Contig : dd_Smed_v6_840_0_1 S. mediterranea

Id  dd_Smed_v6_840_0_1 Length  4410    Open in Genome Browser

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Genes

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SequenceFeatures

3 Blast SequenceFeatures

Blast Target Species Blast Description evalue Contig Location Length Strand
NP_034060.2 Mus musculus collagen, type III, alpha 1 4.0E-32 3619-4239 621 1
NP_000079.2 Homo sapiens collagen, type I, alpha 1 2.0E-14 571-1722 1152 1
XP_006025957.1 Alligator sinensis collagen, type I, alpha 2 1.0E-37 3622-4239 618 1

11 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 6.0E-9 475-642 168 1
PTHR24023 PANTHER FAMILY NOT NAMED 1.1E-246 475-4239 3765 1
PS51461 PROFILE IPR000885 Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. 46.454 3568-4239 672 1
SM00038 SMART IPR000885 Fibrillar collagens C-terminal domain 3.1E-28 3586-4239 654 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 4.4E-6 937-1098 162 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.1E-8 2089-2256 168 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.1E-8 781-948 168 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.5E-7 1477-1650 174 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.0E-7 631-801 171 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 5.2E-8 3361-3531 171 1
PF01410 PFAM IPR000885 Fibrillar collagen C-terminal domain 4.2E-53 3625-4236 612 1

22 ORFs

Contig Location Length Strand Sequence
361-4242 3882 1
2742-3137 396 -1
2336-2713 378 1
1572-1850 279 -1
1869-2084 216 -1
3701-3910 210 1
729-935 207 -1
40-216 177 -1
2789-2959 171 1
1889-2050 162 1
176-328 153 -1
137-286 150 1
3700-3849 150 -1
899-1039 141 1
1520-1660 141 1
4271-4408 138 -1
4135-4263 129 -1
1394-1516 123 1
4101-4217 117 -1
575-688 114 1
3203-3307 105 1
2975-3076 102 1

1 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF316865 1.2E-106 1 355.9 0.40498868 474-2259 1786 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)