[Home] | [Total List]

[192449_at] Zinc finger, C2H2 type (7 domains)

Description F39B2.1 /REP_DB=WormBase Gene ID /WP=CE16007 /TR=O45494 /GB=CAB07382.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (7 domains)
Cluster 4grp_high_8_8 > 43      6grp_total > 38      4grp_total > 53      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 163
1 2 3 4 range
A 244.8
(3)
P 		154.1
(-2.7)
P 		183.4
(-0.9)
P 		149.6
(-3)
A 		95
B 226.6
(1.4)
P 		254.5
(3)
P 		197.2
(-0.4)
P 		152.7
(-3)
P 		102
C 255.2
(1.6)
P 		293.2
(3)
P 		199.4
(-0.5)
P 		130.6
(-3)
A 		163
avr 242.2
(3) 		233.9
(2.5) 		193.3
(0) 		144.3
(-3) 		98

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 381
1 2 3 4 5 6 range
A 311.9
(1)
M 		300.4
(0.8)
P 		94
(-3)
A 		138
(-2.2)
A 		172.7
(-1.6)
A 		423.9
(3)
P 		330
B 272.4
(3)
P 		217.4
(1.4)
P 		61.7
(-3)
A 		144.6
(-0.6)
A 		184
(0.5)
P 		259.2
(2.6)
P 		211
C 442.7
(3)
P 		228
(-1.6)
M 		202.6
(-2.2)
P 		164.3
(-3)
A 		180.9
(-2.6)
P 		290
(-0.3)
P 		278
avr 342.3
(3) 		248.6
(0.5) 		119.4
(-3) 		149
(-2.2) 		179.2
(-1.4) 		324.4
(2.5) 		223
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 89.1
(3)
P 		33.4
(-2)
P 		48
(-0.7)
P 		21.9
(-3)
A 		67
B 72.2
(3)
P 		62.9
(1.6)
P 		45.7
(-1)
P 		32.5
(-3)
P 		40
C 84.5
(3)
P 		84.3
(3)
P 		69.5
(1.6)
P 		22
(-3)
A 		63
avr 81.9
(3) 		60.2
(0.7) 		54.4
(0.1) 		25.5
(-3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 57.5
(-0.4)
M 		106.9
(3)
P 		20.5
(-3)
A 		35
(-2)
A 		52.1
(-0.8)
A 		103.2
(2.7)
P 		86
B 94.8
(2.9)
P 		72.4
(1.2)
P 		15
(-3)
A 		38.3
(-1.3)
A 		74.7
(1.4)
P 		96.7
(3)
P 		82
C 164.1
(3)
P 		69.6
(-1.3)
M 		51.6
(-2.1)
P 		33
(-3)
A 		58.6
(-1.8)
P 		97.1
(-0.1)
P 		131
avr 105.5
(3) 		83
(1.2) 		29
(-3) 		35.4
(-2.5) 		61.8
(-0.4) 		99
(2.5) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192449_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2112
Sequence Type Exemplar sequence
Representative Public ID F39B2.1 NCBI
Target Description F39B2.1 /REP_DB=WormBase Gene ID /WP=CE16007 /TR=O45494 /GB=CAB07382.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (7 domains)
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_061178(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061178 NCBI Caenorhabditis elegans F39B2.1 (F39B2.1) mRNA, complete cds. 11/11 None
SNAP00000018506 ENSEMBL cdna:SNAP chromosome:CEL140:I:14799176:14801980:1 10/11 None
GENEFINDER00000018513 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14799176:14802173:1 11/11 None
F39B2.1 ENSEMBL cdna:known chromosome:CEL140:I:14799173:14802509:1 gene:F39B2.1 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
chrI:14799106-14802104(+) 96.64 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type (7 domains)
Ensembl F39B2.1
Entrez Gene 173348 Entrez gene
SwissProt O45494 EMBL-EBI
WormBase CE16007 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583941_AT similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein cfa
CANINE_2:CFA.12007.1.A1_AT similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein cfa
CANINE_2:CFA.18673.1.S1_AT similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein cfa
CANINE_2:CFA.18673.1.S1_S_AT similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein cfa
CANINE_2:CFAAFFX.19014.1.S1_AT similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein cfa
DROSOPHILA_2:1628960_S_AT dm
