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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
AFB235
Library AF
(Link to library)
Clone ID AFB235
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U12134-1
Original site URL
Representative seq. ID AFB235P
(Link to Original site)
Representative DNA sequence 
>AFB235 (AFB235Q) /CSM/AF/AFB2-B/AFB235Q.Seq.d/
AGTAATTAAGAAAAGTATAATACTCTACAATGAGTGAAGTTGAGGAACAAACTTTAATAA
AAGATGCATCAATGAATGAACCAACAGATAAAACCACCACTGAAGGCGATAATGGTGGTG
AAAATGAAAATGAAAATGAAAATATAGCAGAAGGTGGTGAAAATCAAGAAGATAATAATA
ATAATAATGAGGGGGAGGAAGAAGAAGAGGAGGAAGAGGAAGAGGAGGAAGAAGAAGAGG
AAGATGAAGAATCAGATGACGATGATGTTGTTGTACTTTTAGATCAAGAAAGTGTTGAAG
CATCATCGAGTAAACCTGGTGCAACATTTAGAACTACACCAAATAAATTTTCATATAGAA
ATCCATCATCGATTACACCTGGGTCAGGTGGTAAATATATGTTAACAAAACAAACACCAA
CAGGTGGTGGTGGTGGTGGTAGTGGTTTCAATTCAGCTAAATCAAATCAAAAAACAATCT
TTGAATTTGATATCGAATCATTTGAAGAGAAACCTTGGTTAAAACCAGGTGCTGATATTT
CAGATTATTTCAATTATAATTTCACTGAAGAAACTTGGAAAGCCTATTGTGAAAGACXXX
XXXXXXXGGGGGTGAAAGAGAAAGAGAGAAGAGATAGAGATGATAGAGATAGAAGTGAAA
GAGAAAGATCGGATAGAGATAGAAGTGAAAGAGAAAGATCAGACAGAAGTGAAAGAGAAA
GATCAGATAGAGATAGAAGTGAAAGAGAAAGATCAGATAGAAGTGAAAGATCAGACAGAG
ATAAAACAAGTAGTAGTAGTAGTAGTAGTAATAATAATAGTAGTTCATCAACAAGAGGTA
GTGATAGATATGATAGAGAAAGAGGGGGTGATAGAGATAGAACCTCTGAAAGTAGTAGTA
GAGGGAGTGATAGAGATAGAGATGATTATAAAAGTAGAAGTAGTAGTAATACTGGAGGTA
GCAGTAGTAGTTTAAGATCAGACAGAGATTCAAGAACACCAAGTAATACAAGTAGTAACT
ACTCCTCTTCTAATCCCTCTTCTTCTTCCTCCTCCTCAGATTATAAAAGAAAGAATTATA
ATAC
sequence update 2001. 6. 1
Translated Amino Acid sequence 
*lrkv*YSTMSEVEEQTLIKDASMNEPTDKTTTEGDNGGENENENENIAEGGENQEDNNN
NNEGEEEEEEEEEEEEEEEEDEESDDDDVVVLLDQESVEASSSKPGATFRTTPNKFSYRN
PSSITPGSGGKYMLTKQTPTGGGGGGSGFNSAKSNQKTIFEFDIESFEEKPWLKPGADIS
DYFNYNFTEETWKAYCER---

---GVKEKERRDRDDRDRSERERSDRDRSERERSDRSERERSDRDRSERERSDRSERSDR
DKTSSSSSSSNNNSSSSTRGSDRYDRERGGDRDRTSESSSRGSDRDRDDYKSRSSSNTGG
SSSSLRSDRDSRTPSNTSSNYSSSNPSSSSSSSDYKRKNYN
Translated Amino Acid sequence (All Frames) 
Frame A:
sn*ekyntlq*vklrnkl**kmhq*mnqqikpplkaimvvkmkmkmki*qkvvkikkiii
iimrgrkkkrrkrkrrkkkrkmknqmtmmllyf*ikkvlkhhrvnlvqhlelhqinfhie
ihhrlhlgqvvnic*qnkhqqvvvvvvvvsiqlnqikkqslnlisnhlkrnlg*nqvlif
qiisiiislkklgkpivkd---

