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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
SSH123
Library SS
(Link to library)
Clone ID SSH123
Atlas ID
NBRP ID
dictyBase ID
Link to Contig Contig-U01765-1|Contig-U16448-1
Original site URL
Representative seq. ID SSH123P
(Link to Original site)
Representative DNA sequence 
>SSH123 (SSH123Q) /CSM/SS/SSH1-A/SSH123Q.Seq.d/
TTTTTTTTTTAAAATTTTTCTTTTTTATTTTTATAGCTATTAATTATATATTATTTTTTT
TTTTATATAAAAAAAACTTTATTAAAAAAAAAAAAAAAACTAAAATGTCACCAAGACCAG
AGAGTATCAAGAAAGTAATGGATGTATTAGGTGATTTTAATCCATCAGAAGATAAAATTA
AGAAAACATTGGGTATAGACGAAGATGAAATGAGGATGATTAACGAAGAGAAAAACACCG
TAATTTCACCAGCAAAAGATAGAATCCCAATAAATAGAAAATTAACTAAAAAAGCTCAAG
ATACATTAGGAATTAATTTATCAAAAGAAAAATTAATGGATGTTTTAGGAGTTGATGAAA
ATACAATAAATTGTGCAXXXXXXXXXXCAAACTTTATCATTTGGTTATATTGTTTCTAGT
AGTACTGTAATTACATTTACTCAAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACT
CAATTATATTTAACAATAATAATAATAATATTAATAATAATAATAATATTAATAAAAATT
ATTTATTTTATTTTATATTCAATTATTTAAAAA
sequence update 1998. 9.10
Translated Amino Acid sequence 
FFLKFFFFIFIAINYILFFFLYKKNFIKKKKKTKMSPRPESIKKVMDVLGDFNPSEDKIK
KTLGIDEDEMRMINEEKNTVISPAKDRIPINRKLTKKAQDTLGINLSKEKLMDVLGVDEN
TINCA---

---QTLSFGYIVSSSTVITFTQI*kkkkkkkkktqlyltiiiiiliiiiilikiiyfily
sii*k
Translated Amino Acid sequence (All Frames) 
Frame A:
fff*nfsflfl*lliiyyfffyikktllkkkkklkchqdqrvsrk*wmy*vilihqkikl
rkhwv*tkmk*g*ltkrktp*fhqqkiesq*ien*lkklkih*eliyqkkn*wmf*elmk
iq*iv---

---QTLSFGYIVSSSTVITFTQI*kkkkkkkkktqlyltiiiiiliiiiilikiiyfily
sii*k

Frame B:
fffkiflfyfysy*lyiifffi*kkly*kkkkn*nvtktreyqesngcir*f*sirr*n*
enigyrrr*nedd*rrekhrnftskr*npnk*kin*kssryirn*fikrkingcfrs**k
ynklc---

---klyhlvilflvvl*lhllkfkkkkkkkkkklnyi*q****y*****y**klfilfyi
qlfk

Frame C:
FFLKFFFFIFIAINYILFFFLYKKNFIKKKKKTKMSPRPESIKKVMDVLGDFNPSEDKIK
KTLGIDEDEMRMINEEKNTVISPAKDRIPINRKLTKKAQDTLGINLSKEKLMDVLGVDEN
TINCA---

---nfiiwlycf**ycnyiysnlkkkkkkkkknsiifnnnnnninnnnninknylfyfif
nylk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH123 (SSH123Q) /CSM/SS/SSH1-A/SSH123Q.Seq.d/                        632   e-180
VSF746 (VSF746Q) /CSM/VS/VSF7-B/VSF746Q.Seq.d/                        331   7e-90
SSM763 (SSM763Q) /CSM/SS/SSM7-C/SSM763Q.Seq.d/                        121   1e-26
SSL549 (SSL549Q) /CSM/SS/SSL5-C/SSL549Q.Seq.d/                        121   1e-26
SSL332 (SSL332Q) /CSM/SS/SSL3-B/SSL332Q.Seq.d/                        121   1e-26
SSK593 (SSK593Q) /CSM/SS/SSK5-D/SSK593Q.Seq.d/                        121   1e-26
SSJ139 (SSJ139Q) /CSM/SS/SSJ1-B/SSJ139Q.Seq.d/                        121   1e-26
SSI526 (SSI526Q) /CSM/SS/SSI5-B/SSI526Q.Seq.d/                        121   1e-26
SSI441 (SSI441Q) /CSM/SS/SSI4-B/SSI441Q.Seq.d/                        121   1e-26
SSI318 (SSI318Q) /CSM/SS/SSI3-A/SSI318Q.Seq.d/                        121   1e-26
own update 2004.12.25
Homology vs DNA 

