SHF685
Library SH
(Link to library)
Clone ID SHF685
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U10883-1
Original site URL
Representative seq. ID SHF685P
(Link to Original site)
Representative DNA sequence
>SHF685 (SHF685Q) /CSM/SH/SHF6-D/SHF685Q.Seq.d/
GAGATCTAGAAAAAACTGATGATGAAATTGAAGAAGAATTAACATCCGATGATGATGATG
ATGATGATGATGATGATGAAACTGAAGAAATTGAGGAAGAAGAAATTGAAGTTGAAGTTG
AAAATGAAAAAAAATTAGAATCACCAATTGTTCAATCAGTTAAAAATGGTGTACCAACAA
TATTAGGTTCACCAAAGAAACAACATTTATTAGATTCACCAAAAAAAGATTCACCAAGAA
AATCTCAACATTTAGATTCACCAAGGAAATTACAACTTCAACAACAACAGCAAGXXXXXX
XXXXGGAGAATATTGTACTTATCTTTGTTAATGACTATTGTAACTATTATAGTATCCCAA
TTGATTCCATTCAAAAGGTAGTTCAATCCAATGAATCAATTGAATTCAAATTAAGATTTA
AAGCTTGGGATAGAAAAGAGGAATGGGTTGATC
sequence update 2002.10.25
Translated Amino Acid sequence
DLEKTDDEIEEELTSDDDDDDDDDDETEEIEEEEIEVEVENEKKLESPIVQSVKNGVPTI
LGSPKKQHLLDSPKKDSPRKSQHLDSPRKLQLQQQQQ---

---ENIVLIFVNDYCNYYSIPIDSIQKVVQSNESIEFKLRFKAWDRKEEWVD


Translated Amino Acid sequence (All Frames)
Frame A:
ei*kklmmklkkn*hpmmmmmmmmmmklkklrkkklklklkmkkn*nhqlfnqlkmvyqq
y*vhqrnniy*ihqkkihqenlni*ihqgnynfnnnsk---

---geyctylc**ll*ll*ypn*fhskgssiq*in*iqiki*slg*krgmg*

Frame B:
rsrkn***n*rrinir**********n*rn*grrn*s*s*k*kkiritncsis*kwctnn
irftkettfirftkkrftkkistfrftkeittsttta---

---ENIVLIFVNDYCNYYSIPIDSIQKVVQSNESIEFKLRFKAWDRKEEWVD

Frame C:
DLEKTDDEIEEELTSDDDDDDDDDDETEEIEEEEIEVEVENEKKLESPIVQSVKNGVPTI
LGSPKKQHLLDSPKKDSPRKSQHLDSPRKLQLQQQQQ---

---rilylsllmtivtiivsqlipfkr*fnpmnqlnsn*dlklgiekrngli

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

SHF685 (SHF685Q) /CSM/SH/SHF6-D/SHF685Q.Seq.d/ 531 e-150
SSG485 (SSG485Q) /CSM/SS/SSG4-D/SSG485Q.Seq.d/ 287 7e-77
SHF741 (SHF741Q) /CSM/SH/SHF7-B/SHF741Q.Seq.d/ 287 7e-77
SHA688 (SHA688Q) /CSM/SH/SHA6-D/SHA688Q.Seq.d/ 287 7e-77
CHR853 (CHR853Q) /CSM/CH/CHR8-C/CHR853Q.Seq.d/ 287 7e-77
CHH371 (CHH371Q) /CSM/CH/CHH3-C/CHH371Q.Seq.d/ 287 7e-77
CFF766 (CFF766Q) /CSM/CF/CFF7-C/CFF766Q.Seq.d/ 287 7e-77
AHM348 (AHM348Q) /CSM/AH/AHM3-B/AHM348Q.Seq.d/ 287 7e-77
AHH412 (AHH412Q) /CSM/AH/AHH4-A/AHH412Q.Seq.d/ 287 7e-77
AHF696 (AHF696Q) /CSM/AH/AHF6-D/AHF696Q.Seq.d/ 287 7e-77

