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[192839_s_at] Zinc finger, C3HC4 type (RING finger)

Description F47G9.4 /REP_DB=WormBase Gene ID /WP=CE05886 /TR=Q20548 /GB=CAA98481.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_highest_10_10 > 54      6grp_high1_10_10 > 45      4grp_high_8_8 > 09      6grp_highest_nonorm > 90      6grp_total > 30      4grp_total > 23      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 143.4
(3)
P 		72.3
(-3)
P 		75.6
(-2.7)
P 		111.5
(0.3)
A 		71
B 134.3
(3)
P 		58.2
(-3)
A 		83.6
(-1)
P 		108.9
(1)
P 		76
C 129.9
(3)
P 		62
(-1.9)
A 		46
(-3)
P 		118.6
(2.2)
P 		84
avr 135.9
(3) 		64.2
(-3) 		68.4
(-2.6) 		113
(1.1) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 134
1 2 3 4 5 6 range
A 212
(3)
P 		198.8
(2)
P 		137.2
(-2.6)
P 		170.8
(-0.1)
P 		139.5
(-2.4)
P 		131.7
(-3)
P 		80
B 98.7
(-3)
P 		133.7
(1.2)
P 		129
(0.7)
P 		148.4
(3)
P 		125.9
(0.3)
P 		137.6
(1.7)
P 		50
C 137
(0)
P 		180.6
(2.3)
P 		194.9
(3)
P 		159.3
(1.2)
P 		78
(-3)
P 		162.5
(1.3)
P 		117
avr 149.2
(0.7) 		171
(3) 		153.7
(1.2) 		159.5
(1.8) 		114.5
(-3) 		143.9
(0.1) 		57
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 52.2
(3)
P 		15.7
(-3)
P 		19.8
(-2.3)
P 		16.3
(-2.9)
A 		37
B 42.8
(3)
P 		14.4
(-3)
A 		19.4
(-1.9)
P 		23.2
(-1.1)
P 		28
C 43
(3)
P 		17.8
(-2.6)
A 		16
(-3)
P 		20
(-2.1)
P 		27
avr 46
(3) 		16
(-3) 		18.4
(-2.5) 		19.8
(-2.2) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 39.1
(-1.6)
P 		70.7
(3)
P 		29.9
(-3)
P 		43.3
(-1)
P 		42.1
(-1.2)
P 		32.1
(-2.7)
P 		41
B 34.3
(-2.1)
P 		44.5
(1)
P 		31.3
(-3)
P 		39.3
(-0.6)
P 		51.2
(3)
P 		51.3
(3)
P 		20
C 50.8
(2.1)
P 		55.1
(3)
P 		49.6
(1.9)
P 		32
(-1.7)
P 		25.3
(-3)
P 		54.4
(2.9)
P 		30
avr 41.4
(-1.6) 		56.8
(3) 		36.9
(-3) 		38.2
(-2.6) 		39.5
(-2.2) 		45.9
(-0.3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192839_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14045
Sequence Type Exemplar sequence
Representative Public ID F47G9.4 NCBI
Target Description F47G9.4 /REP_DB=WormBase Gene ID /WP=CE05886 /TR=Q20548 /GB=CAA98481.1 /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_073475(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073475 NCBI Caenorhabditis elegans F47G9.4 (F47G9.4) mRNA, complete cds. 11/11 None
SNAP00000034547 ENSEMBL cdna:SNAP chromosome:CEL140:V:11319911:11321921:-1 11/11 None
GENEFINDER00000034558 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11317672:11324299:-1 11/11 None
F47G9.4 ENSEMBL cdna:known chromosome:CEL140:V:11319815:11324346:-1 gene:F47G9.4 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
chrV:11319910-11324299(-) 98.06 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl F47G9.4
Entrez Gene 179566 Entrez gene
SwissProt Q20548 EMBL-EBI
