3)
P 		130.1
(0.5)
P 		148.8
(2.1)
P 		159.6
(3)
P 		71
B 129.6
(-0.7)
P 		131
(-0.6)
P 		66.2
(-3)
P 		90.1
(-2.1)
P 		221.3
(2.7)
P 		228.8
(3)
P 		163
C 208.6
(3)
P 		139.3
(-0.9)
P 		110.6
(-2.5)
P 		102.2
(-3)
P 		207.3
(2.9)
P 		195.9
(2.3)
P 		106
avr 143.4
(0.1) 		138.5
(-0.2) 		88.4
(-3) 		107.5
(-1.9) 		192.5
(2.9) 		194.8
(3) 		106
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192861_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14165
Sequence Type Exemplar sequence
Representative Public ID C56A3.4 NCBI
Target Description C56A3.4 /REP_DB=WormBase Gene ID /WP=CE09032 /TR=Q18875 /GB=CAB01133.1 /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_073953(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073953 NCBI Caenorhabditis elegans C56A3.4 (C56A3.4) mRNA, complete cds. 10/11 A 
SNAP00000001395 ENSEMBL cdna:SNAP chromosome:CEL140:V:13553306:13554299:-1 10/11 None
GENEFINDER00000001407 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13552132:13554299:-1 11/11 None
C56A3.4 ENSEMBL cdna:known chromosome:CEL140:V:13553129:13554355:-1 gene:C56A3.4 10/11 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
chrV:13552131-13554299(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl C56A3.4
Entrez Gene 179836 Entrez gene
SwissProt Q18875 EMBL-EBI
WormBase CE37961 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB01133 Hypothetical protein C56A3.4 [Caenorhabditis elegans] ref|NP_506354.2| C56A3.4 [Caenorhabditis elegans] 1.0E-121
blast CAB01133 Hypothetical protein C56A3.4 [Caenorhabditis elegans] ref|NP_506354.2| C56A3.4 [Caenorhabditis elegans] 1.0E-118
blast CAE62568 Hypothetical protein CBG06679 [Caenorhabditis briggsae] 4.0E-96
blast CAE62568 Hypothetical protein CBG06679 [Caenorhabditis briggsae] 6.0E-95
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506354.2 3 21-43,48-70,83-105
C56A3.4 3 21-43,48-70,83-105
SNAP00000001395 3 21-43,48-70,83-105
GENEFINDER00000001407 3 21-43,48-70,83-105
Sequence
Target Sequence 
>C. ELEGANS:192861_AT
ctattcctgtttattgctactgtattgatcactttgtacgtctataggcgattgtcatca
acaccacgtgaaagctttatcagttatattctatacactgtggttccgtacggagtgtcc
atcgtctacacagttgttggtttcattttccctcaagtccgaattgtcacacgaattatc
gatgttctcctgcatccaatcaaatttattctgggattcatcgaaaaagtcgataatcga
gctgctccaattcgtcgcacagtagaagcaatccacggaccaaagccaccaaaagcaggt
gtaaaatcggttgaagattctatcaacgaagctcgacttcaatgtttcctgtgtaaattg
actgagaaacgtgttctgctccgcccatgcaatcatctctgcttttgtgaaccttgcaat
gataccttccagaagcagatacctctactatgtccaatatgccacatgcatgttcagtcg
tttgaaattctctccccgcacaaaaaaagttgggcggtctattctcttactcttgaacca
t

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTATTCCTGTTTATTGCTACTGTAT 78 225 178 Antisense
TAGGCGATTGTCATCAACACCACGT 31 655 222 Antisense
TATACACTGTGGTTCCGTACGGAGT 450 659 269 Antisense
CGTACGGAGTGTCCATCGTCTACAC 271 247 284 Antisense
CAGTTGTTGGTTTCATTTTCCCTCA 27 207 308 Antisense
TTTTCCCTCAAGTCCGAATTGTCAC 603 677 323 Antisense
TGTTCTCCTGCATCCAATCAAATTT 50 563 360 Antisense
TAATCGAGCTGCTCCAATTCGTCGC 707 633 411 Antisense
GCACAGTAGAAGCAATCCACGGACC 652 315 434 Antisense
AGCTCGACTTCAATGTTTCCTGTGT 268 81 507 Antisense
GTCTATTCTCTTACTCTTGAACCAT 218 469 694 Antisense
Sequence Source Affymetrix Proprietary Database