Contig : dd_Smed_v6_702_0_1 S. mediterranea

Id  dd_Smed_v6_702_0_1 Length  4112    Open in Genome Browser

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Planmine Rnai Result Displayer

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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
NP_776945.1 Bos taurus collagen, type I, alpha 2 2.0E-31 3297-3995 699 1
XP_005909757.1 Bos mutus collagen, type I, alpha 2 2.0E-31 3297-3995 699 1
XP_005985745.1 Pantholops hodgsonii collagen, type I, alpha 2 2.0E-31 3297-3995 699 1

11 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 1.1E-5 3114-3284 171 1
SM00038 SMART IPR000885 Fibrillar collagens C-terminal domain 2.8E-34 3339-3995 657 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 4.8E-6 2313-2483 171 1
PS51461 PROFILE IPR000885 Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. 47.456 3324-3995 672 1
PTHR24023:SF351 PANTHER VIKING 3.6E-232 210-3995 3786 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 1.5E-7 240-410 171 1
PF01410 PFAM IPR000885 Fibrillar collagen C-terminal domain 1.4E-53 3378-3992 615 1
PTHR24023 PANTHER FAMILY NOT NAMED 3.6E-232 210-3995 3786 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.2E-7 2052-2222 171 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.3E-5 2952-3110 159 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.1E-7 1860-2018 159 1

14 ORFs

Contig Location Length Strand Sequence
144-3998 3855 1
1966-2472 507 1
1120-1425 306 1
3138-3443 306 -1
3212-3379 168 -1
3453-3605 153 -1
2806-2937 132 1
3103-3234 132 1
1095-1226 132 -1
1522-1650 129 1
3496-3612 117 1
364-477 114 1
652-765 114 1
2681-2788 108 -1

2 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF316865 1.5E-99 3 332.3 0.4686284 240-2166 1927 1
TF323987 2.7E-118 3 395.9 0.47519454 2040-3993 1954 1
 

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)