[Home] | [Total List]

[192224_s_at] cleavage stimulation factor like

Description F28C6.3 /REP_DB=WormBase Gene ID /WP=CE03274 /TR=Q19864 /GB=CAA92670.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=cleavage stimulation factor like
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 97      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 96      6grp_total > 86      4grp_total > 59      6grp_highest_sub > In      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 682.9
(-0.8)
P 		765.4
(3)
P 		722.2
(1)
P 		635.8
(-3)
P 		130
B 775.5
(3)
P 		708.9
(-2.7)
P 		705.5
(-3)
P 		746.6
(0.5)
P 		70
C 734.8
(0.3)
P 		789
(2)
P 		823.3
(3)
P 		626.5
(-3)
P 		197
avr 731.1
(1.4) 		754.4
(3) 		750.3
(2.7) 		669.6
(-3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 751
1 2 3 4 5 6 range
A 728.9
(-2)
P 		631.2
(-3)
P 		646.8
(-2.8)
P 		884.3
(-0.5)
P 		961.9
(0.3)
P 		1232.9
(3)
P 		602
B 626.6
(-3)
P 		739
(-2.1)
P 		628.4
(-3)
P 		797.2
(-1.6)
P 		977.3
(-0.2)
P 		1375.5
(3)
P 		749
C 624.4
(-3)
P 		728.1
(-2.2)
P 		748.4
(-2)
P 		992.7
(-0.1)
P 		960.4
(-0.3)
P 		1374.2
(3)
P 		750
avr 660
(-3) 		699.4
(-2.6) 		674.5
(-2.9) 		891.4
(-0.9) 		966.5
(-0.2) 		1327.5
(3) 		668
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 194
1 2 3 4 range
A 248.7
(3)
P 		166.1
(-0.2)
P 		188.8
(0.7)
P 		93.1
(-3)
P 		156
B 247.3
(3)
P 		175.1
(-1.9)
P 		163.5
(-2.7)
P 		159.1
(-3)
P 		88
C 243.2
(1.6)
P 		226.9
(1)
P 		286.9
(3)
P 		105.6
(-3)
P 		181
avr 246.4
(3) 		189.4
(0.3) 		213.1
(1.4) 		119.3
(-3) 		127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 379
1 2 3 4 5 6 range
A 134.4
(-3)
P 		224.5
(0.3)
P 		140.9
(-2.8)
P 		224.3
(0.3)
P 		290.3
(2.6)
P 		300.2
(3)
P 		166
B 218
(-1.9)
P 		246
(-1.4)
P 		152.6
(-3)
P 		211.2
(-2)
P 		397.1
(1.1)
P 		512.9
(3)
P 		360
C 231.4
(-2.1)
P 		222.2
(-2.3)
P 		190.5
(-3)
P 		199.6
(-2.8)
P 		310.8
(-0.3)
P 		460
(3)
P 		270
avr 194.6
(-2.2) 		230.9
(-1.4) 		161.3
(-3) 		211.7
(-1.9) 		332.7
(0.9) 		424.4
(3) 		263
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192224_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3966
Sequence Type Exemplar sequence
Representative Public ID F28C6.3 NCBI
Target Description F28C6.3 /REP_DB=WormBase Gene ID /WP=CE03274 /TR=Q19864 /GB=CAA92670.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=cleavage stimulation factor like
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_063421(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063421 NCBI Caenorhabditis elegans Cleavage and Polyadenylation Factor family member (cpf-1) (cpf-1) mRNA, complete cds. 11/11 None
SNAP00000038093 ENSEMBL cdna:SNAP chromosome:CEL140:II:8600450:8602332:-1 11/11 None
GENEFINDER00000038107 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8600450:8602332:-1 11/11 None
F28C6.3 ENSEMBL cdna:known chromosome:CEL140:II:8600431:8602332:-1 gene:F28C6.3 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:8600446-8602329(-) 100.0 100.0
Public Domain and Genome References
Gene Title cleavage stimulation factor like
Gene Symbol cpf-1
Ensembl F28C6.3
Entrez Gene 174378 Entrez gene
SwissProt Q19864 EMBL-EBI
WormBase CE03274 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247609_AT transducin family protein / WD-40 repeat family protein at
CANINE:1593383_AT similar to cleavage stimulation factor, 3 pre-RNA, subunit 1 (predicted) cfa
CANINE:1583993_AT similar to cleavage stimulation factor, 3 pre-RNA, subunit 1 (predicted) cfa
CANINE_2:CFA.12277.1.A1_AT similar to cleavage stimulation factor, 3 pre-RNA, subunit 1 (predicted) cfa
CANINE_2:CFA.13849.1.A1_AT similar to cleavage stimulation factor, 3 pre-RNA, subunit 1 (predicted) cfa
CANINE_2:CFAAFFX.18517.1.S1_AT similar to cleavage stimulation factor, 3 pre-RNA, subunit 1 (predicted) cfa
DROSOPHILA_2:1626788_A_AT dm
DROSGENOME1:154295_AT dm
CHICKEN:GGA.9913.1.S1_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa gga