---ggererekr*r**r*k*krkig*r*k*krkirqk*krkir*r*k*krkir*k*kirq
r*nk***********finkr***i**rkrg**r*nl*k***re**r*r*l*k*k***ywr
*q**fkirqrfkntk*yk**lllf*slffflllrl*kkel*y

Frame B:
vikksiilyne*s*gtnfnkrcine*tnr*nhh*rr*ww*k*k*k*kysrrw*ksrr***
***gggrrrggrgrggrrrgr*rir*r*ccctfrsrkc*siie*twcni*nytk*ifi*k
siidytwvrw*iyvnktntnrwwwww*wfqfs*iksknnl*i*yrii*retlvktrc*yf
rlfql*fh*rnlesll*k---

---GVKEKERRDRDDRDRSERERSDRDRSERERSDRSERERSDRDRSERERSDRSERSDR
DKTSSSSSSSNNNSSSSTRGSDRYDRERGGDRDRTSESSSRGSDRDRDDYKSRSSSNTGG
SSSSLRSDRDSRTPSNTSSNYSSSNPSSSSSSSDYKRKNYN

Frame C:
*lrkv*YSTMSEVEEQTLIKDASMNEPTDKTTTEGDNGGENENENENIAEGGENQEDNNN
NNEGEEEEEEEEEEEEEEEEDEESDDDDVVVLLDQESVEASSSKPGATFRTTPNKFSYRN
PSSITPGSGGKYMLTKQTPTGGGGGGSGFNSAKSNQKTIFEFDIESFEEKPWLKPGADIS
DYFNYNFTEETWKAYCER---

---g*krkreeiemieievkekdrieievkekdqtevkekdqieievkekdqievkdqte
ikqvvvvvvviiivvhqqevvidmiekegvieieplkvvvegvieiemiikvevvvilev
avvv*dqteiqehqviqvvttplliplllpppqiikeriii
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFB235 (AFB235Q) /CSM/AF/AFB2-B/AFB235Q.Seq.d/                        543   e-153
VHM688 (VHM688Q) /CSM/VH/VHM6-D/VHM688Q.Seq.d/                        339   5e-92
AFC157 (AFC157Q) /CSM/AF/AFC1-C/AFC157Q.Seq.d/                        339   5e-92
SLB839 (SLB839Q) /CSM/SL/SLB8-B/SLB839Q.Seq.d/                        299   5e-80
VFM494 (VFM494Q) /CSM/VF/VFM4-D/VFM494Q.Seq.d/                         46   0.001
CFK272 (CFK272Q) /CSM/CF/CFK2-C/CFK272Q.Seq.d/                         46   0.001
CFK172 (CFK172Q) /CSM/CF/CFK1-C/CFK172Q.Seq.d/                         46   0.001
VSF352 (VSF352Q) /CSM/VS/VSF3-C/VSF352Q.Seq.d/                         44   0.004
SLJ681 (SLJ681Q) /CSM/SL/SLJ6-D/SLJ681Q.Seq.d/                         44   0.004
SLF811 (SLF811Q) /CSM/SL/SLF8-A/SLF811Q.Seq.d/                         44   0.004
own update 2002.10.28
Homology vs DNA 

                                                               Score     E
Sequences producing significant alignments:                    (bits)  Value  N

