[Home] | [Total List]

[192448_at] Zinc finger, C2H2 type (3 domains)

Description F53F8.1 /REP_DB=WormBase Gene ID /WP=CE17855 /TR=O62259 /GB=CAB04459.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (3 domains)
Cluster 6grp_total > 10      4grp_total > 33      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 105
1 2 3 4 range
A 24.6
(-3)
A 		125
(2.7)
P 		129.2
(3)
P 		129.5
(3)
A 		105
B 62
(-2.1)
A 		123.7
(3)
P 		51.9
(-2.9)
A 		51.2
(-3)
A 		73
C 43.5
(-3)
A 		115.4
(2.9)
A 		105.4
(2.1)
P 		116.4
(3)
P 		73
avr 43.4
(-3) 		121.4
(3) 		95.5
(1) 		99
(1.3) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 52
(-0.4)
A 		76.5
(3)
A 		75.3
(2.8)
A 		48.2
(-0.9)
A 		58.8
(0.5)
P 		33.3
(-3)
A 		43
B 43
(-3)
A 		61.8
(0.9)
M 		72.1
(3)
A 		55.8
(-0.4)
A 		58.2
(0.1)
P 		55.5
(-0.4)
A 		29
C 49.8
(-1)
A 		76.4
(2.6)
A 		35.3
(-3)
A 		53.2
(-0.6)
A 		51.1
(-0.9)
A 		79.4
(3)
P 		44
avr 48.3
(-3) 		71.6
(3) 		60.9
(0.2) 		52.4
(-1.9) 		56
(-1) 		56.1
(-1) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 9
(-3)
A 		27.1
(1.4)
P 		33.8
(3)
P 		19
(-0.6)
A 		25
B 19.8
(-0.3)
A 		30.5
(3)
P 		12
(-2.7)
A 		10.9
(-3)
A 		20
C 14.4
(-3)
A 		33.2
(2.1)
A 		36.7
(3)
P 		19.6
(-1.6)
P 		22
avr 14.4
(-3) 		30.3
(3) 		27.5
(1.9) 		16.5
(-2.2) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 9.6
(-2.5)
A 		27.2
(3)
A 		16.4
(-0.4)
A 		12.2
(-1.7)
A 		17.7
(0)
P 		8.1
(-3)
A 		19
B 15
(-2.9)
A 		20.6
(1)
M 		17.5
(-1.2)
A 		14.8
(-3)
A 		23.6
(3)
P 		20.7
(1)
A 		9
C 18.5
(0.2)
A 		23.3
(1.9)
A 		9
(-3)
A 		10.7
(-2.4)
A 		16.5
(-0.4)
A 		26.6
(3)
P 		18
avr 14.4
(-2) 		23.7
(3) 		14.3
(-2.1) 		12.6
(-3) 		19.3
(0.6) 		18.5
(0.2) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192448_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13936
Sequence Type Exemplar sequence
Representative Public ID F53F8.1 NCBI
Target Description F53F8.1 /REP_DB=WormBase Gene ID /WP=CE17855 /TR=O62259 /GB=CAB04459.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (3 domains)
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_075594(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075594 NCBI Caenorhabditis elegans F53F8.1 (F53F8.1) mRNA, complete cds. 11/11 None
GENEFINDER00000039384 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20684959:20686821:1 11/11 None
F53F8.1 ENSEMBL cdna:known chromosome:CEL140:V:20683574:20686821:1 gene:F53F8.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039376 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:20683573-20686821(+) 94.93 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type (3 domains)
Ensembl F53F8.1
Entrez Gene 186179 Entrez gene
SwissProt O62259 EMBL-EBI
WormBase CE17855 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04459 Hypothetical protein F53F8.1 [Caenorhabditis elegans] ref|NP_507995.1| F53F8.1 [Caenorhabditis elegans] 1.0E-171
blast CAB04459 Hypothetical protein F53F8.1 [Caenorhabditis elegans] ref|NP_507995.1| F53F8.1 [Caenorhabditis elegans] 1.0E-150
blast CAE61680 Hypothetical protein CBG05624 [Caenorhabditis briggsae] 1.0E-102
blast XP_781216 PREDICTED: similar to Krueppel-like factor 5 (Intestinal-enriched krueppel-like factor) (Colon krueppel-like factor) (Transcription factor BTEB2) (Basic transcription element binding protein 2) (BTE-binding protein 2) (GC box binding protein 2)... [Strongylocentrotus purpuratus] 6.0E-39
blast XP_781216 PREDICTED: similar to Krueppel-like factor 5 (Intestinal-enriched krueppel-like factor) (Colon krueppel-like factor) (Transcription factor BTEB2) (Basic transcription element binding protein 2) (BTE-binding protein 2) (GC box binding protein 2)... [Strongylocentrotus purpuratus] 7.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.6E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.3E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.1E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.6E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.3E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.1E-5
Sequence
Target Sequence 
>C. ELEGANS:192448_AT
tttcccatgactttccacaacagaataattccgaaactcacctcaatcacatggaacctt
cgatgactccaatggaacatcaaaactcgggaagctcgacaccatatccgtttgaagcca
agttattcgttccatcgcctgcagcgtctgtatccagttactcattttcaagcgatttgt
cgggtaaagacgaggaagatcccaggattcctttaaaagatcgtggaagagtatatcatc
cgcagagcactgaaaaaccaaaaaaggtgccgagtaaacggagggataaggctactttgg
atcgattaagagttcataagtgtttttatcaaggttgcggcaaggtctacacaaaaagtt
cccatctaacagctcatgagcgtgttcatagtggtgaaaagccgtatccatgtgaatggc
ctggatgctcttggcgatttgcacgatccgacgagctaacccgccattaccgtaagcaca
ctggagccaaaccgtttgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCCCATGACTTTCCACAACAGAA 166 671 455 Antisense
ACTCACCTCAATCACATGGAACCTT 240 99 490 Antisense
GGAACCTTCGATGACTCCAATGGAA 324 529 507 Antisense
CTCGACACCATATCCGTTTGAAGCC 311 233 549 Antisense
GAAGCCAAGTTATTCGTTCCATCGC 703 343 568 Antisense
GCAGCGTCTGTATCCAGTTACTCAT 231 315 595 Antisense
GAGTATATCATCCGCAGAGCACTGA 526 399 683 Antisense
AGTTCCCATCTAACAGCTCATGAGC 224 65 811 Antisense
AATGGCCTGGATGCTCTTGGCGATT 149 163 869 Antisense
GATTTGCACGATCCGACGAGCTAAC 192 427 890 Antisense
GCACACTGGAGCCAAACCGTTTGCA 503 317 930 Antisense
Sequence Source Affymetrix Proprietary Database