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Dicty_cDB
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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
SFD120
Library SF
(Link to library)
Clone ID SFD120
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16283-1
Original site URL
Representative seq. ID SFD120P
(Link to Original site)
Representative DNA sequence 
>SFD120 (SFD120Q) /CSM/SF/SFD1-A/SFD120Q.Seq.d/
ATAGTCCTGATTATTACATCTTTTTAAAACAAAAATGTTTGTTGCTAGAAGATTATCTAA
AAACATCACACAAATTAGCAAAACTGCAGTTAAAACCTCAGTTCGTGCTGTCCCAGTTAG
AGGTTTCAAAACTACTTCAGTTAACCAAGCCGCAGCACCAGCACCAAAAACTTCACAAGA
AAAAGAATACTTTGAAAAGAATAAGAGTCTTTTAGATAAAGAATCAAATGAAGAATCAAC
TGAAGTTGATTATTCAAAATTAAACGAAAATCAAGGTGTTGTACATCAAGTAATTGGTGC
CGTCGTTGATGTTTACTTCCCACACGGTAAATTACCATACATCAATGATGCTTTAATTGT
AGATGATTTCCAAGCTGAAAATGTCGAAAAAGTAATTGAAGATCTTAACAACCCATCTTT
AAAGGGTAAAATCGATTTCAACAATGTTCCAATTTCAAACATTAAATTAGTTTTAGAAGT
TGCTCAACATTTAGGTGATGGTATCGTTCGTTGTGTCGCTCTCGATATTACTGATGGTTT
AGGTCGTGGTGCACTCGTCCTCAACACTGGTTCCCCATTGATGGTTCCAGTCGGTCAAGC
TACCCTTGGTCGTATTATGAACGTTATTXXXXXXXXXXAAGNTTTATTNAAAAAANNAAT
TAACCTCCCAAACNNAAAATAATTANATAANATTCCAANACTAAGAAAAAAAAAAATAAA
AAAAAAAATAAATGTGTTCAATCACT
sequence update 2001. 6. 1
Translated Amino Acid sequence 
*s*LLHLFKTKMFVARRLSKNITQISKTAVKTSVRAVPVRGFKTTSVNQAAAPAPKTSQE
KEYFEKNKSLLDKESNEESTEVDYSKLNENQGVVHQVIGAVVDVYFPHGKLPYINDALIV
DDFQAENVEKVIEDLNNPSLKGKIDFNNVPISNIKLVLEVAQHLGDGIVRCVALDITDGL
GRGALVLNTGSPLMVPVGQATLGRIMNVI---

---KXYXKXXLTSQTXNNXIXFQX*ekkk*kkk*mcsit
Translated Amino Acid sequence (All Frames) 
Frame A:
ivliitsf*nknvcc*kii*khhtn*qncs*nlssccps*rfqnyfs*psrststknftr
kril*ke*esfr*rik*rin*s*lfkikrksrcctssnwcrr*cllptr*itihq*cfnc
r*fps*kcrksn*rs*qpifkg*nrfqqcsnfkh*isfrscstfr*wyrslcrsryy*wf
rswctrpqhwfpidgssrssypwsyyery---

---KXYXKXXLTSQTXNNXIXFQX*ekkk*kkk*mcsit

Frame B:
*s*LLHLFKTKMFVARRLSKNITQISKTAVKTSVRAVPVRGFKTTSVNQAAAPAPKTSQE
KEYFEKNKSLLDKESNEESTEVDYSKLNENQGVVHQVIGAVVDVYFPHGKLPYINDALIV
DDFQAENVEKVIEDLNNPSLKGKIDFNNVPISNIKLVLEVAQHLGDGIVRCVALDITDGL
GRGALVLNTGSPLMVPVGQATLGRIMNVI---

---xfixkxn*ppkxkiix*xsxtkkkknkkknkcvqs

Frame C:
spdyyiflkqkcllledylktshklaklqlkpqfvlsqlevskllqltkpqhqhqklhkk
kntlkrirvf*iknqmknqlkliiqn*tkikvlyik*lvpslmftshtvnyhtsmml*l*
misklkmskk*lkiltthl*rvksistmfqfqtln*f*kllni*vmvsfvvslsillmv*
vvvhssstlvph*wfqsvklplvvl*tl---

