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[192815_s_at]

Description C55A6.1 /REP_DB=WormBase Gene ID /WP=CE08998 /TR=O17719 /GB=CAB02861.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_highest_10_10 > 08      6grp_high1_10_10 > 80      4grp_highest_8_8 > 01      4grp_high_8_8 > 54      6grp_highest_nonorm > 44      6grp_total > 82      4grp_total > 50      6grp_high1_sub > 02_03_04_05      6grp_rule_based > S4      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3376
1 2 3 4 range
A 856.1
(-2)
P 		3618.7
(3)
P 		2937
(1.8)
P 		298.1
(-3)
P 		3321
B 967.2
(-1.3)
P 		2872.4
(3)
P 		2825
(2.9)
P 		242.9
(-3)
P 		2630
C 874.6
(-1.7)
P 		3107.6
(2.9)
P 		3164.5
(3)
P 		245.1
(-3)
P 		2919
avr 899.3
(-1.7) 		3199.6
(3) 		2975.5
(2.5) 		262
(-3) 		2938

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1565
1 2 3 4 5 6 range
A 917.6
(-1.9)
P 		1683.5
(1.1)
P 		1976.9
(2.2)
P 		2176.8
(3)
P 		2135.2
(2.8)
P 		646
(-3)
P 		1531
B 1038
(-2.2)
P 		2020.6
(2.2)
P 		2210.8
(3)
P 		2101.7
(2.5)
P 		2027.9
(2.2)
P 		844.8
(-3)
P 		1366
C 853.7
(-2.6)
P 		2069.6
(3)
P 		1714.6
(1.4)
P 		2055.1
(2.9)
P 		1963.2
(2.5)
P 		765.1
(-3)
P 		1305
avr 936.4
(-2.2) 		1924.6
(2.2) 		1967.4
(2.4) 		2111.2
(3) 		2042.1
(2.7) 		752
(-3) 		1359
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1062
1 2 3 4 range
A 311.7
(-0.8)
P 		785.5
(3)
P 		767.8
(2.9)
P 		43.6
(-3)
P 		742
B 308.4
(-0.7)
P 		709.4
(3)
P 		654.6
(2.5)
P 		51.8
(-3)
P 		658
C 289.5
(-1.6)
P 		893.5
(1.8)
P 		1102.9
(3)
P 		41.3
(-3)
P 		1062
avr 303.2
(-1.1) 		796.1
(2.7) 		841.8
(3) 		45.6
(-3) 		796

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 667
1 2 3 4 5 6 range
A 169.2
(-2.9)
P 		598.7
(2.4)
P 		430.5
(0.4)
P 		552.1
(1.9)
P 		644.3
(3)
P 		157.3
(-3)
P 		487
B 361.2
(-2.5)
P 		672.6
(1.2)
P 		536.9
(-0.4)
P 		556.7
(-0.2)
P 		823.9
(3)
P 		315
(-3)
P 		509
C 316.4
(-2)
P 		631.5
(2.9)
P 		436.4
(-0.1)
P 		413.3
(-0.5)
P 		635.3
(3)
P 		256.1
(-3)
P 		379
avr 282.3
(-2.5) 		634.3
(2.1) 		467.9
(-0.1) 		507.4
(0.5) 		701.2
(3) 		242.8
(-3) 		458
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192815_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13247
Sequence Type Exemplar sequence
Representative Public ID C55A6.1 NCBI
Target Description C55A6.1 /REP_DB=WormBase Gene ID /WP=CE08998 /TR=O17719 /GB=CAB02861.1 /SUBMIT=HINXTON /CHR=5 /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_001028571(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028571 NCBI Caenorhabditis elegans C55A6.12 (C55A6.12) mRNA, complete cds. 11/11 None
SNAP00000029767 ENSEMBL cdna:SNAP chromosome:CEL140:V:11504033:11507302:-1 11/11 None
GENEFINDER00000029781 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11504033:11507302:-1 11/11 None
C55A6.12 ENSEMBL cdna:known chromosome:CEL140:V:11504033:11505714:-1 gene:C55A6.12 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
chrV:11504032-11507281(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C55A6.12
Entrez Gene 3565529 Entrez gene
SwissProt Q5FC47 EMBL-EBI
WormBase CE37818 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAI46562 Hypothetical protein C55A6.12 [Caenorhabditis elegans] ref|NP_001023742.1| C55A6.12 [Caenorhabditis elegans] 1.0E-126
blast CAB02861 Hypothetical protein C55A6.1 [Caenorhabditis elegans] ref|NP_505917.2| C55A6.1 [Caenorhabditis elegans] 1.0E-120
blast CAB02861 Hypothetical protein C55A6.1 [Caenorhabditis elegans] ref|NP_505917.2| C55A6.1 [Caenorhabditis elegans] 1.0E-111
blast CAI46562 Hypothetical protein C55A6.12 [Caenorhabditis elegans] ref|NP_001023742.1| C55A6.12 [Caenorhabditis elegans] 5.0E-99
blast CAE75263 Hypothetical protein CBG23226 [Caenorhabditis briggsae] 6.0E-99
blast CAE75263 Hypothetical protein CBG23226 [Caenorhabditis briggsae] 7.0E-99
blast CAE75263 Hypothetical protein CBG23226 [Caenorhabditis briggsae] 6.0E-97
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 4.4E-8
Pfam IPR004170 EMBL-EBI WWE domain 6.0E-32
Pfam IPR004170 EMBL-EBI WWE domain 1.2E-33
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000029767 1 226-248
GENEFINDER00000029781 2 192-214,241-263
Sequence
Target Sequence 
>C. ELEGANS:192815_S_AT
gggacttgagacccatcgatcgattcattggattatggtccttgacgggatcaaatggtc
gtcagagagacttgccacctccatctcaaattgattatgcaattaacccaatccctaaat
ttggagctagagctgtcaatataacacacacctatttcgaccgcaacagtgttgttcgtc
acgattatggtttcatgccagttaaaaatgcaactagaagagatccacgtgtccatgtcg
catacttgactacatcatcacaaggatggtcaatgatggagcaagggcaggttaaggaag
gaaaaatgacattccatctaaaacaattcatgagaagaagctttgatgttggaaataata
ataacctggagattagagagtttgagagacaattggaacttccagactataacacaatgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGACTTGAGACCCATCGATCGATT 221 493 860 Antisense
GGATTATGGTCCTTGACGGGATCAA 22 509 889 Antisense
TGGTCGTCAGAGAGACTTGCCACCT 56 553 915 Antisense
TGCCACCTCCATCTCAAATTGATTA 393 587 932 Antisense
ATTATGCAATTAACCCAATCCCTAA 362 13 953 Antisense
CACACCTATTTCGACCGCAACAGTG 407 195 1006 Antisense
GACCGCAACAGTGTTGTTCGTCACG 175 383 1018 Antisense
GTTCGTCACGATTATGGTTTCATGC 173 443 1033 Antisense
TAGAAGAGATCCACGTGTCCATGTC 124 653 1074 Antisense
GTGTCCATGTCGCATACTTGACTAC 618 487 1088 Antisense
GAACTTCCAGACTATAACACAATGC 597 349 1255 Antisense
Sequence Source Affymetrix Proprietary Database