own update 2004.12.25
Homology vs DNA

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

DN304994|DN304994.1 PL05007A2E05 cDNA from sexually mature hermaphodites Schmidtea mediterranea cDNA 3', mRNA sequence. 52 0.011 1
DN295438|DN295438.1 PL03019B2F09 cDNA from sexually mature hermaphodites Schmidtea mediterranea cDNA 5', mRNA sequence. 52 0.011 1
AC167176|AC167176.2 Bos taurus clone CH240-98C8, *** SEQUENCING IN PROGRESS ***, 17 unordered pieces. 52 0.011 1
CD748582|CD748582.1 rw39d02.y1 Heterodera glycines J4 Heterodera glycines cDNA 5', mRNA sequence. 48 0.17 1
CD340152|CD340152.1 StrPu536.003973 Sea urchin embryo 40hr gastrula stage cDNA library MPMGp536 Strongylocentrotus purpuratus cDNA clone CALTp536O2223;MPI_536_23O22 5', mRNA sequence. 48 0.17 1
AC180632|AC180632.1 Strongylocentrotus purpuratus clone R3-3090J9, WORKING DRAFT SEQUENCE, 15 unordered pieces. 48 0.17 1
AC180482|AC180482.1 Strongylocentrotus purpuratus clone R3-3100O20, WORKING DRAFT SEQUENCE, 29 unordered pieces. 48 0.17 1
AC177380|AC177380.1 Strongylocentrotus purpuratus clone R3-52O04, WORKING DRAFT SEQUENCE, 14 unordered pieces. 48 0.17 1
BH935296|BH935296.1 ode75g01.b1 B.oleracea002 Brassica oleracea genomic, DNA sequence. 48 0.17 1
BH475536|BH475536.1 BOHBA58TR BOHB Brassica oleracea genomic clone BOHBA58, DNA sequence. 48 0.17 1
dna update 2006. 3.20
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: 396,016,218
protein update 2009. 4.18
PSORT

psg: 0.75 gvh: 0.15 alm: 0.43 top: 0.53 tms: 0.00 mit: 0.07 mip: 0.00
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

48.0 %: nuclear
28.0 %: cytoplasmic
8.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: Golgi
4.0 %: mitochondrial
4.0 %: vesicles of secretory system

>> prediction for SHF685 is nuc

5' end seq. ID SHF685F
5' end seq.
>SHF685F.Seq
GAGATCTAGAAAAAACTGATGATGAAATTGAAGAAGAATTAACATCCGATGATGATGATG
ATGATGATGATGATGATGAAACTGAAGAAATTGAGGAAGAAGAAATTGAAGTTGAAGTTG
AAAATGAAAAAAAATTAGAATCACCAATTGTTCAATCAGTTAAAAATGGTGTACCAACAA
TATTAGGTTCACCAAAGAAACAACATTTATTAGATTCACCAAAAAAAGATTCACCAAGAA
AATCTCAACATTTAGATTCACCAAGGAAATTACAACTTCAACAACAACAGCAAGNNNNNN
NNNN
Length of 5' end seq. 304
3' end seq. ID SHF685Z
3' end seq.
>SHF685Z.Seq
NNNNNNNNNNGGAGAATATTGTACTTATCTTTGTTAATGACTATTGTAACTATTATAGTA
TCCCAATTGATTCCATTCAAAAGGTAGTTCAATCCAATGAATCAATTGAATTCAAATTAA
GATTTAAAGCTTGGGATAGAAAAGAGGAATGGGTTGATC
Length of 3' end seq. 159
Connected seq. ID SHF685P
Connected seq.
>SHF685P.Seq
GAGATCTAGAAAAAACTGATGATGAAATTGAAGAAGAATTAACATCCGATGATGATGATG
ATGATGATGATGATGATGAAACTGAAGAAATTGAGGAAGAAGAAATTGAAGTTGAAGTTG
AAAATGAAAAAAAATTAGAATCACCAATTGTTCAATCAGTTAAAAATGGTGTACCAACAA
TATTAGGTTCACCAAAGAAACAACATTTATTAGATTCACCAAAAAAAGATTCACCAAGAA
AATCTCAACATTTAGATTCACCAAGGAAATTACAACTTCAACAACAACAGCAAG------
----GGAGAATATTGTACTTATCTTTGTTAATGACTATTGTAACTATTATAGTATCCCAA
TTGATTCCATTCAAAAGGTAGTTCAATCCAATGAATCAATTGAATTCAAATTAAGATTTA
AAGCTTGGGATAGAAAAGAGGAATGGGTTGATC
Length of connected seq. 443
Full length Seq ID -
Full length Seq. -
Length of full length seq. -