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[175830_at] Zinc finger, C2H2 type (3 domains)

Description g4768946 /REP_DB=GenBank Identifier /GB=AF134806.1 /PROTEIN_GB=AAD29691.1 /CHR=3 /FEA=Mapped Transcript /DEF=putative zinc finger transcription factor
Cluster 6grp_high1_10_10 > 14      4grp_high_8_8 > 50      6grp_total > 04      4grp_total > 61      6grp_cgc > 41      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 146.5
(2)
P 		118
(-0.4)
M 		159.5
(3)
M 		85.2
(-3)
A 		74
B 175.3
(3)
P 		170.3
(2.7)
M 		156.5
(2)
M 		66.8
(-3)
P 		109
C 159.5
(3)
P 		127.9
(-1.3)
P 		115.4
(-3)
P 		158.2
(2.8)
M 		44
avr 160.4
(3) 		138.7
(0.7) 		143.8
(1.3) 		103.4
(-3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 236.7
(3)
P 		164.1
(-1)
P 		127.9
(-3)
P 		167
(-0.8)
A 		153.5
(-1.6)
P 		137.2
(-2.5)
A 		109
B 153.5
(2.2)
P 		152.2
(2.1)
P 		141.5
(1)
P 		161.3
(3)
P 		128.2
(-0.3)
P 		101.6
(-3)
A 		60
C 174.4
(2.5)
P 		185.4
(3)
P 		120.3
(-0.1)
P 		137.8
(0.7)
P 		101.4
(-1.1)
A 		61
(-3)
P 		124
avr 188.2
(3) 		167.2
(1.6) 		129.9
(-1) 		155.4
(0.8) 		127.7
(-1.1) 		99.9
(-3) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 53.3
(3)
P 		25.6
(-1.1)
M 		41.7
(1.3)
M 		12.5
(-3)
A 		41
B 55.9
(3)
P 		42.1
(1)
M 		36.3
(0.2)
M 		14.2
(-3)
P 		42
C 52.8
(3)
P 		36.8
(-0.7)
P 		40.2
(0.1)
P 		26.7
(-3)
M 		26
avr 54
(3) 		34.8
(-0.2) 		39.4
(0.6) 		17.8
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 43.6
(0.1)
P 		58.4
(3)
P 		27.9
(-3)
P 		42.4
(-0.1)
A 		46.3
(0.6)
P 		33.4
(-1.9)
A 		31
B 53.4
(3)
P 		50.6
(2.1)
P 		34.4
(-3)
P 		42.7
(-0.4)
P 		52.1
(2.6)
P 		37.9
(-1.9)
A 		19
C 64.6
(3)
P 		56.6
(1.9)
P 		30.6
(-1.6)
P 		27.7
(-2)
P 		32.8
(-1.3)
A 		20.4
(-3)
P 		44
avr 53.9
(2.7) 		55.2
(3) 		31
(-2.9) 		37.6
(-1.3) 		43.7
(0.2) 		30.6
(-3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175830_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19773
Sequence Type Exemplar sequence
Representative Public ID 4768946 NCBI
Target Description g4768946 /REP_DB=GenBank Identifier /GB=AF134806.1 /PROTEIN_GB=AAD29691.1 /CHR=3 /FEA=Mapped Transcript /DEF=putative zinc finger transcription factor
Cluster Evidence This cluster is supported by a Mapped Transcript.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_065358
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000033688 ENSEMBL cdna:SNAP chromosome:CEL140:III:3745439:3747270:1 None
GENEFINDER00000033694 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3745439:3747270:1 None
NM_065358 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-48) (lin-48) mRNA, complete cds. A 
F34D10.5 ENSEMBL cdna:known chromosome:CEL140:III:3745439:3747270:1 gene:F34D10.5 A 
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:3745413-3747555(+) 98.01 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type (3 domains)
Gene Symbol lin-48
Ensembl F34D10.5
Entrez Gene 175485 Entrez gene
SwissProt Q19996 EMBL-EBI
WormBase CE24940 Wormbase
Functional Annotations
Gene Ontology
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
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA84317 Hypothetical protein F34D10.5 [Caenorhabditis elegans] ref|NP_497759.1| abnormal cell LINeage family member (lin-48) [Caenorhabditis elegans] gb|AAD29691.1| putative zinc finger transcription factor [Caenorhabditis elegans] 1.0E-124
blast CAE64491 Hypothetical protein CBG09216 [Caenorhabditis briggsae] 1.0E-100
blast XP_624482 PREDICTED: similar to ENSANGP00000019944 [Apis mellifera] 3.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.5E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 8.0E-6
Sequence
Target Sequence 
>C. ELEGANS:175830_AT
aagatctccctataatactcaccttttttcctatttaatttttaattttttttagaaatt
agctattttccaaaaatcctccaaatcatcgtcatttccccatttgttggtgatcctttt
tgcacccccgtgactgatttattaaccccaatgacactattttctctccgtccaagaccc
ttttcacccatttctgtcttctagatgattccatgatgtatttaacttataccaatgaca
acaaattttcccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGATCTCCCTATAATACTCACCTT 598 155 866 Antisense
TATAATACTCACCTTTTTTCCTATT 198 661 876 Antisense
AAATCCTCCAAATCATCGTCATTTC 253 119 939 Antisense
TCGTCATTTCCCCATTTGTTGGTGA 419 603 954 Antisense
TTGTTGGTGATCCTTTTTGCACCCC 278 707 969 Antisense
TTGCACCCCCGTGACTGATTTATTA 63 703 985 Antisense
CTGATTTATTAACCCCAATGACACT 147 237 999 Antisense
CAATGACACTATTTTCTCTCCGTCC 366 183 1014 Antisense
TCACCCATTTCTGTCTTCTAGATGA 258 627 1049 Antisense
GTCTTCTAGATGATTCCATGATGTA 316 469 1061 Antisense
TACCAATGACAACAAATTTTCCCAA 31 651 1095 Antisense
Sequence Source GenBank