---xlxkkxinlpnxk*lxxipxlrkkkikkkinvfnh
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SFD120 (SFD120Q) /CSM/SF/SFD1-A/SFD120Q.Seq.d/                       1285   0.0
VHQ261 (VHQ261Q) /CSM/VH/VHQ2-C/VHQ261Q.Seq.d/                       1245   0.0
VHM838 (VHM838Q) /CSM/VH/VHM8-B/VHM838Q.Seq.d/                       1245   0.0
VHM626 (VHM626Q) /CSM/VH/VHM6-B/VHM626Q.Seq.d/                       1245   0.0
VHM150 (VHM150Q) /CSM/VH/VHM1-C/VHM150Q.Seq.d/                       1245   0.0
VHK507 (VHK507Q) /CSM/VH/VHK5-A/VHK507Q.Seq.d/                       1245   0.0
VHK118 (VHK118Q) /CSM/VH/VHK1-A/VHK118Q.Seq.d/                       1245   0.0
VHI543 (VHI543Q) /CSM/VH/VHI5-B/VHI543Q.Seq.d/                       1245   0.0
VHG646 (VHG646Q) /CSM/VH/VHG6-B/VHG646Q.Seq.d/                       1245   0.0
VHE627 (VHE627Q) /CSM/VH/VHE6-B/VHE627Q.Seq.d/                       1245   0.0
own update 2004.12.25
Homology vs DNA 

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

BW044273|BW044273.1 Ciona intestinalis cDNA, clone:cibd055e03, 5' end, single read.    52   4e-09  3
AX109755|AX109755.1 Sequence 488 from Patent WO0123604.            66   8e-08  2
AX109756|AX109756.1 Sequence 489 from Patent WO0123604.            66   8e-08  2
AX109735|AX109735.1 Sequence 468 from Patent WO0123604.            64   3e-06  1
AX109738|AX109738.1 Sequence 471 from Patent WO0123604.            64   3e-06  1
BI309690|BI309690.1 EST531100 GPOD Medicago truncatula cDNA clone pGPOD-13H10 5' end, mRNA sequence.    36   3e-06  4
CA483394|CA483394.1 LuP12010A06R LuP12 Linum usitatissimum cDNA clone LuP12010A06R, mRNA sequence.    36   5e-05  3
BF642435|BF642435.1 NF063B10IN1F1079 Insect herbivory Medicago truncatula cDNA clone NF063B10IN 5', mRNA sequence.    36   2e-04  3
AW694826|AW694826.2 NF080D07ST1F1061 Developing stem Medicago truncatula cDNA clone NF080D07ST 5', mRNA sequence.    36   3e-04  3
AW980903|AW980903.1 EST392056 GVN Medicago truncatula cDNA clone pGVN-60E11, mRNA sequence.    36   5e-04  3
dna update 2003.12.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q1MRB8) RecName: Full=ATP synthase subunit beta;          EC=3....   103   5e-21
(A1VFJ5) RecName: Full=ATP synthase subunit beta;          EC=3....    98   2e-19
(P38482) RecName: Full=ATP synthase subunit beta, mitochondrial;...    96   9e-19
EF085070_1(EF085070|pid:none) Picea sitchensis clone WS02728_O12...    96   1e-18
(P17614) RecName: Full=ATP synthase subunit beta, mitochondrial;...    96   1e-18
(P42467) RecName: Full=ATP synthase subunit beta;          EC=3....    95   2e-18
(Q313W0) RecName: Full=ATP synthase subunit beta;          EC=3....    95   3e-18
(P42469) RecName: Full=ATP synthase subunit beta;          EC=3....    95   3e-18
(A0LLF8) RecName: Full=ATP synthase subunit beta;          EC=3....    95   3e-18
(A7HIX7) RecName: Full=ATP synthase subunit beta;          EC=3....    94   3e-18
protein update 2009. 5.23
PSORT 

 psg: 0.65  gvh: 0.36  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.55  mip: 0.07
 nuc: 0.00  erl: 0.00  erm: 0.00  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 

