SHD580
Library SH
(Link to library)
Clone ID SHD580
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11747-1
Original site URL
Representative seq. ID SHD580P
(Link to Original site)
Representative DNA sequence
>SHD580 (SHD580Q) /CSM/SH/SHD5-D/SHD580Q.Seq.d/
GTGTGTTGTTGTGTATTGTGTAAATAATAATAATAAAAAAAATAAAAAAGAATTATTAAA
ACAATTTATAAATTAATTAACTTTTAAATCTATTAACACTCAAACTACTTTTTTTTATAA
AAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAATAATAAATTAAAAAAATAAAAAA
AATACTCATTATAAATTATTAAAATATACAATTTAAACCAAAAAAAAAAXXXXXXXXXXT
CAGCGGCATGAACCCAATCACCACCATGCGTAGTGATGACAACCATTTACTCTCTTTCCA
ATTCCTTTTGGATTGCATGGAATTTAGATCTTCAAAACTTTTAATTCAATCTGCTCAAAC
CGTTAGTAAGAATTATAAAAAATCAAAAGAATCATTCACAGCATGGAATCAATCTTTAGA
GATTTTAATTCATTTGGCTAAAGCTCACACTGAAACTATCATCCTTCAAAAGTTTATTGA
AAAAATTCAATCTGAAAAGGATCTCGAATTGGCTTCCATCCTAAAGAAACTTTGCCAACT
CTATGGTCTTTACATCATTAGAGAGGATTTCGAATTTCTTNGAAGATAGTA
sequence update 2002.10.25
Translated Amino Acid sequence
vllciv*iiiikkikkny*nnl*in*llnlltlkllffikk*knkkikk*knnklkk*kk
ysl*IIKIYNLNQKK---

---SGMNPITTMRSDDNHLLSFQFLLDCMEFRSSKLLIQSAQTVSKNYKKSKESFTAWNQ
SLEILIHLAKAHTETIILQKFIEKIQSEKDLELASILKKLCQLYGLYIIREDFEFLXR*


Translated Amino Acid sequence (All Frames)
Frame A:
vcccvlck****kk*kriiktiyklinf*iy*hsnyffl*knkkikk*knkkiin*knkk
nthykllkyti*tkkk---

---saa*tqsppcvvmttiyslsnsfwiawnldlqnf*fnllkplvriiknqknhsqhgi
nl*rf*fiwlkltlklssfksllkkfnlkrisnwlps*rnfansmvftslerisnfxeds

Frame B:
cvvvycvnnnnkknkkellkqfin*ltfksintqttffykkikk*knkkikk**ikkikk
iliiny*niqfkpkkk---

---qrhepnhhha***qpftlfpipfglhgi*ifktfnsicsnr**el*kikriihsmes
ifrdfnsfg*ssh*nyhpskvy*knsi*kgsrigfhpketlptlwslhh*rgfrisxkiv

Frame C:
vllciv*iiiikkikkny*nnl*in*llnlltlkllffikk*knkkikk*knnklkk*kk
ysl*IIKIYNLNQKK---

---SGMNPITTMRSDDNHLLSFQFLLDCMEFRSSKLLIQSAQTVSKNYKKSKESFTAWNQ
SLEILIHLAKAHTETIILQKFIEKIQSEKDLELASILKKLCQLYGLYIIREDFEFLXR*

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

SHD580 (SHD580Q) /CSM/SH/SHD5-D/SHD580Q.Seq.d/ 692 0.0
CHO517 (CHO517Q) /CSM/CH/CHO5-A/CHO517Q.Seq.d/ 668 0.0
CHG686 (CHG686Q) /CSM/CH/CHG6-D/CHG686Q.Seq.d/ 668 0.0
AHO723 (AHO723Q) /CSM/AH/AHO7-A/AHO723Q.Seq.d/ 662 0.0
VHF141 (VHF141Q) /CSM/VH/VHF1-B/VHF141Q.Seq.d/ 545 e-154
SSF354 (SSF354Q) /CSM/SS/SSF3-C/SSF354Q.Seq.d/ 38 0.15
VFK678 (VFK678Q) /CSM/VF/VFK6-D/VFK678Q.Seq.d/ 36 0.58
VFH785 (VFH785Q) /CSM/VF/VFH7-D/VFH785Q.Seq.d/ 36 0.58
SSJ150 (SSJ150Q) /CSM/SS/SSJ1-C/SSJ150Q.Seq.d/ 36 0.58
SSA713 (SSA713Q) /CSM/SS/SSA7-A/SSA713Q.Seq.d/ 36 0.58

