Contig : dd_Smed_v6_9565_0_1 S. mediterranea

Id  dd_Smed_v6_9565_0_1 Length  3715    Open in Genome Browser

J Browse Displayer

Planmine Rnai Result Displayer

Planmine Anatomy Displayer

Planmine Cell Type Displayer

Planmine Timeseries Result Displayer

Planmine Regeneration Time Course Displayer

Homologue Displayer

Organism Field Displayer

Genes

GO Displayer

SequenceFeatures

3 Blast SequenceFeatures

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 SequenceFeatures

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

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 SequenceFeatures

 

Other

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)