[Home] | [Total List]

[189896_at] zinc finger protein

Description F54C4.3 /REP_DB=WormBase Gene ID /WP=CE19892 /TR=Q9TZ92 /GB=AAC68776.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 33      4grp_total > 43      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 111
1 2 3 4 range
A 120.8
(-0.2)
A 		179.6
(3)
A 		151.8
(1.5)
A 		68.7
(-3)
A 		111
B 93.9
(-1.5)
A 		166.9
(3)
A 		69.3
(-3)
A 		81.7
(-2.2)
A 		98
C 125.1
(-0.5)
A 		170.9
(3)
A 		93.2
(-3)
A 		105.4
(-2.1)
A 		78
avr 113.3
(-1.1) 		172.5
(3) 		104.8
(-1.7) 		85.3
(-3) 		87

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 118.7
(3)
A 		60.2
(-0.3)
A 		90.7
(1.4)
A 		31.1
(-2)
A 		53.1
(-0.7)
A 		12.8
(-3)
A 		106
B 124.4
(3)
A 		103.3
(1.6)
A 		74.6
(-0.3)
A 		35.2
(-3)
A 		55.8
(-1.6)
A 		62.3
(-1.2)
A 		89
C 105.9
(0.6)
A 		68.5
(-1.7)
A 		145
(3)
A 		59.5
(-2.3)
A 		74.8
(-1.3)
A 		47.9
(-3)
A 		97
avr 116.3
(3) 		77.3
(-0.1) 		103.4
(2) 		41.9
(-2.9) 		61.2
(-1.4) 		41
(-3) 		75
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 44
(3)
A 		39
(2.1)
A 		39.7
(2.2)
A 		10.1
(-3)
A 		34
B 29.9
(0.3)
A 		41.2
(3)
A 		16.1
(-3)
A 		17.4
(-2.7)
A 		25
C 41.4
(1.5)
A 		49.1
(3)
A 		32.5
(-0.2)
A 		17.8
(-3)
A 		31
avr 38.4
(2) 		43.1
(3) 		29.4
(0.1) 		15.1
(-3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 21.9
(3)
A 		21.4
(2.8)
A 		19.8
(2.3)
A 		7.9
(-1.5)
A 		16
(1.1)
A 		3.1
(-3)
A 		19
B 43.3
(3)
A 		34.4
(1.4)
A 		18.1
(-1.4)
A 		9.3
(-3)
A 		22.7
(-0.6)
A 		23.2
(-0.5)
A 		34
C 39.3
(3)
A 		20.9
(-1)
A 		36.9
(2.5)
A 		12
(-3)
A 		24.2
(-0.3)
A 		16
(-2.1)
A 		27
avr 34.8
(3) 		25.6
(0.8) 		24.9
(0.6) 		9.7
(-3) 		21
(-0.3) 		14.1
(-1.9) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189896_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8265
Sequence Type Exemplar sequence
Representative Public ID F54C4.3 NCBI
Target Description F54C4.3 /REP_DB=WormBase Gene ID /WP=CE19892 /TR=Q9TZ92 /GB=AAC68776.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=zinc finger protein
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_064735(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064735 NCBI Caenorhabditis elegans F54C4.3 (F54C4.3) mRNA, complete cds. 11/11 None
SNAP00000020628 ENSEMBL cdna:SNAP chromosome:CEL140:III:69225:86376:-1 11/11 None
GENEFINDER00000020635 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:70527:86376:-1 11/11 None
F54C4.3 ENSEMBL cdna:known chromosome:CEL140:III:70527:86376:-1 gene:F54C4.3 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:70526-86376(-) 99.59 99.94
Public Domain and Genome References
Gene Title zinc finger protein
Ensembl F54C4.3
Entrez Gene 175173 Entrez gene
SwissProt Q9TZ92 EMBL-EBI
WormBase CE19892 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
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
3677 DNA 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 AAC68776 Hypothetical protein F54C4.3 [Caenorhabditis elegans] ref|NP_497136.1| F54C4.3 [Caenorhabditis elegans] 0.0
blast CAE57493 Hypothetical protein CBG00463 [Caenorhabditis briggsae] 0.0
blast CAE57493 Hypothetical protein CBG00463 [Caenorhabditis briggsae] 1.0E-166
blast AAC68775 Spt transcription factor family protein 4 [Caenorhabditis elegans] ref|NP_497135.1| SPT transcription factor family member (spt-4) [Caenorhabditis elegans] 1.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR009287 EMBL-EBI Transcription initiation Spt4 1.5E-66
Sequence
Target Sequence 
>C. ELEGANS:189896_AT
tcagaagctcgatccgatgcctgtaataagccatgagctgccgcggagcccgtcgcgaag
aattcgaattcctacgagaaagatacaagaattggaccaagaatcagtgctcccaccacc
accgcggcgtgaaaccacccgctcagtagttcggagccgtaagcggcgagaccgattcgc
cgagctccgagactgtccgccagaggtgatgcgggccatcgccgcccacgcaatcgccta
cgatggccggaaaaaagagcagcggccgattgtctatgtgcctaggcaggcgaaaatggc
gatgagctcgacgccgactgctccgacgccgcccgaggattacgatgggcctcctggcca
tcaaatgacgacgattttacagcatcagagacaggcgaaacaggaggaagaggaagaaca
gtggagtggagagtatgatgatgagctccacgagcaagagcacgatcctgccacgtcatc
accgccaccgtcacttctaccacacacgggtccatcggaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGAAGCTCGATCCGATGCCTGTA 656 623 2823 Antisense
GTAATAAGCCATGAGCTGCCGCGGA 666 459 2845 Antisense
TGGACCAAGAATCAGTGCTCCCACC 422 549 2915 Antisense
CACCCGCTCAGTAGTTCGGAGCCGT 307 201 2958 Antisense
GCGGCGAGACCGATTCGCCGAGCTC 444 293 2985 Antisense
GAGACTGTCCGCCAGAGGTGATGCG 8 395 3011 Antisense
GCAGCGGCCGATTGTCTATGTGCCT 548 313 3081 Antisense
AATGGCGATGAGCTCGACGCCGACT 490 159 3117 Antisense
CCTCCTGGCCATCAAATGACGACGA 444 267 3172 Antisense
CACGAGCAAGAGCACGATCCTGCCA 40 201 3271 Antisense
TACCACACACGGGTCCATCGGAAAT 393 651 3320 Antisense
Sequence Source Affymetrix Proprietary Database