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

AC115684|AC115684.2 Dictyostelium discoideum chromosome 2 map 3108975-3191114 strain AX4, complete sequence.   454   e-144  7
AX344558|AX344558.1 Sequence 9 from Patent WO0200932.              40   0.004  10
AC107736|AC107736.10 Mus musculus chromosome 7, clone RP23-354B2, complete sequence.    44   0.025  8
AC020641|AC020641.8 Homo sapiens chromosome 10 clone RP11-222A11, complete sequence.    44   0.048  4
AJ235270|AJ235270.1 Rickettsia prowazekii strain Madrid E, complete genome; segment 1/4.    36   0.088  9
BX649617|BX649617.4 Mouse DNA sequence from clone RP23-344M13 on chromosome X.    34   0.093  6
AE011382|AE011382.1 Leptospira interrogans serovar lai str. 56601 chromosome I, section 191 of 397 of the complete sequence.    38   0.16   3
AC116960|AC116960.2 Dictyostelium discoideum chromosome 2 map complement(1004496-821614) strain AX4, complete sequence.    32   0.16   9
AL445565|AL445565.1 Mycoplasma pulmonis (strain UAB CTIP) complete genome; segment 3/3.    40   0.17   9
AX346701|AX346701.1 Sequence 1772 from Patent WO0200928.           34   0.19   4
dna update 2004. 2.13
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC115684_18(AC115684|pid:none) Dictyostelium discoideum chromoso...   181   2e-44
AY813396_1(AY813396|pid:none) Schistosoma japonicum SJCHGC09371 ...    33   4.1
AM778916_22(AM778916|pid:none) Microcystis aeruginosa PCC 7806 g...    33   6.9
AP009256_715(AP009256|pid:none) Bifidobacterium adolescentis ATC...    33   6.9
CP001111_3566(CP001111|pid:none) Stenotrophomonas maltophilia R5...    32   9.0
CP001207_21(CP001207|pid:none) Borrelia burgdorferi ZS7 plasmid ...    32   9.0
protein update 2009. 1.31
PSORT 

 psg: 1.03  gvh: 0.32  alm: 0.19  top: 0.93  tms: 0.07  mit: 0.36  mip: 0.07
 nuc: 0.08  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: 1.00  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: 1.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 44.0 %: nuclear
	 32.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  8.0 %: Golgi
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for SSH123 is nuc
5' end seq. ID SSH123F
5' end seq. 
>SSH123F.Seq
TTTTTTTTTTAAAATTTTTCTTTTTTATTTTTATAGCTATTAATTATATATTATTTTTTT
TTTTATATAAAAAAAACTTTATTAAAAAAAAAAAAAAAACTAAAATGTCACCAAGACCAG
AGAGTATCAAGAAAGTAATGGATGTATTAGGTGATTTTAATCCATCAGAAGATAAAATTA
AGAAAACATTGGGTATAGACGAAGATGAAATGAGGATGATTAACGAAGAGAAAAACACCG
TAATTTCACCAGCAAAAGATAGAATCCCAATAAATAGAAAATTAACTAAAAAAGCTCAAG
ATACATTAGGAATTAATTTATCAAAAGAAAAATTAATGGATGTTTTAGGAGTTGATGAAA
ATACAATAAATTGTGCA----------
Length of 5' end seq. 377
3' end seq. ID SSH123Z
3' end seq. 
>SSH123Z.Seq
----------CAAACTTTATCATTTGGTTATATTGTTTCTAGTAGTACTGTAATTACATT
TACTCAAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACTCAATTATATTTAACAAT
AATAATAATAATATTAATAATAATAATAATATTAATAAAAATTATTTATTTTATTTTATA
TTCAATTATTTAAAAA
Length of 3' end seq. 186
Connected seq. ID SSH123P
Connected seq. 
>SSH123P.Seq
TTTTTTTTTTAAAATTTTTCTTTTTTATTTTTATAGCTATTAATTATATATTATTTTTTT
TTTTATATAAAAAAAACTTTATTAAAAAAAAAAAAAAAACTAAAATGTCACCAAGACCAG
AGAGTATCAAGAAAGTAATGGATGTATTAGGTGATTTTAATCCATCAGAAGATAAAATTA
AGAAAACATTGGGTATAGACGAAGATGAAATGAGGATGATTAACGAAGAGAAAAACACCG
TAATTTCACCAGCAAAAGATAGAATCCCAATAAATAGAAAATTAACTAAAAAAGCTCAAG
ATACATTAGGAATTAATTTATCAAAAGAAAAATTAATGGATGTTTTAGGAGTTGATGAAA
ATACAATAAATTGTGCA----------CAAACTTTATCATTTGGTTATATTGTTTCTAGT
AGTACTGTAATTACATTTACTCAAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACT
CAATTATATTTAACAATAATAATAATAATATTAATAATAATAATAATATTAATAAAAATT
ATTTATTTTATTTTATATTCAATTATTTAAAAA
Length of connected seq. 563
Full length Seq ID -
Full length Seq. -
Length of full length seq. -