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[192837_s_at] Zinc finger, C3HC4 type (RING finger)

Description Y6D1A.2 /REP_DB=WormBase Gene ID /WP=CE21323 /TR=Q9U1S9 /GB=CAB60579.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 21      4grp_high_8_8 > 45      6grp_highest_nonorm > 80      6grp_total > 32      4grp_total > 58      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 176
1 2 3 4 range
A 96.5
(-0.7)
P 		182.5
(3)
P 		162.2
(2.1)
P 		44.8
(-3)
P 		138
B 118.8
(1.5)
P 		131.2
(2.3)
P 		142.9
(3)
P 		45.6
(-3)
A 		97
C 97.5
(-3)
P 		221
(3)
P 		152.1
(-0.3)
P 		111
(-2.3)
P 		124
avr 104.3
(-1) 		178.2
(3) 		152.4
(1.6) 		67.1
(-3) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 355
1 2 3 4 5 6 range
A 264.1
(0.7)
P 		206.4
(-0.2)
P 		397.7
(3)
P 		269
(0.8)
P 		130.5
(-1.5)
P 		42.4
(-3)
P 		355
B 313.6
(2.2)
P 		239.2
(0.2)
P 		345.7
(3)
P 		240.7
(0.2)
P 		143.7
(-2.3)
P 		117.3
(-3)
P 		228
C 229.3
(2)
P 		252.5
(3)
P 		180.8
(0)
P 		252.1
(3)
P 		143.4
(-1.5)
P 		108.4
(-3)
P 		144
avr 269
(1.9) 		232.7
(0.9) 		308.1
(3) 		253.9
(1.5) 		139.2
(-1.6) 		89.4
(-3) 		219
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 35.1
(1.8)
P 		39.6
(2.5)
P 		42.4
(3)
P 		6.6
(-3)
P 		36
B 37.9
(3)
P 		32.4
(1.8)
P 		33.1
(2)
P 		9.7
(-3)
A 		28
C 32.3
(-1.2)
P 		63.5
(3)
P 		53
(1.6)
P 		18.7
(-3)
P 		45
avr 35.1
(1.2) 		45.2
(3) 		42.8
(2.6) 		11.7
(-3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 99
1 2 3 4 5 6 range
A 48.7
(0)
P 		73.4
(2)
P 		86.6
(3)
P 		68.2
(1.6)
P 		39.4
(-0.7)
P 		10.3
(-3)
P 		76
B 109.1
(3)
P 		79.6
(0.3)
P 		83.9
(0.7)
P 		63.8
(-1.2)
P 		58.4
(-1.7)
P 		43.7
(-3)
P 		65
C 85
(3)
P 		77.1
(2)
P 		46
(-1.8)
P 		50.7
(-1.2)
P 		46.4
(-1.8)
P 		36.3
(-3)
P 		49
avr 80.9
(3) 		76.7
(2.5) 		72.2
(2) 		60.9
(0.6) 		48.1
(-0.9) 		30.1
(-3) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192837_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3070
Sequence Type Exemplar sequence
Representative Public ID Y6D1A.2 NCBI
Target Description Y6D1A.2 /REP_DB=WormBase Gene ID /WP=CE21323 /TR=Q9U1S9 /GB=CAB60579.1 /SUBMIT=HINXTON /CHR=2 /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_064124(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064124 NCBI Caenorhabditis elegans Y6D1A.2 (Y6D1A.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000024145 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11815896:11819652:-1 11/11 None
Y6D1A.2 ENSEMBL cdna:known chromosome:CEL140:II:11817459:11819753:-1 gene:Y6D1A.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000024142 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11817455-11819649(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl Y6D1A.2
Entrez Gene 174817 Entrez gene
SwissProt Q9U1S9 EMBL-EBI
WormBase CE21323 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60579 Hypothetical protein Y6D1A.2 [Caenorhabditis elegans] ref|NP_496525.1| Y6D1A.2 [Caenorhabditis elegans] 1.0E-153
blast CAB60579 Hypothetical protein Y6D1A.2 [Caenorhabditis elegans] ref|NP_496525.1| Y6D1A.2 [Caenorhabditis elegans] 1.0E-139
blast CAA90398 Hypothetical protein F43G6.5 [Caenorhabditis elegans] emb|CAB60582.1| Hypothetical protein F43G6.5 [Caenorhabditis elegans] ref|NP_496524.1| F43G6.5 [Caenorhabditis elegans] 1.0E-105
blast CAA87419 Hypothetical protein T15H9.6 [Caenorhabditis elegans] ref|NP_496067.1| T15H9.6 [Caenorhabditis elegans] 9.0E-70
blast CAE73383 Hypothetical protein CBG20823 [Caenorhabditis briggsae] 6.0E-23
blast CAE73399 Hypothetical protein CBG20840 [Caenorhabditis briggsae] 4.0E-20
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.4E-6
Pfam IPR007012 EMBL-EBI Poly(A) polymerase, central region 8.8E-9
Pfam IPR002934 EMBL-EBI DNA polymerase, beta-like region 2.1E-9
Sequence
Target Sequence 
>C. ELEGANS:192837_S_AT
gaatccgatggacaaccgaaaccttggaggatgtgtgagatttgtagtcgggagtatgag
gatactaaggagcgtgtgccaagggttcttgactgcgggcacacaatttgccacgaatgc
atcacgagaatccataagccaacggaaccattcaaatgtccttttgatagaaaaatcatt
gagatggacggccggaatgtggagagctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCCGATGGACAACCGAAACCTT 109 329 526 Antisense
GGACAACCGAAACCTTGGAGGATGT 84 527 535 Antisense
GTGTGAGATTTGTAGTCGGGAGTAT 46 489 558 Antisense
AAGGAGCGTGTGCCAAGGGTTCTTG 676 159 592 Antisense
GTGCCAAGGGTTCTTGACTGCGGGC 619 477 601 Antisense
GACTGCGGGCACACAATTTGCCACG 135 369 616 Antisense
GCCACGAATGCATCACGAGAATCCA 423 279 635 Antisense
GAGAATCCATAAGCCAACGGAACCA 198 389 651 Antisense
ACGGAACCATTCAAATGTCCTTTTG 377 95 667 Antisense
AATCATTGAGATGGACGGCCGGAAT 128 171 699 Antisense
TGGACGGCCGGAATGTGGAGAGCTT 489 547 710 Antisense
Sequence Source Affymetrix Proprietary Database