[Home] | [Total List]

[192333_at] Zinc finger, C2H2 type

Description F40F8.7 /REP_DB=WormBase Gene ID /WP=CE05846 /GEN=pqm-1 /TR=Q20233 /GB=CAA93267.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 68      4grp_highest_8_8 > 30      4grp_high_8_8 > 05      6grp_highest_nonorm > 68      6grp_total > 68      4grp_total > 03      6grp_highest_sub > Da      6grp_cgc > 38      6grp_high1_sub > Cu      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4632
1 2 3 4 range
A 2548.1
(-2.3)
P 		2021.6
(-3)
P 		2290.4
(-2.6)
P 		6557.9
(3)
P 		4536
B 2688.1
(-2.2)
P 		2113.8
(-3)
P 		2491.8
(-2.5)
P 		6251.5
(3)
P 		4138
C 2657.7
(-1.8)
P 		1925.5
(-3)
P 		2380.1
(-2.3)
P 		5658.1
(3)
P 		3733
avr 2631.3
(-2.1) 		2020.3
(-3) 		2387.4
(-2.5) 		6155.8
(3) 		4136

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1638
1 2 3 4 5 6 range
A 1600
(-2.2)
P 		2038.4
(-0.6)
P 		1375
(-3)
P 		1833.1
(-1.3)
P 		1766
(-1.6)
P 		3012.6
(3)
P 		1638
B 1808.5
(-1.6)
P 		1840.1
(-1.4)
P 		1613.2
(-2.7)
P 		1549.2
(-3)
P 		1743.8
(-1.9)
P 		2647
(3)
P 		1098
C 2054
(-0.2)
P 		1784.5
(-2)
P 		1740.4
(-2.3)
P 		1634.4
(-3)
P 		1856.1
(-1.5)
P 		2533.3
(3)
P 		899
avr 1820.8
(-1.7) 		1887.7
(-1.4) 		1576.2
(-3) 		1672.2
(-2.5) 		1788.6
(-1.9) 		2731
(3) 		1155
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 893
1 2 3 4 range
A 927.8
(2.6)
P 		438.8
(-3)
P 		598.8
(-1.2)
P 		960
(3)
P 		521
B 857.2
(-0.5)
P 		522.1
(-3)
P 		577.4
(-2.6)
P 		1332.2
(3)
P 		810
C 879.8
(1.9)
P 		553.6
(-3)
P 		829.5
(1.1)
P 		954
(3)
P 		400
avr 888.3
(1) 		504.8
(-3) 		668.6
(-1.3) 		1082.1
(3) 		577

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 692
1 2 3 4 5 6 range
A 294.9
(-3)
P 		724.9
(2.9)
P 		299.5
(-2.9)
P 		464.9
(-0.7)
P 		532.9
(0.3)
P 		733.5
(3)
P 		439
B 629.3
(-0.6)
P 		612.5
(-0.8)
P 		391.7
(-3)
P 		410.3
(-2.8)
P 		708.5
(0.2)
P 		987.1
(3)
P 		595
C 761.3
(2)
P 		544.5
(-0.5)
P 		443
(-1.7)
P 		328.7
(-3)
P 		600.6
(0.1)
P 		848.1
(3)
P 		519
avr 561.8
(-0.7) 		627.3
(0.1) 		378.1
(-3) 		401.3
(-2.7) 		614
(-0) 		856.2
(3) 		478
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192333_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2741
Sequence Type Exemplar sequence
Representative Public ID F40F8.7 NCBI
Target Description F40F8.7 /REP_DB=WormBase Gene ID /WP=CE05846 /GEN=pqm-1 /TR=Q20233 /GB=CAA93267.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
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_063990(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063990 NCBI Caenorhabditis elegans ParaQuat (Methylviologen) responsive family member (pqm-1) (pqm-1) mRNA, complete cds. 11/11 None
F40F8.7 ENSEMBL cdna:known chromosome:CEL140:II:11150248:11152477:-1 gene:F40F8.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000001356 6/11 Cross Hyb Matching Probes None
GENEFINDER00000001359 6/11 Cross Hyb Matching Probes None
SNAP00000026651 4/11 Cross Hyb Matching Probes None
GENEFINDER00000026655 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11150468-11152474(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type
Gene Symbol pqm-1
Ensembl F40F8.7
Entrez Gene 174705 Entrez gene
SwissProt Q20233 EMBL-EBI
WormBase CE05846 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 CAA93267 Hypothetical protein F40F8.7 [Caenorhabditis elegans] emb|CAA87376.1| Hypothetical protein F40F8.7 [Caenorhabditis elegans] ref|NP_496391.1| ParaQuat (Methylviologen) responsive family member (pqm-1) [Caenorhabditis elegans] gb|AAB63299.1| paraquat responsive protein [Caenorhabditis elegans] 1.0E-153
blast CAE59557 Hypothetical protein CBG02954 [Caenorhabditis briggsae] 1.0E-124
blast CAA88310 Hypothetical protein F10B5.3 [Caenorhabditis elegans] ref|NP_495709.1| F10B5.3 [Caenorhabditis elegans] 8.0E-56
Sequence
Target Sequence 
>C. ELEGANS:192333_AT
gatgaaggaccttcctgcaatccaaaaatgcgacgaggtgatctgctgaagagtgtttca
atggatagtacagaggatccaccatccataacacttgataacaatggagacatgattgtt
ccaaataatgataaagaaggttggtgtcgcaacaagaagtatatcgaacagacggagaac
ggttacatgtgtactgtttgtcgaaaggtttatggtagatacaactcggtgtcttaccac
gttaccatctaccataggaatcctccaatcaaatgcaacgttcccaactgtcagttcaca
actcgcgaggctcgatacattcatttccacaagaactatcggcacggaattccacttcca
gagagtatcgaccaaggttctcgaaaatgtccgcactgtcgtcacgtgtcaaagagtccg
gcgatgctcgagaaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGAAGGACCTTCCTGCAATCCAA 698 411 310 Antisense
GATCCACCATCCATAACACTTGATA 25 417 385 Antisense
GATACAACTCGGTGTCTTACCACGT 471 419 527 Antisense
TTACCACGTTACCATCTACCATAGG 254 663 543 Antisense
AAATGCAACGTTCCCAACTGTCAGT 467 119 580 Antisense
AACTGTCAGTTCACAACTCGCGAGG 271 141 595 Antisense
GCGAGGCTCGATACATTCATTTCCA 27 291 614 Antisense
GAACTATCGGCACGGAATTCCACTT 653 349 642 Antisense
TCGAAAATGTCCGCACTGTCGTCAC 451 601 690 Antisense
GTCGTCACGTGTCAAAGAGTCCGGC 143 463 707 Antisense
AGAGTCCGGCGATGCTCGAGAAACA 197 69 722 Antisense
Sequence Source Affymetrix Proprietary Database