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[173811_at] Zinc finger, C2H2 type

Description CEK002F5R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F53H10.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33370 /WB_GENE_ID=F53H10.2 /WP=CE11040 /CHR=5 /FEA=Genomic Cluster /DEF=Zinc finger, C2H2 type; C.elegans cDNA clone yk2f5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 14      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 12      6grp_total > 03      4grp_total > 39      6grp_highest_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1969
1 2 3 4 range
A 3476.5
(3)
P 		2153.3
(-1.8)
P 		1809.2
(-3)
P 		2319.5
(-1.2)
P 		1667
B 3709.7
(3)
P 		2136.1
(-1.8)
P 		1740.6
(-3)
P 		2277.1
(-1.4)
P 		1969
C 3052
(3)
P 		1746.1
(-3)
P 		1787.3
(-2.8)
P 		2177.5
(-1)
P 		1306
avr 3412.7
(3) 		2011.8
(-2.1) 		1779
(-3) 		2258
(-1.2) 		1634

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1700
1 2 3 4 5 6 range
A 3072.8
(3)
P 		2459
(0.4)
P 		2048.5
(-1.3)
P 		1828.1
(-2.3)
P 		2459.8
(0.4)
P 		1655.7
(-3)
P 		1417
B 2714.7
(3)
P 		2549.1
(2.2)
P 		1491.5
(-3)
P 		2318.8
(1.1)
P 		2176.8
(0.4)
P 		1835.4
(-1.3)
P 		1223
C 2357.2
(2.1)
P 		2534.5
(3)
P 		2206.8
(1.3)
P 		2147.8
(1)
P 		2096.2
(0.7)
P 		1373.1
(-3)
P 		1161
avr 2714.9
(3) 		2514.2
(1.9) 		1915.6
(-1.4) 		2098.2
(-0.4) 		2244.3
(0.4) 		1621.4
(-3) 		1094
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 926
1 2 3 4 range
A 1265.8
(3)
P 		467.4
(-2.2)
P 		473
(-2.1)
P 		339.5
(-3)
P 		926
B 1183
(3)
P 		527.6
(-2)
P 		403.3
(-3)
P 		485.2
(-2.4)
P 		780
C 1010.3
(3)
P 		502
(-1.7)
P 		622.9
(-0.6)
P 		367.2
(-3)
P 		643
avr 1153
(3) 		499
(-2.2) 		499.7
(-2.2) 		397.3
(-3) 		756

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 582
1 2 3 4 5 6 range
A 566.5
(-0.9)
P 		874.5
(3)
P 		446.1
(-2.5)
P 		463.7
(-2.2)
P 		742.3
(1.3)
P 		403.1
(-3)
P 		471
B 944.6
(3)
P 		848.5
(2)
P 		362.2
(-3)
P 		614.2
(-0.4)
P 		884.4
(2.4)
P 		684.4
(0.3)
P 		582
C 873.7
(3)
P 		773.4
(1.6)
P 		561.7
(-1.2)
P 		431.9
(-3)
P 		678.3
(0.3)
P 		459.6
(-2.6)
P 		442
avr 794.9
(2.4) 		832.1
(3) 		456.7
(-3) 		503.3
(-2.3) 		768.3
(2) 		515.7
(-2.1) 		375
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173811_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25346
Sequence Type Exemplar sequence
Representative Public ID CEK002F5R NCBI
Target Description CEK002F5R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F53H10.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33370 /WB_GENE_ID=F53H10.2 /WP=CE11040 /CHR=5 /FEA=Genomic Cluster /DEF=Zinc finger, C2H2 type; C.elegans cDNA clone yk2f5 : 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_073368(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073368 NCBI Caenorhabditis elegans F53H10.2 (F53H10.2) mRNA, complete cds. 11/11 None
F53H10.2 ENSEMBL cdna:known chromosome:CEL140:V:10855113:10868379:-1 gene:F53H10.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000041193 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:10855126-10868407(-) 99.34 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type
Ensembl F53H10.2
Entrez Gene 179505 Entrez gene
SwissProt Q20733 EMBL-EBI
WormBase CE32433 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
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 CAB01216 Hypothetical protein F53H10.2 [Caenorhabditis elegans] ref|NP_505769.2| F53H10.2 [Caenorhabditis elegans] 0.0
blast CAE64904 Hypothetical protein CBG09721 [Caenorhabditis briggsae] 0.0
blast XP_392354 PREDICTED: similar to CG16779-PA [Apis mellifera] 1.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR001005 EMBL-EBI Myb DNA-binding domain 7.1E-10
Pfam IPR000949 EMBL-EBI ELM2 domain 5.5E-18
Sequence
Target Sequence 
>C. ELEGANS:173811_AT
gaattttctccatattattactatcacaaaccttttttccatgtttttgaagttcaatct
cttccgctttccgggtctttttccatctagtttttgcccttttcttcggttgcataacaa
tttatagttttcctcgctccttcccccgtttagttttgttcagtagttgatttatcccag
tgtcccgttgtccgtttttccatgtctctttttcagttcctgtgtgtattttccgaatgt
gaactgtgcctgttgttaggataactattgaaccattacgcttcatacatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTTTCTCCATATTATTACTATC 510 325 2883 Antisense
TACTATCACAAACCTTTTTTCCATG 473 643 2901 Antisense
TTGAAGTTCAATCTCTTCCGCTTTC 119 705 2929 Antisense
TGCCCTTTTCTTCGGTTGCATAACA 153 585 2977 Antisense
ACAATTTATAGTTTTCCTCGCTCCT 300 115 2999 Antisense
AGTAGTTGATTTATCCCAGTGTCCC 170 61 3044 Antisense
TGTCTCTTTTTCAGTTCCTGTGTGT 194 559 3085 Antisense
GTTCCTGTGTGTATTTTCCGAATGT 512 441 3098 Antisense
TTCCGAATGTGAACTGTGCCTGTTG 460 697 3113 Antisense
GAACTGTGCCTGTTGTTAGGATAAC 412 349 3123 Antisense
ATTGAACCATTACGCTTCATACATG 613 5 3149 Antisense
Sequence Source Affymetrix Proprietary Database