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[192958_at] Zinc finger, C3HC4 type (RING finger)

Description W02A11.3 /REP_DB=WormBase Gene ID /WP=CE18990 /TR=Q9XUM8 /GB=CAB04890.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 19      4grp_highest_8_8 > 15      4grp_high_8_8 > 14      6grp_highest_nonorm > 75      6grp_total > 19      4grp_total > 10      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1061
1 2 3 4 range
A 1015.6
(-3)
P 		1112.8
(-2.5)
P 		1044
(-2.8)
P 		2076.1
(3)
P 		1061
B 1069.3
(-3)
P 		1179.6
(-2.2)
P 		1113.9
(-2.7)
P 		1886
(3)
P 		817
C 1051.6
(-3)
P 		1236.7
(-1.2)
P 		1144.2
(-2.1)
P 		1680.9
(3)
P 		629
avr 1045.5
(-3) 		1176.4
(-2.1) 		1100.7
(-2.6) 		1881
(3) 		836

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 479
1 2 3 4 5 6 range
A 998
(2.1)
P 		1044.1
(3)
P 		741.2
(-3)
P 		906.6
(0.3)
P 		876.1
(-0.3)
P 		1010.3
(2.3)
P 		303
B 1017
(3)
P 		842.4
(-1.9)
P 		897.6
(-0.4)
P 		804.5
(-3)
P 		947.7
(1)
P 		807.6
(-2.9)
P 		213
C 1164.9
(3)
P 		797.8
(-1.6)
P 		985
(0.7)
P 		809
(-1.5)
P 		1046.9
(1.5)
P 		686
(-3)
P 		479
avr 1060
(3) 		894.8
(-1.4) 		874.6
(-1.9) 		840
(-2.9) 		956.9
(0.3) 		834.6
(-3) 		225
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 369.8
(3)
P 		241.6
(-3)
P 		272.9
(-1.5)
P 		303.9
(-0.1)
P 		128
B 341
(0.5)
P 		291.3
(-1.6)
P 		258.1
(-3)
P 		401.9
(3)
P 		144
C 348.1
(0.4)
P 		355.6
(0.8)
P 		398.8
(3)
P 		283.4
(-3)
P 		115
avr 353
(3) 		296.2
(-3) 		309.9
(-1.6) 		329.7
(0.5) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 270
1 2 3 4 5 6 range
A 184
(-2.4)
P 		371.3
(3)
P 		161.4
(-3)
P 		229.9
(-1)
P 		264.4
(-0.1)
P 		246
(-0.6)
P 		210
B 353.9
(1.9)
P 		280.4
(-0.7)
P 		218
(-2.8)
P 		213.1
(-3)
P 		385
(3)
P 		301.2
(0.1)
P 		172
C 431.8
(3)
P 		243.4
(-1.2)
P 		250.7
(-1)
P 		162.7
(-3)
P 		338.7
(0.9)
P 		229.6
(-1.5)
P 		269
avr 323.2
(2.7) 		298.4
(1.5) 		210
(-2.6) 		201.9
(-3) 		329.4
(3) 		258.9
(-0.3) 		128
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192958_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.839
Sequence Type Exemplar sequence
Representative Public ID W02A11.3 NCBI
Target Description W02A11.3 /REP_DB=WormBase Gene ID /WP=CE18990 /TR=Q9XUM8 /GB=CAB04890.1 /SUBMIT=HINXTON /CHR=1 /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_060830(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060830 NCBI Caenorhabditis elegans W02A11.3 (W02A11.3) mRNA, complete cds. 11/11 None
W02A11.3.2 ENSEMBL cdna:known chromosome:CEL140:I:12746206:12749262:1 gene:W02A11.3 11/11 None
W02A11.3.1 ENSEMBL cdna:known chromosome:CEL140:I:12746208:12749262:1 gene:W02A11.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000019310 2/11 Cross Hyb Matching Probes None
SNAP00000019299 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12746154-12749021(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl W02A11.3
Entrez Gene 173144 Entrez gene
SwissProt Q9XUM8 EMBL-EBI
WormBase CE18990 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04890 Hypothetical protein W02A11.3 [Caenorhabditis elegans] ref|NP_493231.1| W02A11.3 [Caenorhabditis elegans] 0.0
blast CAE67993 Hypothetical protein CBG13603 [Caenorhabditis briggsae] 1.0E-72
blast XP_780861 PREDICTED: similar to ring finger protein 111 [Strongylocentrotus purpuratus] 1.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.9E-10
Sequence
Target Sequence 
>C. ELEGANS:192958_AT
ctgccactcacacaaaactatccggtgatgatggtacttccgatggcagcagttgctcaa
caacacgctgcagccgctgcagcagtagtcgccgtcgcggcggcggcagcggtaccacaa
ccacctccaccacctccacagccgacgcttcacgctccggttccgattcgtccgcagaac
aatccgtacaatttgtacgccttcagaaattcacctattaatgtgcacgcaccaggctac
gttggagaatacgttgagctgttccgttcccagcaatttctattcccgacgtccgagcga
tacggaatcgatcggcatcatatgttcggtggactcgatttggatcttccagtcggtgcc
tcgaaggtggaaatcgacacattcacgattccgacggtgtacgcgaagaaaacggacggc
gaagaggacgaggacacgtgtacggtctgcttgagcagttttgaggatggagagagcata
caaaaactacgatgcaatcacgttttccatccggaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGCCACTCACACAAAACTATCCGG 348 237 871 Antisense
GATGATGGTACTTCCGATGGCAGCA 685 409 897 Antisense
TTCGTCCGCAGAACAATCCGTACAA 354 691 1037 Antisense
GTACGCCTTCAGAAATTCACCTATT 175 459 1065 Antisense
TAATGTGCACGCACCAGGCTACGTT 195 633 1089 Antisense
GAATACGTTGAGCTGTTCCGTTCCC 446 325 1117 Antisense
ATTCCCGACGTCCGAGCGATACGGA 518 7 1152 Antisense
CGGCATCATATGTTCGGTGGACTCG 675 241 1183 Antisense
CGACACATTCACGATTCCGACGGTG 669 251 1245 Antisense
CGAGGACACGTGTACGGTCTGCTTG 322 249 1299 Antisense
GCAATCACGTTTTCCATCCGGAATG 473 321 1364 Antisense
Sequence Source Affymetrix Proprietary Database