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[173884_at] Zinc finger, C3HC4 type (RING finger)

Description CEC4712 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C18B12.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C09471 /WB_GENE_ID=C18B12.4 /WP=CE18510 /CHR=X /FEA=Genomic Cluster /DEF=Zinc finger, C3HC4 type (RING finger); C.elegans cDNA clone yk168g6 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 49      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 84      6grp_total > 94      4grp_total > 03      6grp_high1_sub > Cu      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 604
1 2 3 4 range
A 564.7
(-1.8)
P 		446
(-3)
P 		484.1
(-2.6)
P 		1050
(3)
P 		604
B 595.2
(-1.2)
P 		473.2
(-2.7)
P 		448.1
(-3)
P 		950.7
(3)
P 		503
C 489.4
(-3)
P 		590.5
(-0.6)
P 		539.1
(-1.8)
P 		743
(3)
P 		254
avr 549.8
(-2.2) 		503.2
(-2.8) 		490.4
(-3) 		914.6
(3) 		424

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 526
1 2 3 4 5 6 range
A 651.2
(0.8)
P 		385
(-3)
P 		394.9
(-2.9)
P 		384.5
(-3)
P 		807
(3)
P 		578.7
(-0.2)
P 		423
B 700
(3)
P 		465.4
(-0.4)
P 		281.3
(-3)
P 		630.8
(2)
P 		692.7
(2.9)
P 		644.9
(2.2)
P 		419
C 566
(0.5)
P 		334.8
(-3)
P 		372.7
(-2.4)
P 		573.6
(0.6)
P 		733
(3)
P 		629.2
(1.4)
P 		398
avr 639.1
(1.4) 		395.1
(-2.3) 		349.6
(-3) 		529.6
(-0.3) 		744.2
(3) 		617.6
(1.1) 		395
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 205.6
(3)
P 		96.8
(-3)
P 		126.5
(-1.4)
P 		153.7
(0.1)
P 		109
B 189.8
(2.2)
P 		116.9
(-2.2)
P 		103.8
(-3)
P 		202.6
(3)
P 		99
C 162
(0.5)
P 		169.8
(1.3)
P 		187.9
(3)
P 		125.3
(-3)
P 		63
avr 185.8
(3) 		127.8
(-3) 		139.4
(-1.8) 		160.5
(0.4) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 213
1 2 3 4 5 6 range
A 120
(-1.7)
P 		136.9
(-1.1)
P 		86
(-3)
P 		97.5
(-2.6)
P 		243.5
(3)
P 		140.9
(-0.9)
P 		158
B 243.6
(1.9)
P 		154.9
(-0.6)
P 		68.3
(-3)
P 		167.1
(-0.2)
P 		281.4
(3)
P 		240.5
(1.8)
P 		213
C 209.8
(1.8)
P 		102.2
(-2.7)
P 		94.8
(-3)
P 		115.4
(-2.1)
P 		237.2
(3)
P 		210.6
(1.9)
P 		142
avr 191.1
(0.8) 		131.3
(-1.3) 		83
(-3) 		126.7
(-1.5) 		254
(3) 		197.3
(1) 		171
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173884_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26073
Sequence Type Exemplar sequence
Representative Public ID CEC4712 NCBI
Target Description CEC4712 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C18B12.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C09471 /WB_GENE_ID=C18B12.4 /WP=CE18510 /CHR=X /FEA=Genomic Cluster /DEF=Zinc finger, C3HC4 type (RING finger); C.elegans cDNA clone yk168g6 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_078097(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078097 NCBI Caenorhabditis elegans C18B12.4 (C18B12.4) mRNA, complete cds. 11/11 None
C18B12.4 ENSEMBL cdna:known chromosome:CEL140:X:15036613:15040518:-1 gene:C18B12.4 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
chrX:15036706-15040514(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl C18B12.4
Entrez Gene 181600 Entrez gene
SwissProt Q9XX98 EMBL-EBI
