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[193091_at] Zinc finger, C3HC4 type (RING finger)

Description T02C1.1 /REP_DB=WormBase Gene ID /WP=CE00312 /TR=SW:Q03605 /GB=CAA79563.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_total > 94      4grp_total > 41      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 8.7
(-3)
A 		65
(3)
A 		25.2
(-1.2)
A 		18.2
(-2)
A 		56
B 3.9
(-3)
A 		21.9
(-1)
A 		57.7
(3)
P 		40.5
(1.1)
A 		54
C 2.6
(-3)
A 		42.2
(3)
P 		40.2
(2.7)
P 		35.7
(2)
A 		40
avr 5.1
(-3) 		43
(3) 		41
(2.7) 		31.5
(1.2) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 2.2
(-3)
A 		32.6
(-1.9)
P 		42.5
(-1.5)
P 		73.6
(-0.3)
P 		162.5
(3)
P 		74.8
(-0.3)
P 		160
B 2.3
(-3)
A 		39.3
(-1.6)
P 		81.7
(-0.1)
P 		91.3
(0.3)
P 		164.7
(3)
P 		150.4
(2.5)
P 		162
C 26
(-3)
A 		58.5
(-1.3)
P 		40.8
(-2.2)
P 		89.4
(0.3)
P 		141.8
(3)
P 		111.2
(1.4)
P 		116
avr 10.2
(-3) 		43.5
(-1.6) 		55
(-1.2) 		84.8
(0.1) 		156.3
(3) 		112.1
(1.2) 		146
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 3.2
(-2.7)
A 		14.1
(3)
A 		6.6
(-0.9)
A 		2.7
(-3)
A 		11
B 1.2
(-3)
A 		5.4
(-0.9)
A 		13.4
(3)
P 		8.6
(0.6)
A 		12
C 0.9
(-3)
A 		12.1
(2.1)
P 		14
(3)
P 		6
(-0.7)
A 		13
avr 1.8
(-3) 		10.5
(2.5) 		11.3
(3) 		5.8
(-0.5) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 0.4
(-3)
A 		11.6
(-1.6)
P 		9.2
(-1.9)
P 		18.7
(-0.7)
P 		49
(3)
P 		18.2
(-0.8)
P 		49
B 0.8
(-3)
A 		13.1
(-1.9)
P 		19.8
(-1.3)
P 		24.2
(-0.9)
P 		66.9
(3)
P 		56.1
(2)
P 		66
C 9.6
(-3)
A 		17.9
(-1.6)
P 		10.4
(-2.9)
P 		18
(-1.6)
P 		45.9
(3)
P 		37.2
(1.6)
P 		36
avr 3.6
(-3) 		14.2
(-1.7) 		13.1
(-1.9) 		20.3
(-1) 		53.9
(3) 		37.2
(1) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193091_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8035
Sequence Type Exemplar sequence
Representative Public ID T02C1.1 NCBI
Target Description T02C1.1 /REP_DB=WormBase Gene ID /WP=CE00312 /TR=SW:Q03605 /GB=CAA79563.1 /SUBMIT=HINXTON /CHR=3 /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_066643(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066643 NCBI Caenorhabditis elegans T02C1.1 (T02C1.1) mRNA, complete cds. 11/11 None
SNAP00000042150 ENSEMBL cdna:SNAP chromosome:CEL140:III:9247547:9248472:1 11/11 None
GENEFINDER00000042152 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9247547:9252753:1 11/11 None
T02C1.1 ENSEMBL cdna:known chromosome:CEL140:III:9247547:9248500:1 gene:T02C1.1 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
chrIII:9247542-9248468(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl T02C1.1
Entrez Gene 176305 Entrez gene
SwissProt Q03605 EMBL-EBI
WormBase CE00312 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE17940 Hypothetical protein T02C1.2 [Caenorhabditis elegans] ref|NP_001022740.1| T02C1.2 [Caenorhabditis elegans] 6.0E-96
blast CAA79563 Hypothetical protein T02C1.1 [Caenorhabditis elegans] ref|NP_499044.1| T02C1.1 [Caenorhabditis elegans] sp|Q03605|YNN1_CAEEL Hypothetical RING finger protein T02C1.1 in chromosome III 3.0E-91
blast CAA79563 Hypothetical protein T02C1.1 [Caenorhabditis elegans] ref|NP_499044.1| T02C1.1 [Caenorhabditis elegans] sp|Q03605|YNN1_CAEEL Hypothetical RING finger protein T02C1.1 in chromosome III 6.0E-84
blast CAE65257 Hypothetical protein CBG10147 [Caenorhabditis briggsae] 9.0E-69
blast CAE65257 Hypothetical protein CBG10147 [Caenorhabditis briggsae] 2.0E-63
blast XP_689756 PREDICTED: similar to tripartite motif-containing 35 isoform 1 [Danio rerio] 3.0E-11
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.6E-14
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.2E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000042152 3 159-181,196-217,238-260
Sequence
Target Sequence 
>C. ELEGANS:193091_AT
gtgacgaagatttttgctgtgcggtttgcttggatttttttgtggagccttgcataatag
aatgtggtcattcttattgtcgattttgtatcgaaagtcacctgaatatcaatgaaaagt
gcccactgtgcagagctcatactggaaatccaatcagaaatcgacaactcgagtcattaa
caatgagctatgtgagttctcgaaatatatccactgaatattatgaacgaatgaaatctt
atcaaaagaaactattgcttcaaaatcgagcacttgtaattatttggactgagttgaata
aaaggccaggacattctacggaactatgtaatctagtacggaatgtacaagatgaagaac
tgaaatcggagattatgtggcaagtaaagcaacaagttggagtaggattagaacacactg
gagacctcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGACGAAGATTTTTGCTGTGCGGT 61 481 17 Antisense
GTGCGGTTTGCTTGGATTTTTTTGT 294 479 35 Antisense
GGATTTTTTTGTGGAGCCTTGCATA 144 509 48 Antisense
ATGTGGTCATTCTTATTGTCGATTT 89 51 78 Antisense
ATTTTGTATCGAAAGTCACCTGAAT 539 13 99 Antisense
CCCACTGTGCAGAGCTCATACTGGA 535 257 138 Antisense
GAAATCGACAACTCGAGTCATTAAC 462 361 173 Antisense
GTGAGTTCTCGAAATATATCCACTG 542 483 208 Antisense
CGAGCACTTGTAATTATTTGGACTG 545 249 283 Antisense
AAAGGCCAGGACATTCTACGGAACT 360 121 317 Antisense
GATTAGAACACACTGGAGACCTCCA 275 429 422 Antisense
Sequence Source Affymetrix Proprietary Database