[Home] | [Total List]

[174774_s_at] zinc-finger protein

Description CEK008FYR_rc /REP_DB=TREMBL Accession /GB=D34559 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk8f11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 12      4grp_high_8_8 > 42      6grp_highest_nonorm > 70      6grp_total > 23      4grp_total > 45      6grp_highest_sub > 01_02_03      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 330
1 2 3 4 range
A 322.7
(3)
P 		242.3
(-0.1)
P 		249.1
(0.1)
P 		169.1
(-3)
A 		154
B 343
(3)
P 		313.7
(1.8)
P 		222.6
(-1.8)
P 		191.6
(-3)
P 		151
C 498.8
(3)
P 		352.9
(-0.1)
P 		240
(-2.5)
P 		214.2
(-3)
P 		285
avr 388.2
(3) 		303
(0.4) 		237.2
(-1.6) 		191.6
(-3) 		197

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 247
1 2 3 4 5 6 range
A 344.6
(1.5)
P 		376.9
(3)
P 		283.3
(-1.4)
P 		297.9
(-0.8)
P 		250.6
(-3)
P 		262.3
(-2.4)
P 		126
B 333.6
(3)
P 		306.9
(1.5)
P 		333.8
(3)
P 		268.2
(-0.7)
P 		227.5
(-3)
P 		255
(-1.4)
P 		106
C 322.7
(1.5)
P 		306.4
(1.1)
P 		385
(3)
P 		265.6
(0.1)
P 		167.4
(-2.3)
P 		138.3
(-3)
P 		247
avr 333.6
(3) 		330.1
(2.8) 		334
(3) 		277.2
(0.1) 		215.2
(-3) 		218.5
(-2.8) 		119
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 117.5
(3)
P 		52.6
(-1.2)
P 		65.1
(-0.4)
P 		24.7
(-3)
A 		93
B 109.4
(3)
P 		77.5
(0.2)
P 		51.6
(-2.1)
P 		40.8
(-3)
P 		69
C 165.1
(3)
P 		101.5
(0)
P 		83.6
(-0.8)
P 		36.1
(-3)
P 		129
avr 130.7
(3) 		77.2
(-0.3) 		66.8
(-1) 		33.9
(-3) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 63.5
(-2.9)
P 		134.1
(3)
P 		61.7
(-3)
P 		75.6
(-1.8)
P 		75.6
(-1.8)
P 		63.9
(-2.8)
P 		72
B 116.1
(3)
P 		102.2
(1.2)
P 		81
(-1.7)
P 		71
(-3)
P 		92.4
(-0.2)
P 		95.1
(0.2)
P 		45
C 119.6
(3)
P 		93.5
(0.9)
P 		98
(1.2)
P 		53.4
(-2.4)
P 		54.2
(-2.4)
P 		46.3
(-3)
P 		73
avr 99.7
(1.6) 		109.9
(3) 		80.2
(-1.1) 		66.7
(-3) 		74.1
(-2) 		68.4
(-2.8) 		43
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174774_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20137
Sequence Type Exemplar sequence
Representative Public ID CEK008FYR NCBI
Target Description CEK008FYR_rc /REP_DB=TREMBL Accession /GB=D34559 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk8f11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_059749(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059749 NCBI Caenorhabditis elegans F27D4.6 (F27D4.6) mRNA, complete cds. 11/11 None
GENEFINDER00000008685 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7735394:7745987:1 11/11 None
SNAP00000008679 ENSEMBL cdna:SNAP chromosome:CEL140:I:7739317:7745876:1 9/11 None
F27D4.6.1 ENSEMBL cdna:known chromosome:CEL140:I:7739276:7746088:1 gene:F27D4.6 11/11 A 
F27D4.6.2 ENSEMBL cdna:known chromosome:CEL140:I:7739317:7746100:1 gene:F27D4.6 11/11 A 
F27D4.6.3 ENSEMBL cdna:known chromosome:CEL140:I:7739317:7746088:1 gene:F27D4.6 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
chrI:7744312-7744805(+) 99.5 99.5
Public Domain and Genome References
Gene Title zinc-finger protein
Ensembl F27D4.6
Entrez Gene 172540 Entrez gene
SwissProt Q93620 EMBL-EBI
WormBase CE32394 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 CAB01971 Hypothetical protein F27D4.6 [Caenorhabditis elegans] ref|NP_492150.2| F27D4.6 [Caenorhabditis elegans] 0.0
blast CAB01970 Hypothetical protein F27D4.5 [Caenorhabditis elegans] ref|NP_492149.1| Temporarily Assigned Gene name family member (tag-173) [Caenorhabditis elegans] 0.0
blast XP_343440 PREDICTED: branched chain keto acid dehydrogenase E1, beta polypeptide [Rattus norvegicus] 1.0E-119
blast CAE57347 Hypothetical protein CBG00288 [Caenorhabditis briggsae] 1.0E-67
blast CAE57347 Hypothetical protein CBG00288 [Caenorhabditis briggsae] 1.0E-40
Protein Domains
Database ID Description E-Value
Pfam IPR005476 EMBL-EBI Transketolase, C terminal 9.7E-54
Pfam IPR005475 EMBL-EBI Transketolase, central region 7.4E-71
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000008685 2 373-395,415-437
Sequence
Target Sequence 
>C. ELEGANS:174774_S_AT
aacacccactccttataataatcctcgttttccgcttctcgatgtccctcgcagccttaa
caataggctttcaaaagaagaatacatgaaacaatataactcgatttgtgaaaaactgaa
atcattgaattctggaacagcaacaaatcagaaagttaactgtttttgctattactgccc
aaattcaattgagtttaaatctatttgggaagtggtacaacacgtattcaacggagttca
tatgaaaaatatcaactacattggaacttctgctgacttcctatattacgaagaactaat
caaacagattactccaccaaaagtacgagctcccgtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACACCCACTCCTTATAATAATCCT 184 135 31 Antisense
TATAATAATCCTCGTTTTCCGCTTC 197 661 44 Antisense
GTCCCTCGCAGCCTTAACAATAGGC 72 475 74 Antisense
TAACTGTTTTTGCTATTACTGCCCA 26 639 187 Antisense
TGCTATTACTGCCCAAATTCAATTG 638 579 197 Antisense
GGAAGTGGTACAACACGTATTCAAC 455 531 238 Antisense
ACACGTATTCAACGGAGTTCATATG 122 109 250 Antisense
ATCAACTACATTGGAACTTCTGCTG 405 27 281 Antisense
ACTTCTGCTGACTTCCTATATTACG 379 103 296 Antisense
AACAGATTACTCCACCAAAAGTACG 462 97 333 Antisense
CCACCAAAAGTACGAGCTCCCGTGC 253 273 344 Antisense
Sequence Source Affymetrix Proprietary Database