WormBase CE18510 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260168_AT protease-associated zinc finger (C3HC4-type RING finger) family protein at
CANINE:1604334_AT similar to RING finger protein 13 cfa
CANINE:1589011_AT similar to RING finger protein 13 cfa
CANINE_2:CFA.17887.1.S1_S_AT similar to RING finger protein 13 cfa
CANINE_2:CFA.439.1.S1_AT similar to RING finger protein 13 cfa
DROSOPHILA_2:1633069_S_AT dm
DROSGENOME1:154034_AT dm
CHICKEN:GGA.3523.1.S1_AT ring finger protein 13 gga
HG-U133_PLUS_2:201779_S_AT ring finger protein 13 hs
HG-FOCUS:201779_S_AT ring finger protein 13 hs
HG-U133A:201779_S_AT ring finger protein 13 hs
HG-U133A_2:201779_S_AT ring finger protein 13 hs
HG-U133_PLUS_2:201780_S_AT ring finger protein 13 hs
HG-U133A:201780_S_AT ring finger protein 13 hs
HG-U133A_2:201780_S_AT ring finger protein 13 hs
HU35KSUBA:RC_AA449361_AT ring finger protein 13 hs
U133_X3P:G6005863_3P_A_AT ring finger protein 13 hs
U133_X3P:G3387924_3P_A_AT ring finger protein 13 hs
HG-U95AV2:35811_AT ring finger protein 13 hs
HG-U95D:74605_AT ring finger protein 13 hs
HG-U133_PLUS_2:237264_AT Ring finger protein 13 hs
HG-U133B:237264_AT Ring finger protein 13 hs
HG-U133_PLUS_2:239554_AT Ring finger protein 13 hs
HG-U133B:239554_AT Ring finger protein 13 hs
HG-U95B:50857_AT Ring finger protein 13 hs
HG-U95C:61572_AT Ring finger protein 13 hs
HG-U95C:62068_AT Ring finger protein 13 hs
HU35KSUBB:RC_F10418_AT Ring finger protein 13 hs
HU35KSUBC:RC_N59564_AT Ring finger protein 13 hs
U133_X3P:HS.12333.0.A1_3P_AT Ring finger protein 13 hs
U133_X3P:HS.147296.0.A1_3P_AT Ring finger protein 13 hs
Protein Similarities
Method ID Description E-Value
blast CAA20925 Hypothetical protein C18B12.4 [Caenorhabditis elegans] ref|NP_510498.1| C18B12.4 [Caenorhabditis elegans] 0.0
blast CAE63266 Hypothetical protein CBG07640 [Caenorhabditis briggsae] 0.0
blast NP_990686 ring finger protein 13 [Gallus gallus] emb|CAA64725.1| RING zinc finger protein [Gallus gallus] gb|AAX14391.1| RING finger protein 13 [Gallus gallus] sp|Q90972|RNF13_CHICK RING finger protein 13 (C-RZF) prf||2211437A RING finger protein 7.0E-27
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 2.1E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510498.1 2 7-29,193-215
C18B12.4 2 7-29,193-215
Sequence
Target Sequence 
>C. ELEGANS:173884_AT
cattcttgtcaataactgcttttccattcttgcatacttgtcccatacttgtcttttcct
ttcaaagtcaacccacaattcactctcaaatctcttgtttcccccctcctgtacactccg
gttctattgatagacgtgatatagttttttattttgtctgtatttttttcttattcatcg
gaattgtagcgatgcttatttttttgtgtatgttgctattc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATTCTTGTCAATAACTGCTTTTCC 689 215 1370 Antisense
TCAATAACTGCTTTTCCATTCTTGC 617 633 1378 Antisense
CTTTTCCATTCTTGCATACTTGTCC 329 223 1388 Antisense
CCATACTTGTCTTTTCCTTTCAAAG 363 269 1412 Antisense
TTCCTTTCAAAGTCAACCCACAATT 165 695 1425 Antisense
CAAAGTCAACCCACAATTCACTCTC 541 189 1432 Antisense
CCACAATTCACTCTCAAATCTCTTG 610 273 1442 Antisense
CTGTACACTCCGGTTCTATTGATAG 157 239 1478 Antisense
CTGTATTTTTTTCTTATTCATCGGA 570 237 1527 Antisense
GTAGCGATGCTTATTTTTTTGTGTA 169 457 1555 Antisense
TATTTTTTTGTGTATGTTGCTATTC 158 663 1566 Antisense
Sequence Source Affymetrix Proprietary Database