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[192936_s_at] polyadenylation factor like

Description F28C6.6 /REP_DB=WormBase Gene ID /WP=CE03277 /GEN=suf-1 /TR=Q19866 /GB=CAA92672.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=polyadenylation factor like
Cluster 6grp_highest_10_10 > 75      6grp_high1_10_10 > 66      4grp_highest_8_8 > 42      4grp_high_8_8 > 49      6grp_highest_nonorm > 73      6grp_total > 57      4grp_total > 63      6grp_highest_sub > Cu      6grp_cgc > 36      6grp_high1_sub > Da      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 279
1 2 3 4 range
A 577.9
(3)
P 		485.9
(-0.7)
P 		540.2
(1.5)
P 		429.2
(-3)
P 		149
B 708.3
(3)
P 		547.2
(-1.3)
P 		586.8
(-0.2)
P 		482.5
(-3)
P 		226
C 604.2
(3)
P 		534.8
(-0.8)
P 		504.2
(-2.5)
P 		494.7
(-3)
P 		110
avr 630.1
(3) 		522.6
(-1) 		543.7
(-0.2) 		468.8
(-3) 		161

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 321
1 2 3 4 5 6 range
A 645.9
(0.3)
P 		551
(-2)
P 		506.1
(-3)
P 		608.8
(-0.6)
P 		524.1
(-2.6)
P 		763.8
(3)
P 		258
B 577.1
(0.7)
P 		527.1
(-1.4)
P 		493.9
(-2.9)
P 		630.5
(3)
P 		490.9
(-3)
P 		603.6
(1.8)
P 		140
C 648.5
(1.6)
P 		502.2
(-1.7)
P 		660.2
(1.9)
P 		708.6
(3)
P 		442.7
(-3)
P 		650.3
(1.7)
P 		266
avr 623.8
(1.4) 		526.8
(-1.7) 		553.4
(-0.8) 		649.3
(2.3) 		485.9
(-3) 		672.6
(3) 		187
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 163
1 2 3 4 range
A 210.4
(3)
P 		105.5
(-1.3)
P 		141.2
(0.2)
P 		62.8
(-3)
P 		148
B 225.9
(3)
P 		135.2
(-1.4)
P 		136
(-1.4)
P 		102.8
(-3)
P 		123
C 200
(3)
P 		153.8
(0.6)
P 		175.7
(1.7)
P 		83.4
(-3)
P 		117
avr 212.1
(3) 		131.5
(-0.7) 		151
(0.2) 		83
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 130
1 2 3 4 5 6 range
A 119.1
(-2.4)
P 		196
(3)
P 		110.2
(-3)
P 		154.4
(0.1)
P 		158.2
(0.4)
P 		186
(2.3)
P 		86
B 200.8
(1.6)
P 		175.5
(0.2)
P 		119.9
(-3)
P 		167
(-0.3)
P 		199.5
(1.5)
P 		225.1
(3)
P 		105
C 240.4
(3)
P 		153.2
(-2.3)
P 		168
(-1.4)
P 		142.5
(-3)
P 		143.3
(-3)
P 		217.7
(1.6)
P 		98
avr 186.8
(1.2) 		174.9
(0.3) 		132.7
(-3) 		154.6
(-1.3) 		167
(-0.3) 		209.6
(3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192936_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2804
Sequence Type Exemplar sequence
Representative Public ID F28C6.6 NCBI
Target Description F28C6.6 /REP_DB=WormBase Gene ID /WP=CE03277 /GEN=suf-1 /TR=Q19866 /GB=CAA92672.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=polyadenylation 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_063424(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063424 NCBI Caenorhabditis elegans SUppressor-of-Forked (Drosophila) homolog family member (suf-1) (suf-1) mRNA, complete cds. 11/11 None
SNAP00000038095 ENSEMBL cdna:SNAP chromosome:CEL140:II:8603783:8606467:1 11/11 None
GENEFINDER00000038108 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8603783:8606467:1 11/11 None
F28C6.6.1 ENSEMBL cdna:known chromosome:CEL140:II:8603768:8606666:1 gene:F28C6.6 11/11 None
F28C6.6.2 ENSEMBL cdna:known chromosome:CEL140:II:8603768:8705872:1 gene:F28C6.6 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:8603779-8606464(+) 100.0 100.0
Public Domain and Genome References
Gene Title polyadenylation factor like
Gene Symbol suf-1
Ensembl F28C6.6
Entrez Gene 174380 Entrez gene
SwissProt Q19866 EMBL-EBI
WormBase CE03277 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259401_AT suppressor of forked protein family protein / SUF family protein at
CANINE:1604474_AT similar to cleavage stimulation factor subunit 3 cfa
CANINE:1586172_AT similar to cleavage stimulation factor subunit 3 cfa
CANINE:1584703_S_AT similar to cleavage stimulation factor subunit 3 cfa
CANINE_2:CFA.3343.1.A1_AT similar to cleavage stimulation factor subunit 3 cfa
CANINE_2:CFA.3343.1.A1_S_AT similar to cleavage stimulation factor subunit 3 cfa
CANINE_2:CFA.474.1.S1_AT similar to cleavage stimulation factor subunit 3 cfa
CANINE_2:CFAAFFX.11792.1.S1_S_AT similar to cleavage stimulation factor subunit 3 cfa
CHICKEN:GGAAFFX.7445.1.S1_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa gga
CHICKEN:GGAAFFX.7445.2.S1_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa gga
HG-U133_PLUS_2:229666_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U133B:229666_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U133_PLUS_2:203947_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U133A:203947_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-FOCUS:203947_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U133A_2:203947_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U95AV2:41183_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HUGENEFL:U15782_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
U133_X3P:G4557494_3P_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
U133_X3P:HS.180034.1.S1_3P_X_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
