Contig : dd_Smed_v6_402_0_1 S. mediterranea

Id  dd_Smed_v6_402_0_1 Length  5425    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
XP_006501035.1 Mus musculus collagen, type XI, alpha 1 9.0E-33 4504-5199 696 1
NP_542197.3 Homo sapiens collagen, type XI, alpha 1 2.0E-31 4504-5199 696 1
XP_003198223.2 Danio rerio collagen alpha-1(XI) chain-like 4.0E-34 4504-5199 696 1

14 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PTHR24023 PANTHER FAMILY NOT NAMED 1.1E-296 832-5226 4395 1
G3DSA:2.60.120.200 GENE3D IPR013320   4.4E-5 688-993 306 1
PF02210 PFAM IPR001791 Laminin G domain 2.2E-4 712-921 210 1
PF01410 PFAM IPR000885 Fibrillar collagen C-terminal domain 8.8E-50 4555-5223 669 1
PS50025 PROFILE IPR001791 Laminin G domain profile. 12.174 547-1053 507 1
PS51461 PROFILE IPR000885 Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. 50.891 4507-5226 720 1
PTHR24023:SF351 PANTHER VIKING 1.1E-296 832-5226 4395 1
SM00210 SMART IPR001791 Thrombospondin N-terminal -like domains. 1.1E-7 484-1011 528 1
SSF49899 SSF IPR008985 Concanavalin A-like lectins/glucanases 5.6E-19 574-1053 480 1
SM00038 SMART IPR000885 Fibrillar collagens C-terminal domain 2.0E-29 4504-5226 723 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 1.7E-6 1789-1950 162 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 9.1E-6 1444-1596 153 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.8E-6 1627-1788 162 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.1E-7 1318-1485 168 1

25 ORFs

Contig Location Length Strand Sequence
364-5229 4866 1
4128-4568 441 -1
1616-1963 348 1
540-872 333 -1
3146-3424 279 1
1992-2252 261 -1
2705-2956 252 -1
3471-3695 225 -1
51-269 219 -1
2678-2893 216 1
2-205 204 -1
574-771 198 -1
1455-1625 171 -1
289-459 171 -1
2-169 168 1
1400-1567 168 1
2000-2161 162 1
1086-1232 147 -1
2562-2696 135 -1
2300-2434 135 -1
169-300 132 1
4965-5084 120 -1
3584-3700 117 1
1-111 111 -1
3704-3811 108 1

2 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF323987 1.7E-244 1 814.7 0.758894 1110-5226 4117 1
TF316865 1.0E-125 1 419.1 0.44313365 1110-3513 2404 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)