Contig : dd_Smed_v6_3718_0_2 S. mediterranea

Id  dd_Smed_v6_3718_0_2 Length  4390    Open in Genome Browser

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Genes

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SequenceFeatures

3 Blast SequenceFeatures

Blast Target Species Blast Description evalue Contig Location Length Strand
XP_002431501.1 Pediculus humanus corporis enzymatic polyprotein, putative 1.0E-127 526-3048 2523 1
XP_003369623.1 Trichinella spiralis putative integrase core domain protein 2.0E-118 574-2847 2274 1
XP_002012399.1 Drosophila mojavensis GI11945 gene product from transcript GI11945-RA 1.0E-110 535-2838 2304 1

19 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PS50878 PROFILE IPR000477 Reverse transcriptase (RT) catalytic domain profile. 16.973 748-1287 540 1
PS50994 PROFILE IPR001584 Integrase catalytic domain profile. 22.433 2359-2841 483 1
G3DSA:2.40.70.10 GENE3D IPR021109 Acid Proteases 7.8E-6 187-495 309 1
SSF50630 SSF IPR021109 Acid proteases 1.51E-12 184-492 309 1
PTHR10178:SF283 PANTHER SUBFAMILY NOT NAMED 9.2E-34 184-996 813 1
G3DSA:3.30.420.10 GENE3D IPR012337   8.5E-31 2368-2820 453 1
PF00665 PFAM IPR001584 Integrase core domain 2.5E-21 2374-2709 336 1
G3DSA:3.30.70.270 GENE3D   2.1E-11 1048-1293 246 1
SSF56672 SSF DNA/RNA polymerases 2.05E-141 583-1887 1305 1
PF00077 PFAM IPR018061 Retroviral aspartyl protease 1.5E-8 187-492 306 1
SSF53098 SSF IPR012337 Ribonuclease H-like 4.81E-34 2371-2823 453 1
PF00078 PFAM IPR000477 Reverse transcriptase (RNA-dependent DNA polymerase) 2.6E-21 808-1287 480 1
PTHR10178 PANTHER GAG/POL/ENV POLYPROTEIN 9.2E-34 184-996 813 1
G3DSA:3.10.10.10 GENE3D HIV Type 1 Reverse Transcriptase, subunit A, domain 1 2.0E-28 706-1044 339 1
SSF57756 SSF IPR001878 Retrovirus zinc finger-like domains 2.79E-6 4072-4197 126 1
G3DSA:4.10.60.10 GENE3D IPR001878 HIV-1 Nucleocapsid Protein 1.7E-5 4081-4197 117 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 8.746 4096-4143 48 1
SM00343 SMART IPR001878 zinc finger 1.4 4150-4197 48 1
SM00343 SMART IPR001878 zinc finger 0.026 4096-4143 48 1

15 ORFs

Contig Location Length Strand Sequence
1-3093 3093 1
3268-4329 1062 1
276-557 282 -1
4073-4312 240 1
4184-4390 207 -1
1993-2196 204 -1
809-1009 201 -1
4009-4197 189 -1
1422-1604 183 -1
3845-4024 180 1
3192-3353 162 -1
2866-3006 141 -1
2474-2590 117 -1
1356-1460 105 1
1756-1857 102 -1

2 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF323003 3.6E-151 1 504.1 0.40273347 177-1944 1768 1
TF343122 2.4E-108 1 362.2 0.44646925 885-2844 1960 1
 

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0 Publications




To cite PlanMine, please refer to the following publication:

Brandl, H., Moon, H., Vila-Farré, M., Liu, S.-Y., Henry, I., & Rink, J. C.
PlanMine - a mineable resource of planarian biology and biodiversity.
Nucleic Acids Research, gkv1148. doi:10.1093/nar/gkv1148 (2015)