	 76.0 %: mitochondrial
	 16.0 %: cytoplasmic
	  8.0 %: nuclear

>> prediction for SFD120 is mit
5' end seq. ID SFD120F
5' end seq. 
>SFD120F.Seq
ATAGTCCTGATTATTACATCTTTTTAAAACAAAAATGTTTGTTGCTAGAAGATTATCTAA
AAACATCACACAAATTAGCAAAACTGCAGTTAAAACCTCAGTTCGTGCTGTCCCAGTTAG
AGGTTTCAAAACTACTTCAGTTAACCAAGCCGCAGCACCAGCACCAAAAACTTCACAAGA
AAAAGAATACTTTGAAAAGAATAAGAGTCTTTTAGATAAAGAATCAAATGAAGAATCAAC
TGAAGTTGATTATTCAAAATTAAACGAAAATCAAGGTGTTGTACATCAAGTAATTGGTGC
CGTCGTTGATGTTTACTTCCCACACGGTAAATTACCATACATCAATGATGCTTTAATTGT
AGATGATTTCCAAGCTGAAAATGTCGAAAAAGTAATTGAAGATCTTAACAACCCATCTTT
AAAGGGTAAAATCGATTTCAACAATGTTCCAATTTCAAACATTAAATTAGTTTTAGAAGT
TGCTCAACATTTAGGTGATGGTATCGTTCGTTGTGTCGCTCTCGATATTACTGATGGTTT
AGGTCGTGGTGCACTCGTCCTCAACACTGGTTCCCCATTGATGGTTCCAGTCGGTCAAGC
TACCCTTGGTCGTATTATGAACGTTATT----------
Length of 5' end seq. 628
3' end seq. ID SFD120Z
3' end seq. 
>SFD120Z.Seq
----------AAGNTTTATTNAAAAAANNAATTAACCTCCCAAACNNAAAATAATTANAT
AANATTCCAANACTAAGAAAAAAAAAAATAAAAAAAAAAATAAATGTGTTCAATCACT
Length of 3' end seq. 108
Connected seq. ID SFD120P
Connected seq. 
>SFD120P.Seq
ATAGTCCTGATTATTACATCTTTTTAAAACAAAAATGTTTGTTGCTAGAAGATTATCTAA
AAACATCACACAAATTAGCAAAACTGCAGTTAAAACCTCAGTTCGTGCTGTCCCAGTTAG
AGGTTTCAAAACTACTTCAGTTAACCAAGCCGCAGCACCAGCACCAAAAACTTCACAAGA
AAAAGAATACTTTGAAAAGAATAAGAGTCTTTTAGATAAAGAATCAAATGAAGAATCAAC
TGAAGTTGATTATTCAAAATTAAACGAAAATCAAGGTGTTGTACATCAAGTAATTGGTGC
CGTCGTTGATGTTTACTTCCCACACGGTAAATTACCATACATCAATGATGCTTTAATTGT
AGATGATTTCCAAGCTGAAAATGTCGAAAAAGTAATTGAAGATCTTAACAACCCATCTTT
AAAGGGTAAAATCGATTTCAACAATGTTCCAATTTCAAACATTAAATTAGTTTTAGAAGT
TGCTCAACATTTAGGTGATGGTATCGTTCGTTGTGTCGCTCTCGATATTACTGATGGTTT
AGGTCGTGGTGCACTCGTCCTCAACACTGGTTCCCCATTGATGGTTCCAGTCGGTCAAGC
TACCCTTGGTCGTATTATGAACGTTATT----------AAGNTTTATTNAAAAAANNAAT
TAACCTCCCAAACNNAAAATAATTANATAANATTCCAANACTAAGAAAAAAAAAAATAAA
AAAAAAAATAAATGTGTTCAATCACT
Length of connected seq. 736
Full length Seq ID -
Full length Seq. -
Length of full length seq. -