DROSGENOME1:144078_AT dm
CHICKEN:GGA.7048.1.S1_AT similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein; histone H4 gene-specific protein HiNF-P gga
HG-U133_PLUS_2:206495_S_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
HG-U133A:206495_S_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
HG-U133A_2:206495_S_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
HU35KSUBB:RC_H11661_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
U133_X3P:G13027589_3P_A_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
HG-U95AV2:37564_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
HG-U95C:66643_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
HU35KSUBC:RC_D20820_AT MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein hs
MOUSE430_2:1440255_AT expressed sequence AA589481 mm
MOE430A:1440255_AT expressed sequence AA589481 mm
MOUSE430A_2:1440255_AT expressed sequence AA589481 mm
MG-U74AV2:103757_AT expressed sequence AA589481 mm
MU11KSUBA:AA624386_S_AT expressed sequence AA589481 mm
MG-U74AV2:161581_R_AT expressed sequence AA589481 mm
MOE430B:1437276_AT Expressed sequence AA589481, mRNA (cDNA clone MGC:27746 IMAGE:2651006) mm
MOUSE430_2:1437276_AT Expressed sequence AA589481, mRNA (cDNA clone MGC:27746 IMAGE:2651006) mm
MU19KSUBA:TC24828_AT Expressed sequence AA589481, mRNA (cDNA clone MGC:27746 IMAGE:2651006) mm
MU19KSUBA:TC24828_G_AT Expressed sequence AA589481, mRNA (cDNA clone MGC:27746 IMAGE:2651006) mm
MU19KSUBB:TC32252_AT Expressed sequence AA589481, mRNA (cDNA clone MGC:27746 IMAGE:2651006) mm
RAE230B:1391849_AT Similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein (predicted) rn
RAT230_2:1391849_AT Similar to MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein (predicted) rn
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 CAB07382 Hypothetical protein F39B2.1 [Caenorhabditis elegans] ref|NP_493579.1| F39B2.1 [Caenorhabditis elegans] 0.0
blast CAE72531 Hypothetical protein CBG19711 [Caenorhabditis briggsae] 0.0
blast NP_001017764 hypothetical protein LOC550461 [Danio rerio] gb|AAH93191.1| Hypothetical protein LOC550461 [Danio rerio] 1.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.1E-5
Sequence
Target Sequence 
>C. ELEGANS:192449_AT
gcatttagtcagtcttacgtgcccactatgctcacttggattgggttgccgagcagaact
tcataggcatttaatgacaaagcattcaagacgatccaaagatttcaaatgtgatacttg
cagcaaattgttcttcacagagagtgagctcaaccgtcacgctgtgtaccattctgacgt
catgtacagttgcaagcattgtccggagaagtttaagtggaagaaacagctcatgaagca
tatgaaagaacatgatgagaatttcaatccatccccatatacatgccatttgtgtgaccg
aacatatactactggatttgcattgggacgccatttaacccgtcaacatcgtctccagat
accctatggattcagtcgttttacttacaaaaagtgtgccgatggacttatgcgacttca
gacgaaaaagttgtttagaggagagtctggagaggatcaagcccatcaccaccatcaaca
tctcacttttttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCATTTAGTCAGTCTTACGTGCCCA 375 307 1146 Antisense
TGCCCACTATGCTCACTTGGATTGG 242 585 1165 Antisense
CAGAGAGTGAGCTCAACCGTCACGC 71 207 1283 Antisense
TCACGCTGTGTACCATTCTGACGTC 178 625 1302 Antisense
ATGAGAATTTCAATCCATCCCCATA 192 45 1400 Antisense
CCATCCCCATATACATGCCATTTGT 680 271 1414 Antisense
GCCATTTAACCCGTCAACATCGTCT 587 281 1475 Antisense
GATACCCTATGGATTCAGTCGTTTT 4 425 1503 Antisense
TGTGCCGATGGACTTATGCGACTTC 23 557 1540 Antisense
TGGAGAGGATCAAGCCCATCACCAC 394 549 1593 Antisense
CCACCATCAACATCTCACTTTTTTG 85 275 1614 Antisense
Sequence Source Affymetrix Proprietary Database