own update 2004.12.25
Homology vs DNA

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

AC116305|AC116305.2 Dictyostelium discoideum chromosome 2 map 1005175-1418323 strain AX4, complete sequence. 42 9e-04 9
AC170317|AC170317.2 Bos taurus clone CH240-275H3, WORKING DRAFT SEQUENCE, 17 unordered pieces. 44 0.030 6
AC117075|AC117075.2 Dictyostelium discoideum chromosome 2 map 5201047-5455781 strain AX4, complete sequence. 38 0.031 9
AC116963|AC116963.2 Dictyostelium discoideum chromosome 2 map 4657875-4914984 strain AX4, complete sequence. 32 0.094 9
CQ807266|CQ807266.1 Sequence 716 from Patent WO2004035803. 38 0.11 3
CQ806992|CQ806992.1 Sequence 442 from Patent WO2004035803. 38 0.11 3
BG134889|BG134889.1 EST467781 tomato crown gall Lycopersicon esculentum cDNA clone cTOE18O14 5' sequence, mRNA sequence. 48 0.22 1
BG133245|BG133245.1 EST466137 tomato crown gall Lycopersicon esculentum cDNA clone cTOE11F20 5' sequence, mRNA sequence. 48 0.22 1
AW737853|AW737853.2 EST339280 tomato flower buds, anthesis, Cornell University Lycopersicon esculentum cDNA clone cTOD4B5 5', mRNA sequence. 48 0.22 1
AW737857|AW737857.2 EST339284 tomato flower buds, anthesis, Cornell University Lycopersicon esculentum cDNA clone cTOD4B15 5', mRNA sequence. 48 0.22 1
dna update 2006. 2. 4
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

AF051203_1(AF051203|pid:none) Picea mariana acyl-CoA oxidase hom... 80 5e-14
U66299_1(U66299|pid:none) Phalaenopsis sp. 'True Lady' acyl-CoA ... 75 2e-12
U77053_1(U77053|pid:none) Phalaenopsis cv. 'True Lady' acyl-CoA ... 75 2e-12
(O65201) RecName: Full=Acyl-coenzyme A oxidase 2, peroxisomal; ... 73 6e-12
AK317051_1(AK317051|pid:none) Arabidopsis thaliana AT5G65110 mRN... 73 6e-12
AF057043_1(AF057043|pid:none) Arabidopsis thaliana acyl-CoA oxid... 73 6e-12
(O64894) RecName: Full=Acyl-coenzyme A oxidase, peroxisomal; ... 72 1e-11
AF202987_1(AF202987|pid:none) Petroselinum crispum acyl-CoA oxid... 70 3e-11
AX155021_1(AX155021|pid:none) Sequence 67 from Patent WO0138484. 69 9e-11
AC117081_72(AC117081|pid:none) Dictyostelium discoideum chromoso... 59 7e-08
protein update 2009. 4.16
PSORT

psg: 0.84 gvh: 0.45 alm: 0.40 top: 0.53 tms: 0.00 mit: 0.33 mip: 0.05
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

44.0 %: nuclear
32.0 %: cytoplasmic
16.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: endoplasmic reticulum

>> prediction for SHD580 is nuc

5' end seq. ID SHD580F
5' end seq.
>SHD580F.Seq
GTGTGTTGTTGTGTATTGTGTAAATAATAATAATAAAAAAAATAAAAAAGAATTATTAAA
ACAATTTATAAATTAATTAACTTTTAAATCTATTAACACTCAAACTACTTTTTTTTATAA
AAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAATAATAAATTAAAAAAATAAAAAA
AATACTCATTATAAATTATTAAAATATACAATTTAAACCAAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 239
3' end seq. ID SHD580Z
3' end seq.
>SHD580Z.Seq
NNNNNNNNNNTCAGCGGCATGAACCCAATCACCACCATGCGTAGTGATGACAACCATTTA
CTCTCTTTCCAATTCCTTTTGGATTGCATGGAATTTAGATCTTCAAAACTTTTAATTCAA
TCTGCTCAAACCGTTAGTAAGAATTATAAAAAATCAAAAGAATCATTCACAGCATGGAAT
CAATCTTTAGAGATTTTAATTCATTTGGCTAAAGCTCACACTGAAACTATCATCCTTCAA
AAGTTTATTGAAAAAATTCAATCTGAAAAGGATCTCGAATTGGCTTCCATCCTAAAGAAA
CTTTGCCAACTCTATGGTCTTTACATCATTAGAGAGGATTTCGAATTTCTTNGAAGATAG
TA
Length of 3' end seq. 362
Connected seq. ID SHD580P
Connected seq.
>SHD580P.Seq
GTGTGTTGTTGTGTATTGTGTAAATAATAATAATAAAAAAAATAAAAAAGAATTATTAAA
ACAATTTATAAATTAATTAACTTTTAAATCTATTAACACTCAAACTACTTTTTTTTATAA
AAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAATAATAAATTAAAAAAATAAAAAA
AATACTCATTATAAATTATTAAAATATACAATTTAAACCAAAAAAAAAA----------T
CAGCGGCATGAACCCAATCACCACCATGCGTAGTGATGACAACCATTTACTCTCTTTCCA
ATTCCTTTTGGATTGCATGGAATTTAGATCTTCAAAACTTTTAATTCAATCTGCTCAAAC
CGTTAGTAAGAATTATAAAAAATCAAAAGAATCATTCACAGCATGGAATCAATCTTTAGA
GATTTTAATTCATTTGGCTAAAGCTCACACTGAAACTATCATCCTTCAAAAGTTTATTGA
AAAAATTCAATCTGAAAAGGATCTCGAATTGGCTTCCATCCTAAAGAAACTTTGCCAACT
CTATGGTCTTTACATCATTAGAGAGGATTTCGAATTTCTTNGAAGATAGTA
Length of connected seq. 581
Full length Seq ID -
Full length Seq. -
Length of full length seq. -