Transcript : dd_Smed_v6_6563_0_1 S. mediterranea

Length  4348     Open in Genome Browser Source  Transcriptome assembly (Trinity v2.2.0)
Published Transcripts 
mRNA: GU591867.1, pol polyprotein mRNA - partial cds
EST: AY066933.1, clone H.54.7b unknown mRNA sequence
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Organism Field Displayer

Association Displayer

Sequence Features

GO Displayer

3 Blast Sequence Features

Blast Target Species Blast Description evalue Contig Location Length Strand
XP_002431501.1 Pediculus humanus corporis enzymatic polyprotein, putative 1.0E-135 679-3153 2475 1
XP_003369623.1 Trichinella spiralis putative integrase core domain protein 9.0E-121 952-3315 2364 1
XP_002012399.1 Drosophila mojavensis GI11945 gene product from transcript GI11945-RA 2.0E-106 1015-3321 2307 1

24 Domain Sequence Features

Domain Type InterPro Domain Description Score Contig Location Length Strand
PTHR24559 PANTHER FAMILY NOT NAMED 7.9E-39 2587-3369 783 1
PTHR24559:SF165 PANTHER SUBFAMILY NOT NAMED 7.9E-39 2587-3369 783 1
G3DSA:3.30.70.270 GENE3D   9.4E-12 1432-1671 240 1
PF00078 PFAM IPR000477 Reverse transcriptase (RNA-dependent DNA polymerase) 4.9E-26 1195-1665 471 1
PF00077 PFAM IPR018061 Retroviral aspartyl protease 4.0E-9 514-810 297 1
SSF50630 SSF IPR021109 Acid proteases 4.22E-10 508-789 282 1
PS50878 PROFILE IPR000477 Reverse transcriptase (RT) catalytic domain profile. 18.162 1135-1665 531 1
SSF56672 SSF DNA/RNA polymerases 6.67E-138 973-2271 1299 1
PF00665 PFAM IPR001584 Integrase core domain 3.3E-23 2677-3015 339 1
G3DSA:2.40.70.10 GENE3D IPR021109 Acid Proteases 4.7E-4 511-612 102 1
SSF53098 SSF IPR012337 Ribonuclease H-like 5.06E-36 2677-3132 456 1
PS50994 PROFILE IPR001584 Integrase catalytic domain profile. 25.707 2644-3150 507 1
G3DSA:3.10.10.10 GENE3D HIV Type 1 Reverse Transcriptase, subunit A, domain 1 4.5E-27 1054-1428 375 1
G3DSA:3.30.420.10 GENE3D IPR012337   1.2E-32 2686-3156 471 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 9.735 56-103 48 1
SM00343 SMART IPR001878 zinc finger 3.0 2-40 39 1
SM00343 SMART IPR001878 zinc finger 0.011 56-103 48 1
SSF57756 SSF IPR001878 Retrovirus zinc finger-like domains 2.33E-8 5-103 99 1
SM00343 SMART IPR001878 zinc finger 1.2 110-157 48 1
PF00098 PFAM IPR001878 Zinc knuckle 7.5E-4 56-97 42 1
G3DSA:4.10.60.10 GENE3D IPR001878 HIV-1 Nucleocapsid Protein 9.6E-11 5-103 99 1
G3DSA:4.10.60.10 GENE3D IPR001878 HIV-1 Nucleocapsid Protein 2.2E-4 4263-4343 81 1
SSF57756 SSF IPR001878 Retrovirus zinc finger-like domains 1.92E-5 4242-4331 90 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 8.515 4281-4322 42 1

Genomics

Predicted Gene Displayer

J Browse Displayer

Homologue Displayer

17 ORFs

Contig Location Length Strand Sequence
358-3411 3054 1
3600-4346 747 1
861-1283 423 -1
372-746 375 -1
2988-3338 351 -1
2-343 342 1
4021-4347 327 -1
1800-1985 186 -1
157-339 183 -1
3557-3733 177 -1
1353-1526 174 -1
660-809 150 1
4208-4348 141 -1
2622-2759 138 -1
2-139 138 -1
3168-3290 123 1
1560-1664 105 -1

0 Treefam Sequence Features

Expression Information

Planmine Rnai Result Displayer

Planmine Anatomy Displayer

Planmine Cell Type Displayer

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To cite PlanMine, please refer to the following publication:

Rozanski, A., Moon, H., Brandl, H., Martín-Durán, J. M., Grohme, M., Hüttner, K., Bartscherer, K., Henry, I., & Rink, J. C.
PlanMine 3.0—improvements to a mineable resource of flatworm biology and biodiversity
Nucleic Acids Research, gky1070. doi:10.1093/nar/gky1070 (2018)