Transcript : dd_Smed_v6_9565_0_1 S. mediterranea

Length  3715     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_001942763.2 Acyrthosiphon pisum fibril-forming collagen alpha chain-like 3.0E-33 1488-3659 2172 1
XP_002119981.2 Ciona intestinalis collagen alpha-2(I) chain-like 7.0E-32 1575-3659 2085 1
XP_004918875.1 Xenopus (Silurana) tropicalis collagen, type XI, alpha 1 9.0E-31 1485-3656 2172 1

7 Domain Sequence Features

Domain Type InterPro Domain Description Score Contig Location Length Strand
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.7E-7 1485-1613 129 1
PTHR24023 PANTHER FAMILY NOT NAMED 1.9E-93 1482-2750 1269 1
PS51461 PROFILE IPR000885 Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. 15.395 2862-3656 795 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 3.3E-8 1629-1799 171 1
SM00038 SMART IPR000885 Fibrillar collagens C-terminal domain 2.8E-6 2859-3656 798 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 3.7E-8 1782-1946 165 1
PF01410 PFAM IPR000885 Fibrillar collagen C-terminal domain 6.5E-15 2925-3404 480 1

Genomics

Predicted Gene Displayer

J Browse Displayer

Homologue Displayer

7 ORFs

Contig Location Length Strand Sequence
3-3659 3657 1
3151-3381 231 -1
2356-2523 168 1
2279-2446 168 -1
170-313 144 -1
533-655 123 -1
3433-3549 117 1

0 Treefam Sequence Features

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)