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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
SSH630
Library SS
(Link to library)
Clone ID SSH630
Atlas ID
NBRP ID
dictyBase ID
Link to Contig Contig-U12011-1
Original site URL
Representative seq. ID SSH630P
(Link to Original site)
Representative DNA sequence 
>SSH630 (SSH630Q) /CSM/SS/SSH6-B/SSH630Q.Seq.d/
AAATATAATTTTTTATTTTTTCTATTTCTTTGTTCAAATAATATTTAAACAAAAAAAAAA
AAAAAAGAAATGAAAAATATAAAAATAATAATAATTTTAATATCATTAATATTTTTGATT
AGTATAAGTAATAGTGAAATATTTGGAAGAAGTGAACAATGTCCATTAATAAGTTTATTA
AAGATTGGTGAAGATTGCCAATCAAGTTCAGATTGTGAATATCCAAATATTTGTAAAAAT
AATAAATGTCAAGAGATTGTCCAAGTTGGTGATCCATGTGAATCTGATGAAGAATGTGGA
TTGTTTTTTAATAATATTGGTAAATGTATTAGTGGTACTTGTGATATAAACTTAAAGAAT
GGTGXXXXXXXXXXTGAACATTTTGATCAANGAAAATCAGCATACTATAAATCTTTAAAA
TGTGATACTGATGTTGGTTCCCTTGTAAATCCAGATGCAGCAAATCCAAACTATAATGGT
GGTTCAAATCGTAAAACTAATCAAAAAAGATCAAATTCAAATTCAAATTATTTAATTTCA
TTATCATTGACTTTAACTTTAATTTTAATTTTATTAATTTTATTTTGAAAATAATATTAA
ATAAAAAAAAAAATATTTCAAAANTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
sequence update 1999. 1.17
Translated Amino Acid sequence 
kynflfflflcsnni*TKKKKKEMKNIKIIIILISLIFLISISNSEIFGRSEQCPLISLL
KIGEDCQSSSDCEYPNICKNNKCQEIVQVGDPCESDEECGLFFNNIGKCISGTCDINLKN
G---

---EHFDQXKSAYYKSLKCDTDVGSLVNPDAANPNYNGGSNRKTNQKRSNSNSNYLISLS
LTLTLILILLILF*k*y*ikkkifqx*kkkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
kynflfflflcsnni*TKKKKKEMKNIKIIIILISLIFLISISNSEIFGRSEQCPLISLL
KIGEDCQSSSDCEYPNICKNNKCQEIVQVGDPCESDEECGLFFNNIGKCISGTCDINLKN
G---

---*tf*sxkisil*ifkm*y*cwfpcksrcskskl*wwfks*n*skkikfkfklfnfii
idfnfnfnfinfilkiilnkkkniskxkkkkkkkkkk

Frame B:
niifyffyffvqiifkqkkkkkk*ki*k***f*yh*yf*lv*vivkyleevnnvh**vy*
rlvkianqvqivniqifvkiinvkrlsklvihvnlmknvdcfliilvnvlvvlvi*t*rm
v---

---EHFDQXKSAYYKSLKCDTDVGSLVNPDAANPNYNGGSNRKTNQKRSNSNSNYLISLS
LTLTLILILLILF*k*y*ikkkifqx*kkkkkkkkk

Frame C:
i*ffifsislfk*ylnkkkkkrnekyknnnnfniinifd*yk***niwkk*tmsinkfik
dw*rlpikfrl*iskyl*k**msrdcpsw*sm*i**rmwivf**yw*my*wyl*yklkew
---

---nilixenqhtinl*nvilmlvpl*iqmqqiqtimvvqivklikkdqiqiqii*fhyh
*l*l*f*fy*fyfennik*kkkyfkxkkkkkkkkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH630 (SSH630Q) /CSM/SS/SSH6-B/SSH630Q.Seq.d/                        720   0.0
SSH254 (SSH254Q) /CSM/SS/SSH2-C/SSH254Q.Seq.d/                        268   1e-70
CHB239 (CHB239Q) /CSM/CH/CHB2-B/CHB239Q.Seq.d/                        268   1e-70
SFJ707 (SFJ707Q) /CSM/SF/SFJ7-A/SFJ707Q.Seq.d/                        262   6e-69
SSL805 (SSL805Q) /CSM/SS/SSL8-A/SSL805Q.Seq.d/                        260   2e-68
SFE545 (SFE545Q) /CSM/SF/SFE5-B/SFE545Q.Seq.d/                        178   7e-44
CFC225 (CFC225Q) /CSM/CF/CFC2-B/CFC225Q.Seq.d/                        155   1e-36
SFJ584 (SFJ584Q) /CSM/SF/SFJ5-D/SFJ584Q.Seq.d/                         84   3e-15
VHP532 (VHP532Q) /CSM/VH/VHP5-B/VHP532Q.Seq.d/                         40   0.041
SHJ848 (SHJ848Q) /CSM/SH/SHJ8-B/SHJ848Q.Seq.d/                         40   0.041
own update 2004.12.25
Homology vs DNA 

