Transcript : dd_Smed_v6_8075_0_1 S. mediterranea

Length  5191     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
NP_031763.2 Mus musculus collagen, type V, alpha 2 2.0E-53 1449-4034 2586 1
NP_000384.2 Homo sapiens collagen, type V, alpha 2 3.0E-48 2094-4142 2049 1
XP_001942763.2 Acyrthosiphon pisum fibril-forming collagen alpha chain-like 1.0E-105 1341-5012 3672 1

13 Domain Sequence Features

Domain Type InterPro Domain Description Score Contig Location Length Strand
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.4E-8 1107-1277 171 1
PF01410 PFAM IPR000885 Fibrillar collagen C-terminal domain 3.9E-41 4347-5009 663 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 4.4E-7 1251-1418 168 1
SM00210 SMART IPR001791 Thrombospondin N-terminal -like domains. 8.5E-5 249-788 540 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.5E-7 1404-1574 171 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 3.3E-7 3789-3962 174 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 6.0E-9 3978-4139 162 1
SSF49899 SSF IPR008985 Concanavalin A-like lectins/glucanases 7.62E-15 390-725 336 1
PTHR24023:SF351 PANTHER VIKING 3.0E-275 609-5012 4404 1
SM00038 SMART IPR000885 Fibrillar collagens C-terminal domain 1.1E-13 4284-5012 729 1
PTHR24023 PANTHER FAMILY NOT NAMED 3.0E-275 609-5012 4404 1
G3DSA:2.60.120.200 GENE3D IPR013320   7.4E-6 411-686 276 1
PS51461 PROFILE IPR000885 Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. 44.331 4287-5012 726 1

Genomics

Predicted Gene Displayer

J Browse Displayer

Homologue Displayer

13 ORFs

Contig Location Length Strand Sequence
393-5015 4623 1
875-1222 348 -1
3031-3216 186 1
4001-4162 162 -1
1231-1383 153 -1
958-1101 144 1
1392-1535 144 -1
2113-2247 135 1
4911-5045 135 -1
1790-1912 123 -1
846-968 123 -1
1276-1389 114 1
3463-3576 114 1

1 Treefam Sequence Features

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF316865 2.3E-135 3 451.2 0.449817 897-3231 2335 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)