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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
CHJ550
Library CH
(Link to library)
Clone ID CHJ550
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14989-1
Original site URL
Representative seq. ID CHJ550P
(Link to Original site)
Representative DNA sequence 
>CHJ550 (CHJ550Q) /CSM/CH/CHJ5-C/CHJ550Q.Seq.d/
ATTAACTTTTTTATAAAAAATACTCAAGAAAAATTTCACACATAACAAAATTTTTATTAA
TATTGTCAACAAATATTAAATATTAAATATTAAAATTCAGAATTAAAATTAAATAGTATA
AAGAAAAAAAAAAATAAGGTAAAAAAAAAAXXXXXXXXXXATTAACTTTTTTATAAAAAA
NACTCAAGAAAAATTTCACACATAACAAAATTTTTATTAATATTGNCAACAAATATTAAA
TATTAAATANTAAAATTCAAAAATAAAATTTAANAGGAAAAAAAA
sequence update 2002.10.25
Translated Amino Acid sequence 
inffikntqekfht*qnfy*ycqqilniky*NSELKLNSIKKKKNKVKKK---

---INFFIKXTQEKFHT*qnfy*yxqqilnikx*nskikfxrkk
Translated Amino Acid sequence (All Frames) 
Frame A:
inffikntqekfht*qnfy*ycqqilniky*NSELKLNSIKKKKNKVKKK---

---INFFIKXTQEKFHT*qnfy*yxqqilnikx*nskikfxrkk

Frame B:
ltfl*kilkknfthnkifinivnky*ilnikiqn*n*iv*rkkkir*kk---

---ltfl*kxlkknfthnkifinixnky*ilnxkiqk*nlxgkk

Frame C:
*lfykkysrkishitkfllilstniky*ilkfrikik*ykekkk*gkkk---

---*lfykkxsrkishitkfllilxtniky*ixkfknki*xekk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHS211 (CHS211Q) /CSM/CH/CHS2-A/CHS211Q.Seq.d/                        139   3e-32
CHJ550 (CHJ550Q) /CSM/CH/CHJ5-C/CHJ550Q.Seq.d/                        139   3e-32
CHH670 (CHH670Q) /CSM/CH/CHH6-C/CHH670Q.Seq.d/                        133   2e-30
AFG833 (AFG833Q) /CSM/AF/AFG8-B/AFG833Q.Seq.d/                        133   2e-30
VHP363 (VHP363Q) /CSM/VH/VHP3-C/VHP363Q.Seq.d/                        131   6e-30
SFE605 (SFE605Q) /CSM/SF/SFE6-A/SFE605Q.Seq.d/                        115   4e-25
VFL741 (VFL741Q) /CSM/VF/VFL7-B/VFL741Q.Seq.d/                        101   6e-21
SFI494 (SFI494Q) /CSM/SF/SFI4-D/SFI494Q.Seq.d/                        101   6e-21
SFD619 (SFD619Q) /CSM/SF/SFD6-A/SFD619Q.Seq.d/                         94   1e-18
VFD391 (VFD391Q) /CSM/VF/VFD3-D/VFD391Q.Seq.d/                         90   2e-17
own update 2002.11.23
Homology vs DNA 

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

AE014123|AE014123.1 Buchnera aphidicola str. Sg (Schizaphis graminum) section 48 of 57of the complete genome.    34   2e-07  7
BM615995|BM615995.1 17000687147636 A.Gam.ad.cDNA.blood1 Anopheles gambiae cDNA clone 19600449728790 5', mRNA sequence.    32   6e-04  3
BM610691|BM610691.1 17000687112101 A.Gam.ad.cDNA.blood1 Anopheles gambiae cDNA clone 19600449733782 5', mRNA sequence.    32   0.002  3
AX344573|AX344573.1 Sequence 24 from Patent WO0200932.             34   0.002  9
AE014831|AE014831.1 Plasmodium falciparum 3D7 chromosome 10 section 3 of 7 of the complete sequence.    36   0.002  7
AC023881|AC023881.6 Homo sapiens BAC clone RP11-108C2 from 2, complete sequence.    34   0.002  6
BM610376|BM610376.1 17000687110678 A.Gam.ad.cDNA.blood1 Anopheles gambiae cDNA clone 19600449712509 5', mRNA sequence.    42   0.005  2
AE014841|AE014841.1 Plasmodium falciparum 3D7 chromosome 11 section 6 of 8 of the complete sequence.    38   0.005  8
BP514418|BP514418.1 Hydra magnipapillata cDNA, clone:hydmg014secrev_096.    28   0.006  4
X04465|X04465.1 Marchantia polymorpha chloroplast genome DNA.      38   0.006  7
dna update 2005. 1.15
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3039690
Number of Hits to DB: 176,639,082
protein update 2009. 4. 3
PSORT 

 psg: 0.18  gvh: 0.14  alm: 0.72  top: 0.53  tms: 0.00  mit: 0.17  mip: 0.00
 nuc: 0.28  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 

	 60.0 %: nuclear
	 24.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for CHJ550 is nuc
5' end seq. ID CHJ550F
5' end seq. 
>CHJ550F.Seq
ATTAACTTTTTTATAAAAAATACTCAAGAAAAATTTCACACATAACAAAATTTTTATTAA
TATTGTCAACAAATATTAAATATTAAATATTAAAATTCAGAATTAAAATTAAATAGTATA
AAGAAAAAAAAAAATAAGGTAAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 160
3' end seq. ID CHJ550Z
3' end seq. 
>CHJ550Z.Seq
NNNNNNNNNNATTAACTTTTTTATAAAAAANACTCAAGAAAAATTTCACACATAACAAAA
TTTTTATTAATATTGNCAACAAATATTAAATATTAAATANTAAAATTCAAAAATAAAATT
TAANAGGAAAAAAAA
Length of 3' end seq. 135
Connected seq. ID CHJ550P
Connected seq. 
>CHJ550P.Seq
ATTAACTTTTTTATAAAAAATACTCAAGAAAAATTTCACACATAACAAAATTTTTATTAA
TATTGTCAACAAATATTAAATATTAAATATTAAAATTCAGAATTAAAATTAAATAGTATA
AAGAAAAAAAAAAATAAGGTAAAAAAAAAA----------ATTAACTTTTTTATAAAAAA
NACTCAAGAAAAATTTCACACATAACAAAATTTTTATTAATATTGNCAACAAATATTAAA
TATTAAATANTAAAATTCAAAAATAAAATTTAANAGGAAAAAAAA
Length of connected seq. 275
Full length Seq ID -
Full length Seq. -
Length of full length seq. -