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[190575_at] Zinc finger protein

Description F56D1.1 /REP_DB=WormBase Gene ID /WP=CE01969 /TR=SW:Q10127 /GB=AAA81101.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger protein
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 79      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_highest_nonorm > 94      6grp_total > 78      4grp_total > 22      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 397
1 2 3 4 range
A 690.6
(3)
P 		465.3
(-0.9)
P 		341.7
(-3)
P 		685.9
(2.9)
P 		349
B 594.4
(1)
P 		396.8
(-2)
P 		331.3
(-3)
P 		727.9
(3)
P 		397
C 661.1
(2.7)
P 		382.8
(-3)
P 		407.6
(-2.5)
P 		676.7
(3)
P 		294
avr 648.7
(2.1) 		415
(-2) 		360.2
(-3) 		696.8
(3) 		337

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 513
1 2 3 4 5 6 range
A 482.8
(-2.8)
P 		484.9
(-2.8)
P 		490.4
(-2.7)
P 		470.5
(-3)
P 		708.4
(0.1)
P 		931.4
(3)
P 		461
B 629.6
(-1)
P 		512.5
(-2.4)
P 		466.7
(-3)
P 		487.3
(-2.7)
P 		766.5
(0.7)
P 		948.7
(3)
P 		482
C 564.8
(-1.3)
P 		515
(-1.9)
P 		462.7
(-2.6)
P 		435.8
(-3)
P 		662.7
(0)
P 		882.6
(3)
P 		447
avr 559.1
(-1.8) 		504.1
(-2.5) 		473.3
(-2.9) 		464.5
(-3) 		712.5
(0.3) 		920.9
(3) 		456
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 175
1 2 3 4 range
A 251.5
(3)
P 		101
(-2.6)
P 		89.3
(-3)
P 		100.4
(-2.6)
P 		162
B 189.5
(3)
P 		98
(-1.9)
P 		76.8
(-3)
P 		155.1
(1.2)
P 		113
C 218.8
(3)
P 		110.1
(-3)
P 		142.1
(-1.2)
P 		114.1
(-2.8)
P 		109
avr 219.9
(3) 		103
(-3) 		102.7
(-3) 		123.2
(-2) 		117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 266
1 2 3 4 5 6 range
A 89
(-3)
P 		172.5
(0.6)
P 		106.8
(-2.2)
P 		119.3
(-1.7)
P 		213.8
(2.4)
P 		226.8
(3)
P 		138
B 219.1
(-0.4)
P 		170.6
(-1.6)
P 		113.3
(-3)
P 		129.1
(-2.6)
P 		311.4
(1.9)
P 		353.8
(3)
P 		241
C 209.4
(0.5)
P 		157.2
(-1)
P 		117.8
(-2.1)
P 		87.6
(-3)
P 		214.4
(0.7)
P 		295.5
(3)
P 		208
avr 172.5
(-1) 		166.8
(-1.2) 		112.6
(-3) 		112
(-3) 		246.5
(1.5) 		292
(3) 		180
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190575_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5529
Sequence Type Exemplar sequence
Representative Public ID F56D1.1 NCBI
Target Description F56D1.1 /REP_DB=WormBase Gene ID /WP=CE01969 /TR=SW:Q10127 /GB=AAA81101.1 /SUBMIT=ST.LOUIS /CHR=2 /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_062641(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062641 NCBI Caenorhabditis elegans F56D1.1 (F56D1.1) mRNA, complete cds. 11/11 None
SNAP00000013102 ENSEMBL cdna:SNAP chromosome:CEL140:II:5478590:5480267:1 11/11 None
GENEFINDER00000013105 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5478590:5480267:1 11/11 None
F56D1.1 ENSEMBL cdna:known chromosome:CEL140:II:5478548:5480267:1 gene:F56D1.1 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
chrII:5478648-5480265(+) 95.34 100.0
Public Domain and Genome References
Gene Title Zinc finger protein
Ensembl F56D1.1
Entrez Gene 186375 Entrez gene
SwissProt Q10127 EMBL-EBI
WormBase CE37380 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 AAA81101 Hypothetical protein F56D1.1 [Caenorhabditis elegans] ref|NP_495042.2| F56D1.1 [Caenorhabditis elegans] sp|Q10127|YSO1_CAEEL Hypothetical zinc finger protein F56D1.1 in chromosome II 0.0
blast CAE59114 Hypothetical protein CBG02409 [Caenorhabditis briggsae] 3.0E-95
blast XP_683662 PREDICTED: similar to zinc finger protein 585A [Danio rerio] 2.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 3.8E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 4.9E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 3.8E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 4.9E-6
Sequence
Target Sequence 
>C. ELEGANS:190575_AT
ctatcgacatgttcatccttgattcaaaatataccatcttcttcacaatcgacaccagca
cttcaaaatgatgaatggaatgatgctaacactgaaaccacactatcaacaatcacagga
acttctagtcaatttgaacgtgattctgtgtctgaagttactaatgatttatcggaaaat
ataaacgatatcgatgaggaaattgaattcgggacaactgaacctccgaataaaataaga
aagcacagtagaagtcgagtacatggagacttcagctgcgaaatatgccttaaaacattt
acattaagagacaatcttcgaaagcatgtcagagtatatcattcggaaaattcgcagaaa
gtagttaaatccacgggaccaaaacaccaagaacagtacaaatgcgatcgaaagtcaaaa
gatggtgatgagactacttgtggaaaaacttttcgaacagaacaggcacttcacgatcac
tttaatgttcatgatggtatcaaaccatattcctgtcatacatgcaatcaaaagtttcac
gcacgagatcgattcgccgttcatctatcaaaatatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTATCGACATGTTCATCCTTGATTC 260 225 691 Antisense
TATACCATCTTCTTCACAATCGACA 129 661 720 Antisense
GATGCTAACACTGAAACCACACTAT 202 413 772 Antisense
TCAACAATCACAGGAACTTCTAGTC 22 631 796 Antisense
GAACGTGATTCTGTGTCTGAAGTTA 125 349 826 Antisense
GAATTCGGGACAACTGAACCTCCGA 696 323 895 Antisense
GAGTACATGGAGACTTCAGCTGCGA 287 399 947 Antisense
AACAGGCACTTCACGATCACTTTAA 371 137 1151 Antisense
GGTATCAAACCATATTCCTGTCATA 431 505 1186 Antisense
TCACGCACGAGATCGATTCGCCGTT 483 625 1227 Antisense
TCGCCGTTCATCTATCAAAATATCA 622 599 1244 Antisense
Sequence Source Affymetrix Proprietary Database