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

AC115577|AC115577.2 Dictyostelium discoideum chromosome 2 map 4657875-4914984 strain AX4, complete sequence.   492  0.0  3
BH014723|BH014723.1 TDGBQ11TH cTOG Lycopersicon esculentum genomic clone cTOG11B21, DNA sequence.    50  0.002  2
AC106507|AC106507.6 Rattus norvegicus clone CH230-206D13, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    38  0.008  6
AF322449|AF322449.1 Homo sapiens chromosome 17 clone BAC347P24 map 17p13.3, *** SEQUENCING IN PROGRESS ***, 26 unordered pieces.    52  0.009  1
AL607022|AL607022.11 Human DNA sequence from clone RP11-323N10 on chromosome 10.    50  0.035  1
AC117076|AC117076.2 Dictyostelium discoideum chromosome 2 map 5862124-6045772 strain AX4, complete sequence.    38  0.036  5
AC006280|AC006280.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 1 ordered pieces.    38  0.049  7
AE014847|AE014847.1 Plasmodium falciparum 3D7 chromosome 12, section 4 of 9 of the complete sequence.    36  0.051  9
M20571|M20571.1 D.melanogaster enhancer of split mRNA, complete cds.    40  0.062  3
AC116977|AC116977.2 Dictyostelium discoideum chromosome 2 map 5515173-5817331 strain AX4, complete sequence.    32  0.091  7
dna update 2003. 7.28
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC115680_32(AC115680|pid:none) Dictyostelium discoideum chromoso...    52   1e-05
EF066645_1(EF066645|pid:none) Trichinella spiralis clone T42B12 ...    49   2e-04
AC115680_25(AC115680|pid:none) Dictyostelium discoideum chromoso...    44   0.003
AM746676_9366(AM746676|pid:none) Sorangium cellulosum 'So ce 56'...    40   0.059
AM746676_2300(AM746676|pid:none) Sorangium cellulosum 'So ce 56'...    39   0.13
(Q55FQ4) RecName: Full=Protein psiB; Flags: Precursor;                 38   0.29
CP001131_2828(CP001131|pid:none) Anaeromyxobacter sp. K, complet...    38   0.29
(P41951) RecName: Full=Prion-like-(Q/N-rich) domain-bearing prot...    36   0.85
AC115607_13(AC115607|pid:none) Dictyostelium discoideum chromoso...    35   2.5
AE001362_162(AE001362|pid:none) Plasmodium falciparum 3D7 chromo...    35   2.5
protein update 2009. 6.13
PSORT 

 psg: 0.80  gvh: 0.70  alm: 0.15  top: 0.00  tms: 0.13  mit: 0.26  mip: 0.00
 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: 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: 1.00  m3b: 0.00  m_ : 0.00 

	 40.0 %: endoplasmic reticulum
	 24.0 %: mitochondrial
	 12.0 %: plasma membrane
	  8.0 %: extracellular, including cell wall
	  4.0 %: Golgi
	  4.0 %: nuclear
	  4.0 %: vesicles of secretory system
	  4.0 %: cytoplasmic

>> prediction for SSH630 is end
5' end seq. ID SSH630F
5' end seq. 
>SSH630F.Seq
AAATATAATTTTTTATTTTTTCTATTTCTTTGTTCAAATAATATTTAAACAAAAAAAAAA
AAAAAAGAAATGAAAAATATAAAAATAATAATAATTTTAATATCATTAATATTTTTGATT
AGTATAAGTAATAGTGAAATATTTGGAAGAAGTGAACAATGTCCATTAATAAGTTTATTA
AAGATTGGTGAAGATTGCCAATCAAGTTCAGATTGTGAATATCCAAATATTTGTAAAAAT
AATAAATGTCAAGAGATTGTCCAAGTTGGTGATCCATGTGAATCTGATGAAGAATGTGGA
TTGTTTTTTAATAATATTGGTAAATGTATTAGTGGTACTTGTGATATAAACTTAAAGAAT
GGTG----------
Length of 5' end seq. 364
3' end seq. ID SSH630Z
3' end seq. 
>SSH630Z.Seq
----------TGAACATTTTGATCAANGAAAATCAGCATACTATAAATCTTTAAAATGTG
ATACTGATGTTGGTTCCCTTGTAAATCCAGATGCAGCAAATCCAAACTATAATGGTGGTT
CAAATCGTAAAACTAATCAAAAAAGATCAAATTCAAATTCAAATTATTTAATTTCATTAT
CATTGACTTTAACTTTAATTTTAATTTTATTAATTTTATTTTGAAAATAATATTAAATAA
AAAAAAAAATATTTCAAAANTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Length of 3' end seq. 282
Connected seq. ID SSH630P
Connected seq. 
>SSH630P.Seq
AAATATAATTTTTTATTTTTTCTATTTCTTTGTTCAAATAATATTTAAACAAAAAAAAAA
AAAAAAGAAATGAAAAATATAAAAATAATAATAATTTTAATATCATTAATATTTTTGATT
AGTATAAGTAATAGTGAAATATTTGGAAGAAGTGAACAATGTCCATTAATAAGTTTATTA
AAGATTGGTGAAGATTGCCAATCAAGTTCAGATTGTGAATATCCAAATATTTGTAAAAAT
AATAAATGTCAAGAGATTGTCCAAGTTGGTGATCCATGTGAATCTGATGAAGAATGTGGA
TTGTTTTTTAATAATATTGGTAAATGTATTAGTGGTACTTGTGATATAAACTTAAAGAAT
GGTG----------TGAACATTTTGATCAANGAAAATCAGCATACTATAAATCTTTAAAA
TGTGATACTGATGTTGGTTCCCTTGTAAATCCAGATGCAGCAAATCCAAACTATAATGGT
GGTTCAAATCGTAAAACTAATCAAAAAAGATCAAATTCAAATTCAAATTATTTAATTTCA
TTATCATTGACTTTAACTTTAATTTTAATTTTATTAATTTTATTTTGAAAATAATATTAA
ATAAAAAAAAAAATATTTCAAAANTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Length of connected seq. 646
Full length Seq ID -
Full length Seq. -
Length of full length seq. -