BU915195|BU915195.1 AGENCOURT_10493159 NICHD_XGC_OO1 Xenopus laevis cDNA clone IMAGE:6641848 5', mRNA sequence.    68  2e-07  1
BJ041862|BJ041862.1 Xenopus laevis cDNA clone:XL027n19, 5' end, single read.    60  2e-06  2
CD329935|CD329935.1 AGENCOURT_14150643 NICHD_XGC_Brn1 Xenopus laevis cDNA clone IMAGE:6951621 5', mRNA sequence.    60  3e-06  2
BU899661|BU899661.1 AGENCOURT_10206498 NICHD XGC Ov1 Xenopus laevis cDNA clone IMAGE:6316312 5', mRNA sequence.    60  3e-06  2
CA791982|CA791982.1 AGENCOURT_10316432 NICHD XGC Emb1 Xenopus laevis cDNA clone IMAGE:5154765 5', mRNA sequence.    60  3e-06  2
BU908744|BU908744.1 AGENCOURT_10488143 NICHD XGC Emb1 Xenopus laevis cDNA clone IMAGE:6634271 5', mRNA sequence.    60  3e-06  2
AC118854|AC118854.7 Rattus norvegicus clone CH230-489M7, *** SEQUENCING IN PROGRESS ***, 23 unordered pieces.    62  2e-05  1
BU250502|BU250502.1 603404055F1 CSEQCHN35 Gallus gallus cDNA clone ChEST303m14 5', mRNA sequence.    60  6e-05  1
AL874934|AL874934.1 Xenopus tropicalis EST, clone TEgg115e08 5'.    60  6e-05  1
AL860480|AL860480.1 Xenopus tropicalis EST, clone TEgg047k20 5'.    60  6e-05  1
dna update 2003. 7.23
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q5XJD3) RecName: Full=Pre-mRNA 3'-end-processing factor FIP1; A...    77   1e-12
BC152155_1(BC152155|pid:none) Danio rerio zgc:103421, mRNA (cDNA...    77   1e-12
CR760290_1(CR760290|pid:none) Xenopus tropicalis finished cDNA, ...    75   5e-12
AY229892_1(AY229892|pid:none) Homo sapiens FIP1L1/PDGFRA fusion ...    75   5e-12
BC024016_1(BC024016|pid:none) Homo sapiens FIP1 like 1 (S. cerev...    75   5e-12
BC124845_1(BC124845|pid:none) Xenopus laevis hypothetical LOC494...    75   5e-12
BC135820_1(BC135820|pid:none) Xenopus tropicalis FIP1 like 1 (S....    75   5e-12
AJ720050_1(AJ720050|pid:none) Gallus gallus mRNA for hypothetica...    75   5e-12
AK005061_1(AK005061|pid:none) Mus musculus adult male liver cDNA...    75   5e-12
AK295737_1(AK295737|pid:none) Homo sapiens cDNA FLJ56493 complet...    75   5e-12
protein update 2009. 3.26
PSORT 

 psg: 0.75  gvh: 0.10  alm: 0.57  top: 0.53  tms: 0.00  mit: 0.19  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.20  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 44.0 %: cytoplasmic
	 40.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: mitochondrial

