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[173176_at] Zinc finger, C3HC4 type (RING finger)

Description AV179863_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV179863 /DEF=Caenorhabditis elegans cDNA clone:yk598h2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 69      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 84      6grp_total > 79      4grp_total > 17      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 676
1 2 3 4 range
A 447.6
(-3)
P 		632.6
(-0.3)
P 		629.6
(-0.3)
P 		853.2
(3)
P 		406
B 443.6
(-3)
P 		982.2
(1.8)
P 		649.2
(-1.2)
P 		1119.9
(3)
P 		676
C 559.9
(-2.2)
P 		492.1
(-3)
P 		706.1
(-0.5)
P 		998.2
(3)
P 		506
avr 483.7
(-3) 		702.3
(-0.4) 		661.6
(-0.9) 		990.4
(3) 		507

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 684
1 2 3 4 5 6 range
A 619
(0)
P 		724.9
(3)
P 		605.8
(-0.3)
P 		511.4
(-3)
P 		705.5
(2.5)
P 		687.5
(1.9)
P 		214
B 504.8
(-0.9)
P 		695.3
(3)
P 		398.8
(-3)
P 		686.6
(2.8)
P 		681.3
(2.7)
P 		578.3
(0.6)
P 		297
C 802
(0.2)
P 		549
(-2.4)
P 		587.5
(-2)
P 		491.5
(-3)
P 		738.8
(-0.5)
P 		1082.9
(3)
P 		591
avr 641.9
(-0.4) 		656.4
(-0) 		530.7
(-3) 		563.2
(-2.2) 		708.5
(1.2) 		782.9
(3) 		252
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 121
1 2 3 4 range
A 163
(2.8)
P 		137.3
(-1.1)
P 		164.6
(3)
P 		124.9
(-3)
P 		40
B 141.5
(-3)
P 		242.6
(3)
P 		150.4
(-2.5)
P 		238.7
(2.8)
P 		101
C 185.3
(-0.5)
P 		141.5
(-3)
P 		246.1
(3)
P 		168.3
(-1.5)
P 		105
avr 163.3
(-3) 		173.8
(-0.3) 		187
(3) 		177.3
(0.5) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 266
1 2 3 4 5 6 range
A 114.1
(-3)
P 		257.8
(3)
P 		131.9
(-2.3)
P 		129.7
(-2.3)
P 		212.9
(1.1)
P 		167.4
(-0.8)
P 		144
B 175.6
(-0.4)
P 		231.4
(1.5)
P 		96.8
(-3)
P 		181.9
(-0.2)
P 		276.8
(3)
P 		215.6
(1)
P 		180
C 297.3
(1.5)
P 		167.5
(-1.4)
P 		149.5
(-1.8)
P 		98.8
(-3)
P 		239.1
(0.2)
P 		362.5
(3)
P 		264
avr 195.7
(0.4) 		218.9
(1.5) 		126.1
(-3) 		136.8
(-2.5) 		242.9
(2.7) 		248.5
(3) 		122
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173176_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26677
Sequence Type Exemplar sequence
Representative Public ID AV179863 NCBI
Target Description AV179863_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV179863 /DEF=Caenorhabditis elegans cDNA clone:yk598h2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_073568(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073568 NCBI Caenorhabditis elegans F55A11.3 (F55A11.3) mRNA, complete cds. 11/11 None
F55A11.3.2 ENSEMBL cdna:known chromosome:CEL140:V:11769915:11772474:1 gene:F55A11.3 11/11 A 
F55A11.3.1 ENSEMBL cdna:known chromosome:CEL140:V:11769916:11772600:1 gene:F55A11.3 11/11 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:11772117-11772383(+) 88.67 88.67
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl F55A11.3
Entrez Gene 179612 Entrez gene
SwissProt Q20798 EMBL-EBI
WormBase CE05945 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258328_AT zinc finger (C3HC4-type RING finger) family protein at
CANINE:1604075_AT similar to synoviolin 1 isoform a cfa
CANINE_2:CFA.17243.1.S1_S_AT similar to synoviolin 1 isoform a cfa
CANINE_2:CFAAFFX.21482.1.S1_S_AT similar to synoviolin 1 isoform a cfa
