Transcript : dd_Smed_v6_62_0_1 S. mediterranea

Length  815     Open in Genome Browser Source  Transcriptome assembly (Trinity v2.2.0)
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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_001469754.1 Leishmania infantum JPCM5 putative universal minicircle sequence binding protein (UMSBP) 9.0E-31 92-610 519 1
XP_001686738.1 Leishmania major strain Friedlin putative universal minicircle sequence binding protein 5.0E-30 92-610 519 1
XP_003874510.1 Leishmania mexicana MHOM/GT/2001/U1103 putative universal minicircle sequence binding protein (UMSBP) 9.0E-29 92-610 519 1

25 Domain Sequence Features

Domain Type InterPro Domain Description Score Contig Location Length Strand
G3DSA:4.10.60.10 GENE3D IPR001878 HIV-1 Nucleocapsid Protein 3.7E-14 491-607 117 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 10.559 335-379 45 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 11.252 413-457 45 1
SSF57756 SSF IPR001878 Retrovirus zinc finger-like domains 3.72E-13 305-460 156 1
SM00343 SMART IPR001878 zinc finger 1.7E-4 332-379 48 1
SM00343 SMART IPR001878 zinc finger 5.7E-6 203-250 48 1
PF00098 PFAM IPR001878 Zinc knuckle 3.5E-8 494-541 48 1
PF00098 PFAM IPR001878 Zinc knuckle 6.7E-7 332-379 48 1
PF00098 PFAM IPR001878 Zinc knuckle 3.6E-8 119-166 48 1
SSF57756 SSF IPR001878 Retrovirus zinc finger-like domains 3.66E-13 470-604 135 1
SM00343 SMART IPR001878 zinc finger 2.1E-5 494-541 48 1
SM00343 SMART IPR001878 zinc finger 1.6E-5 119-166 48 1
SM00343 SMART IPR001878 zinc finger 8.3E-5 410-457 48 1
PF00098 PFAM IPR001878 Zinc knuckle 2.8E-7 410-454 45 1
G3DSA:4.10.60.10 GENE3D IPR001878 HIV-1 Nucleocapsid Protein 9.5E-17 98-250 153 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 10.905 494-541 48 1
SSF57756 SSF IPR001878 Retrovirus zinc finger-like domains 2.44E-13 107-256 150 1
SM00343 SMART IPR001878 zinc finger 5.3E-4 560-607 48 1
PF00098 PFAM IPR001878 Zinc knuckle 1.2E-6 557-601 45 1
PTHR23002 PANTHER ZINC FINGER CCHC DOMAIN CONTAINING PROTEIN 1.1E-43 101-607 507 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 11.285 122-166 45 1
PF00098 PFAM IPR001878 Zinc knuckle 3.6E-8 203-250 48 1
G3DSA:4.10.60.10 GENE3D IPR001878 HIV-1 Nucleocapsid Protein 2.5E-15 311-457 147 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 11.416 206-250 45 1
PS50158 PROFILE IPR001878 Zinc finger CCHC-type profile. 10.197 560-607 48 1

Genomics

Predicted Gene Displayer

J Browse Displayer

Homologue Displayer

4 ORFs

Contig Location Length Strand Sequence
101-610 510 1
141-620 480 1
200-589 390 -1
495-635 141 -1

1 Treefam Sequence Features

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF316974 3.9E-44 2 151.3 0.5018405 198-606 409 1

Expression Information

Planmine Rnai Result Displayer

Planmine Anatomy Displayer

Planmine Cell Type Displayer

Planmine Single Cell Displayer

Planmine Timeseries Result Displayer

Planmine Regeneration Time Course Displayer

Planmine Additional Displayer




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)