HG-U133_PLUS_2:202190_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-U133A:202190_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-U133A_2:202190_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HU35KSUBA:L02547_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HUGENEFL:L02547_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
U133_X3P:G4557490_3P_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
U133_X3P:G4557490_3P_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
U133_X3P:4865642_3P_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-U133A_2:32723_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-FOCUS:32723_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-U133_PLUS_2:32723_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-U133A:32723_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
HG-U95AV2:32723_AT cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa hs
MU11KSUBA:AA260455_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MU11KSUBB:MSA.17338.0_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MU11KSUBB:MSA.4745.0_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MU11KSUBB:MSA.11970.0_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MG-U74AV2:94942_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MOE430A:1448597_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MOUSE430A_2:1448597_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MOUSE430_2:1448597_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MOE430A:1417117_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MOUSE430A_2:1417117_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MOUSE430_2:1417117_AT cleavage stimulation factor, 3' pre-RNA, subunit 1 mm
MG-U74AV2:161631_F_AT Cleavage stimulation factor, 3' pre-RNA, subunit 1, mRNA (cDNA clone MGC:6802 IMAGE:2648192) mm
MG-U74CV2:169433_I_AT Cleavage stimulation factor, 3' pre-RNA, subunit 1, mRNA (cDNA clone MGC:6802 IMAGE:2648192) mm
Protein Similarities
Method ID Description E-Value
blast CAA92670 Hypothetical protein F28C6.3 [Caenorhabditis elegans] ref|NP_495822.1| Cleavage and Polyadenylation Factor family member (cpf-1) [Caenorhabditis elegans] 0.0
blast CAE57570 Hypothetical protein CBG00548 [Caenorhabditis briggsae] 0.0
blast XP_393185 PREDICTED: similar to ENSANGP00000022165 [Apis mellifera] 1.0E-133
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.6E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.2E-9
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.034
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.7E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.6E-4
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.7E-4
Sequence
Target Sequence 
>C. ELEGANS:192224_S_AT
gaatttcttcttgttgcaacggatcatcctactgttcgtctctacaacattgaaacagct
caggcatatgcttcagcgaatccagatgatcaacatactgaatctgtaacagatgttcat
tattctgaaaatgcacggctctatgtaacggcttcaaaggatgggcacgtaaagatatgg
gatggtgtgtcaaacagatgtgtagagacattcaaaagagctcacgatggttcatcaatc
tgctcagccaaatttacaaagaatggaaaatacatattaacaagtggaatggatagtatt
gtgaaactatgggaactgagtactaatcggtgtttgattgtctatacgggagcaggagct
actggagcacaggattttgccacaaacgcttcatttaaccacaatgaagattacgtgtta
ttcccagacgagaagagtggaagcatgtgctcgtgggatgctcgcaattccgacagaaag
cgacttcttgctctaggacacacatcagcgtgccgaactttcgttcattccccatccatg
ccagcattcatgacaggaagtgacgatcatcgtgctcgattctgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTTCTTCTTGTTGCAACGGATC 627 325 691 Antisense
CAACGGATCATCCTACTGTTCGTCT 34 187 707 Antisense
ACAGCTCAGGCATATGCTTCAGCGA 273 107 745 Antisense
TGCACGGCTCTATGTAACGGCTTCA 602 567 822 Antisense
ATGGTTCATCAATCTGCTCAGCCAA 403 51 917 Antisense
TGCCACAAACGCTTCATTTAACCAC 262 585 1068 Antisense
TCGTGGGATGCTCGCAATTCCGACA 645 605 1141 Antisense
GAAAGCGACTTCTTGCTCTAGGACA 524 359 1166 Antisense
ACACATCAGCGTGCCGAACTTTCGT 557 109 1190 Antisense
CCCATCCATGCCAGCATTCATGACA 429 259 1221 Antisense
TGACGATCATCGTGCTCGATTCTGG 569 569 1251 Antisense
Sequence Source Affymetrix Proprietary Database