DROSOPHILA_2:1640897_AT septin interacting protein 3 dm
DROSGENOME1:152352_AT septin interacting protein 3 dm
U133_X3P:HS.75859.1.A1_3P_AT synovial apoptosis inhibitor 1, synoviolin hs
HG-U133_PLUS_2:225090_AT synovial apoptosis inhibitor 1, synoviolin hs
HG-U133B:225090_AT synovial apoptosis inhibitor 1, synoviolin hs
HG-U95E:78756_AT synovial apoptosis inhibitor 1, synoviolin hs
HG-U133_PLUS_2:244522_AT Synovial apoptosis inhibitor 1, synoviolin hs
HG-U133B:244522_AT Synovial apoptosis inhibitor 1, synoviolin hs
HG-U95E:67627_AT Synovial apoptosis inhibitor 1, synoviolin hs
U133_X3P:HS.187033.0.A1_3P_AT Synovial apoptosis inhibitor 1, synoviolin hs
MOE430A:1428070_AT synovial apoptosis inhibitor 1, synoviolin mm
MOUSE430A_2:1428070_AT synovial apoptosis inhibitor 1, synoviolin mm
MOUSE430_2:1428070_AT synovial apoptosis inhibitor 1, synoviolin mm
MOE430B:1443609_S_AT synovial apoptosis inhibitor 1, synoviolin mm
MOUSE430_2:1443609_S_AT synovial apoptosis inhibitor 1, synoviolin mm
MU19KSUBA:TC15340_AT Synovial apoptosis inhibitor 1, synoviolin (Syvn1), mRNA mm
MU19KSUBA:TC15340_G_AT Synovial apoptosis inhibitor 1, synoviolin (Syvn1), mRNA mm
RG-U34B:RC_AA946430_AT similar to HRD1 protein; synoviolin 1 (predicted) rn
RG-U34C:RC_AA858449_AT similar to HRD1 protein; synoviolin 1 (predicted) rn
RAE230A:1371827_AT similar to HRD1 protein; synoviolin 1 (predicted) rn
RAT230_2:1371827_AT similar to HRD1 protein; synoviolin 1 (predicted) rn
RAE230B:1385306_AT Similar to HRD1 protein; synoviolin 1 (predicted) rn
RAT230_2:1385306_AT Similar to HRD1 protein; synoviolin 1 (predicted) rn
RG-U34A:RC_AA893327_I_AT Similar to HRD1 protein; synoviolin 1 (predicted) rn
RG-U34A:RC_AA893327_S_AT Similar to HRD1 protein; synoviolin 1 (predicted) rn
RG-U34B:RC_AI008572_AT Similar to HRD1 protein; synoviolin 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA96657 Hypothetical protein F55A11.3 [Caenorhabditis elegans] ref|NP_505969.1| F55A11.3 [Caenorhabditis elegans] 0.0
blast CAE75301 Hypothetical protein CBG23271 [Caenorhabditis briggsae] 0.0
blast AAH70731 MGC83718 protein [Xenopus laevis] 1.0E-112
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.9E-15
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505969.1 6 5-27,40-62,102-121,142-164,169-191,212-234
F55A11.3.2 6 5-27,40-62,102-121,142-164,169-191,212-234
F55A11.3.1 6 5-27,40-62,102-121,142-164,169-191,212-234
Sequence
Target Sequence 
>C. ELEGANS:173176_AT
aatcagtaatcctgaattacctgtaattaatttctcgttgtctattcttgtgattttcgg
tttttctctcccaaagacctactcgattgggtttctcacgtgtattctgtatgctattat
ttgtttcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCAGTAATCCTGAATTACCTGTA 142 169 143 Antisense
TTACCTGTAATTAATTTCTCGTTGT 375 681 159 Antisense
AATTAATTTCTCGTTGTCTATTCTT 11 177 167 Antisense
CGTTGTCTATTCTTGTGATTTTCGG 7 249 178 Antisense
TCTTGTGATTTTCGGTTTTTCTCTC 68 619 188 Antisense
CTCTCCCAAAGACCTACTCGATTGG 554 231 208 Antisense
AGACCTACTCGATTGGGTTTCTCAC 333 69 217 Antisense
ACTCGATTGGGTTTCTCACGTGTAT 198 97 223 Antisense
GGGTTTCTCACGTGTATTCTGTATG 156 495 231 Antisense
TCACGTGTATTCTGTATGCTATTAT 74 627 238 Antisense
TTCTGTATGCTATTATTTGTTTCTA 577 693 247 Antisense
Sequence Source Affymetrix Proprietary Database