>> prediction for AFB235 is cyt
5' end seq. ID AFB235F
5' end seq. 
>AFB235F.Seq
AGTAATTAAGAAAAGTATAATACTCTACAATGAGTGAAGTTGAGGAACAAACTTTAATAA
AAGATGCATCAATGAATGAACCAACAGATAAAACCACCACTGAAGGCGATAATGGTGGTG
AAAATGAAAATGAAAATGAAAATATAGCAGAAGGTGGTGAAAATCAAGAAGATAATAATA
ATAATAATGAGGGGGAGGAAGAAGAAGAGGAGGAAGAGGAAGAGGAGGAAGAAGAAGAGG
AAGATGAAGAATCAGATGACGATGATGTTGTTGTACTTTTAGATCAAGAAAGTGTTGAAG
CATCATCGAGTAAACCTGGTGCAACATTTAGAACTACACCAAATAAATTTTCATATAGAA
ATCCATCATCGATTACACCTGGGTCAGGTGGTAAATATATGTTAACAAAACAAACACCAA
CAGGTGGTGGTGGTGGTGGTAGTGGTTTCAATTCAGCTAAATCAAATCAAAAAACAATCT
TTGAATTTGATATCGAATCATTTGAAGAGAAACCTTGGTTAAAACCAGGTGCTGATATTT
CAGATTATTTCAATTATAATTTCACTGAAGAAACTTGGAAAGCCTATTGTGAAAGAC---
-------
Length of 5' end seq. 597
3' end seq. ID AFB235Z
3' end seq. 
>AFB235Z.Seq
----------GGGGGTGAAAGAGAAAGAGAGAAGAGATAGAGATGATAGAGATAGAAGTG
AAAGAGAAAGATCGGATAGAGATAGAAGTGAAAGAGAAAGATCAGACAGAAGTGAAAGAG
AAAGATCAGATAGAGATAGAAGTGAAAGAGAAAGATCAGATAGAAGTGAAAGATCAGACA
GAGATAAAACAAGTAGTAGTAGTAGTAGTAGTAATAATAATAGTAGTTCATCAACAAGAG
GTAGTGATAGATATGATAGAGAAAGAGGGGGTGATAGAGATAGAACCTCTGAAAGTAGTA
GTAGAGGGAGTGATAGAGATAGAGATGATTATAAAAGTAGAAGTAGTAGTAATACTGGAG
GTAGCAGTAGTAGTTTAAGATCAGACAGAGATTCAAGAACACCAAGTAATACAAGTAGTA
ACTACTCCTCTTCTAATCCCTCTTCTTCTTCCTCCTCCTCAGATTATAAAAGAAAGAATT
ATAATAC
Length of 3' end seq. 477
Connected seq. ID AFB235P
Connected seq. 
>AFB235P.Seq
AGTAATTAAGAAAAGTATAATACTCTACAATGAGTGAAGTTGAGGAACAAACTTTAATAA
AAGATGCATCAATGAATGAACCAACAGATAAAACCACCACTGAAGGCGATAATGGTGGTG
AAAATGAAAATGAAAATGAAAATATAGCAGAAGGTGGTGAAAATCAAGAAGATAATAATA
ATAATAATGAGGGGGAGGAAGAAGAAGAGGAGGAAGAGGAAGAGGAGGAAGAAGAAGAGG
AAGATGAAGAATCAGATGACGATGATGTTGTTGTACTTTTAGATCAAGAAAGTGTTGAAG
CATCATCGAGTAAACCTGGTGCAACATTTAGAACTACACCAAATAAATTTTCATATAGAA
ATCCATCATCGATTACACCTGGGTCAGGTGGTAAATATATGTTAACAAAACAAACACCAA
CAGGTGGTGGTGGTGGTGGTAGTGGTTTCAATTCAGCTAAATCAAATCAAAAAACAATCT
TTGAATTTGATATCGAATCATTTGAAGAGAAACCTTGGTTAAAACCAGGTGCTGATATTT
CAGATTATTTCAATTATAATTTCACTGAAGAAACTTGGAAAGCCTATTGTGAAAGAC---
-------GGGGGTGAAAGAGAAAGAGAGAAGAGATAGAGATGATAGAGATAGAAGTGAAA
GAGAAAGATCGGATAGAGATAGAAGTGAAAGAGAAAGATCAGACAGAAGTGAAAGAGAAA
GATCAGATAGAGATAGAAGTGAAAGAGAAAGATCAGATAGAAGTGAAAGATCAGACAGAG
ATAAAACAAGTAGTAGTAGTAGTAGTAGTAATAATAATAGTAGTTCATCAACAAGAGGTA
GTGATAGATATGATAGAGAAAGAGGGGGTGATAGAGATAGAACCTCTGAAAGTAGTAGTA
GAGGGAGTGATAGAGATAGAGATGATTATAAAAGTAGAAGTAGTAGTAATACTGGAGGTA
GCAGTAGTAGTTTAAGATCAGACAGAGATTCAAGAACACCAAGTAATACAAGTAGTAACT
ACTCCTCTTCTAATCCCTCTTCTTCTTCCTCCTCCTCAGATTATAAAAGAAAGAATTATA
ATAC
Length of connected seq. 1074
Full length Seq ID -
Full length Seq. -
Length of full length seq. -