WormBase CE05886 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1605626_AT similar to F47G9.4 cfa
CANINE_2:CFAAFFX.29917.1.S1_AT similar to F47G9.4 cfa
CANINE_2:CFAAFFX.29919.1.S1_AT similar to F47G9.4 cfa
CHICKEN:GGA.19937.1.S1_S_AT similar to hypothetical protein FLJ32096 gga
CHICKEN:GGAAFFX.446.1.S1_AT similar to hypothetical protein FLJ32096 gga
HG-U133_PLUS_2:242882_AT FLJ46380 protein hs
HG-U133B:242882_AT FLJ46380 protein hs
U133_X3P:HS.193898.0.A1_3P_AT FLJ46380 protein hs
HG-U95E:68975_AT FLJ46380 protein hs
MOE430A:1436277_AT RIKEN cDNA 330010C22 gene mm
MOUSE430A_2:1436277_AT RIKEN cDNA 330010C22 gene mm
MOUSE430_2:1436277_AT RIKEN cDNA 330010C22 gene mm
MOE430B:1444404_AT RIKEN cDNA 330010C22 gene mm
MOUSE430_2:1444404_AT RIKEN cDNA 330010C22 gene mm
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA98481 Hypothetical protein F47G9.4 [Caenorhabditis elegans] ref|NP_505876.1| F47G9.4 [Caenorhabditis elegans] 0.0
blast CAE75221 Hypothetical protein CBG23170 [Caenorhabditis briggsae] 0.0
blast CAA98523 Hypothetical protein F47G9.3 [Caenorhabditis elegans] emb|CAA98485.1| Hypothetical protein F47G9.3 [Caenorhabditis elegans] ref|NP_505875.1| F47G9.3 [Caenorhabditis elegans] 0.0
blast BAE20631.1 unnamed protein product [Mus musculus] 2.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 6.1E-11
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.2E-5
Pfam IPR001888 EMBL-EBI Transposase, type 1 2.8E-41
Pfam IPR003014 EMBL-EBI N/apple PAN 1.2E-19
Pfam IPR003014 EMBL-EBI N/apple PAN 3.2E-8
Sequence
Target Sequence 
>C. ELEGANS:192839_S_AT
gacgccgaggagtttctcgacgaaatcttcgagctcagtggagaacaatatgatgaagta
gttgatgggacactaaccgaggaagatcgatgcagttcagcacttttattatctatggaa
atttcaagtgattccatttcacctcttccatcccttgaacagcttcttggaagaatccca
ctggcatctcgagttacctctaatattggattcagtcgtggagcgatgttgcaaagtttg
aacgatgtattcgcattacaaaaacctccaacacccgagaatattagtgtgtccgaagag
cgtaacgtcttggcctcggcagtcaggaatgcggaaaaaagaaaaagtggagcaggtttg
ccgacgaattcggataaggacgaagtgattgaaaaggaagaaattgagaaagaaacggaa
aaagaaaagaagaaagtaatcagaagaagagtcaaaaaagtatctgaaccatcagaagaa
gaggtcacaacattcacatttaatgcaccgccagattgtccatttgtccctcaggagata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGCCGAGGAGTTTCTCGACGAAA 355 381 1810 Antisense
TCAAGTGATTCCATTTCACCTCTTC 299 633 1933 Antisense
TTCCATCCCTTGAACAGCTTCTTGG 382 701 1955 Antisense
TGGAAGAATCCCACTGGCATCTCGA 109 547 1977 Antisense
GGCATCTCGAGTTACCTCTAATATT 348 537 1992 Antisense
TCGCATTACAAAAACCTCCAACACC 452 599 2060 Antisense
CGAAGAGCGTAACGTCTTGGCCTCG 7 251 2103 Antisense
TGGCCTCGGCAGTCAGGAATGCGGA 545 543 2120 Antisense
GTGGAGCAGGTTTGCCGACGAATTC 103 489 2156 Antisense
TAATGCACCGCCAGATTGTCCATTT 16 637 2310 Antisense
TTGTCCATTTGTCCCTCAGGAGATA 30 703 2325 Antisense
Sequence Source Affymetrix Proprietary Database