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[190079_at] zinc finger protein

Description F55A8.1 /REP_DB=WormBase Gene ID /WP=CE28339 /TR=O76361 /GB=AAD36952.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 06      4grp_total > 53      6grp_cgc > 11      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 220.1
(3)
M 		196
(2.2)
A 		129.4
(-0)
A 		39.7
(-3)
A 		180
B 211.9
(3)
P 		160.2
(0.5)
A 		132.5
(-0.9)
A 		90
(-3)
A 		122
C 179.9
(2.8)
P 		184.6
(3)
A 		134.3
(1.2)
A 		19.7
(-3)
A 		165
avr 204
(3) 		180.3
(2.1) 		132.1
(0.2) 		49.8
(-3) 		154

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 267
1 2 3 4 5 6 range
A 289.4
(3)
P 		169.4
(-0.9)
A 		108.6
(-3)
A 		107.1
(-3)
A 		108.5
(-3)
A 		121.6
(-2.5)
A 		182
B 266.9
(3)
P 		166.1
(-0.4)
A 		129.6
(-1.6)
A 		123.5
(-1.8)
A 		89.4
(-3)
A 		129.1
(-1.7)
A 		178
C 277.2
(3)
P 		154.8
(0.1)
A 		113.6
(-0.8)
A 		161
(0.3)
A 		114.8
(-0.8)
A 		22.1
(-3)
A 		255
avr 277.8
(3) 		163.4
(-0.7) 		117.3
(-2.2) 		130.5
(-1.7) 		104.2
(-2.6) 		90.9
(-3) 		187
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 77
1 2 3 4 range
A 80.2
(3)
M 		42.5
(-0)
A 		33.8
(-0.7)
A 		5.8
(-3)
A 		74
B 67.6
(3)
P 		39.6
(-0.5)
A 		30.7
(-1.6)
A 		19.2
(-3)
A 		48
C 59.6
(3)
P 		53.1
(2.3)
A 		46.8
(1.6)
A 		3.3
(-3)
A 		56
avr 69.1
(3) 		45.1
(0.6) 		37.1
(-0.2) 		9.4
(-3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 53.3
(1.9)
P 		60.3
(3)
A 		23.7
(-3)
A 		27.2
(-2.4)
A 		32.7
(-1.5)
A 		29.6
(-2)
A 		37
B 92.9
(3)
P 		55.3
(-0.7)
A 		31.5
(-3)
A 		32.7
(-2.9)
A 		36.3
(-2.5)
A 		48.1
(-1.4)
A 		61
C 102.7
(3)
P 		47.2
(-0.5)
A 		28.9
(-1.6)
A 		32.4
(-1.4)
A 		37.1
(-1.1)
A 		7.4
(-3)
A 		95
avr 83
(3) 		54.3
(-0.1) 		28
(-3) 		30.8
(-2.7) 		35.4
(-2.2) 		28.4
(-3) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190079_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10490
Sequence Type Exemplar sequence
Representative Public ID F55A8.1 NCBI
Target Description F55A8.1 /REP_DB=WormBase Gene ID /WP=CE28339 /TR=O76361 /GB=AAD36952.2 /SUBMIT=ST.LOUIS /CHR=4 /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_067742(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067742 NCBI Caenorhabditis elegans EGg Laying defective family member (egl-18) (egl-18) mRNA, complete cds. 11/11 A 
SNAP00000037864 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1911747:1914968:1 11/11 None
F55A8.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:1902322:1917826:1 gene:F55A8.1 11/11 None
F55A8.1.3 ENSEMBL cdna:known chromosome:CEL140:IV:1913446:1917826:1 gene:F55A8.1 11/11 None
F55A8.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:1913453:1917826:1 gene:F55A8.1 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
chrIV:1913476-1914974(+) 96.25 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol egl-18
Ensembl F55A8.1
Entrez Gene 176992 Entrez gene
SwissProt Q9BIM5 EMBL-EBI
WormBase CE28339 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
5634 nucleus inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAD36952 Egg laying defective protein 18 [Caenorhabditis elegans] ref|NP_500143.1| EGg Laying defective family member (egl-18) [Caenorhabditis elegans] gb|AAK32716.1| GATA-like transcription factor ELT-5 [Caenorhabditis elegans] 1.0E-169
blast AAR26006 GATA transcription factor EGL-18A [Caenorhabditis elegans] 1.0E-159
blast AAR26006 GATA transcription factor EGL-18A [Caenorhabditis elegans] 1.0E-125
blast AAD36952 Egg laying defective protein 18 [Caenorhabditis elegans] ref|NP_500143.1| EGg Laying defective family member (egl-18) [Caenorhabditis elegans] gb|AAK32716.1| GATA-like transcription factor ELT-5 [Caenorhabditis elegans] 1.0E-125
Protein Domains
Database ID Description E-Value
scop a.3.1.monodomain cytochrome c All alpha proteins; Cytochrome c; Cytochrome c; monodomain cytochrome c 0.25
Pfam IPR000679 EMBL-EBI Zn-finger, GATA type 9.8E-20
Pfam IPR000679 EMBL-EBI Zn-finger, GATA type 1.9E-18
Sequence
Target Sequence 
>C. ELEGANS:190079_AT
gaagcggaagcccaaggagcggagcccaccggcagctgcgagtccacttccagacttttc
gaatttgatgaacggattcatgtttgatcctctgaatatgtcaaatccaaatggaatgat
gcaattattatcaatggttcaacagcagcagcagcagcaacaacaccaccagcacattga
gaatcaacaatccgtgagcccaccacaatcgaaatccgtgaaaattgaagatccaatgga
tcaggatgtgaaacaggaagagtcggagcgatccgatatcccgacggctacagaggcgca
gaaccttttggatgcactaacagcacagtttagcagcaacggacaggcgacctccaccac
atctccaccatcatcatcatcccaagtacaagcggtcatcgaagcagtcgccacaccatc
atcccaaagccaagacagttcaatgtttgagaaaaccgagacgagtggtgatccgaacgc
ggcgcgatgctccaactgccgaaccgacaagacaaccgcgtggcgacgtgacgccgaggg
gaagcttgtctgcaatccgtgtgggctctactatcgattgcacaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCGGAAGCCCAAGGAGCGGAGC 72 343 321 Antisense
GAGAATCAACAATCCGTGAGCCCAC 294 391 499 Antisense
ATCCGATATCCCGACGGCTACAGAG 400 37 591 Antisense
GAGGCGCAGAACCTTTTGGATGCAC 451 405 613 Antisense
TTAGCAGCAACGGACAGGCGACCTC 4 683 650 Antisense
AAGCGGTCATCGAAGCAGTCGCCAC 535 149 710 Antisense
AGACGAGTGGTGATCCGAACGCGGC 406 71 779 Antisense
TCCAACTGCCGAACCGACAAGACAA 498 587 811 Antisense
CAAGACAACCGCGTGGCGACGTGAC 168 185 828 Antisense
GAGGGGAAGCTTGTCTGCAATCCGT 290 401 856 Antisense
TGGGCTCTACTATCGATTGCACAAG 119 555 882 Antisense
Sequence Source Affymetrix Proprietary Database