U133_X3P:HS.180034.1.S1_3P_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
U133_X3P:HS.180034.1.S1_3P_A_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U133_PLUS_2:229665_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U133B:229665_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U95B:43440_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U95B:43441_G_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U95C:60877_R_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HG-U95B:44996_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
HU35KSUBC:RC_N32907_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
U133_X3P:229665_3P_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa hs
MU11KSUBA:AA265357_F_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MU11KSUBA:C79534_RC_F_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MG-U74AV2:100968_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MG-U74BV2:116870_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MOE430A:1424723_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MOUSE430A_2:1424723_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MOUSE430_2:1424723_S_AT cleavage stimulation factor, 3' pre-RNA, subunit 3 mm
MG-U74CV2:133439_R_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
MOE430B:1443909_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
MOUSE430_2:1443909_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
MU19KSUBB:TC31698_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
MU19KSUBB:TC31698_G_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
MU19KSUBB:TC32336_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
MU19KSUBB:TC32336_G_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3 (Cstf3), mRNA mm
RAE230B:1393166_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAT230_2:1393166_AT cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAE230B:1384935_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAT230_2:1384935_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAE230B:1394996_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAT230_2:1394996_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAE230B:1396900_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAT230_2:1396900_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAE230B:1397796_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RAT230_2:1397796_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RG-U34B:RC_AA998749_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RG-U34B:RC_AI044234_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RG-U34C:RC_AI070621_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
RG-U34B:RC_AI029229_AT Cleavage stimulation factor, 3' pre-RNA, subunit 3, 77kDa (predicted) rn
YEAST_2:1780192_AT Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; bridges interaction between Rna15p and Hrp1p in the CF I complex Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6396 RNA processing inferred from electronic annotation QuickGO AmiGO
6397 mRNA processing inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92672 Hypothetical protein F28C6.6 [Caenorhabditis elegans] ref|NP_495825.1| SUppressor-of-Forked (Drosophila) homolog family member (suf-1) [Caenorhabditis elegans] 0.0
blast AAA62311 cleavage stimulation factor 0.0
blast AAB01508 similar to C. elegans cleavage stimulation factor encoded by GenBank Accession Number L39893; Drosophila su(f) homolog, similar to Swiss-Prot Accession Number P25991 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008847 EMBL-EBI Suppressor of forked 1.0E-126
Pfam IPR008847 EMBL-EBI Suppressor of forked 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:192936_S_AT
tacggaaagcatcgccggaccatcattcgttggttcaaagaatgttccaactcatggacc
acaagcagccagtgcaattatgggtggagctggtggacacgcagacgtggcacgatacgg
tttcccaagacccgacatatcacaaatgattccattcaaaccacgagtcaattgtacggc
atcgtttcatccggtacctggaggcgtatttccaccaccacaatcagttgcacatctcat
gtctcttcttcctcctccaacttgttttattggaccatttatcaatgtggaattgttgtg
caatatgatcaataatatgcagcttccaaacgtttcatatccaaagtcagaggacaatat
gcttggcccaatgttggaacaagacgtcaaaaaagatatgtatcaattgttagcaacaac
gtcagatccatcagcagtcgttcgttcatcagctctgtccgatttgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACGGAAAGCATCGCCGGACCATCA 508 647 1638 Antisense
TCATGGACCACAAGCAGCCAGTGCA 5 623 1689 Antisense
TGGAGCTGGTGGACACGCAGACGTG 640 547 1722 Antisense
TTTCCCAAGACCCGACATATCACAA 570 669 1758 Antisense
TGTACGGCATCGTTTCATCCGGTAC 437 559 1810 Antisense
CATCCGGTACCTGGAGGCGTATTTC 449 209 1825 Antisense
ATCAGTTGCACATCTCATGTCTCTT 423 29 1860 Antisense
TAATATGCAGCTTCCAAACGTTTCA 523 635 1950 Antisense
AGCAACAACGTCAGATCCATCAGCA 253 77 2049 Antisense
TCCATCAGCAGTCGTTCGTTCATCA 171 591 2064 Antisense
GTTCATCAGCTCTGTCCGATTTGAA 197 445 2081 Antisense
Sequence Source Affymetrix Proprietary Database