Contig : dd_Smed_v6_1070_0_1 S. mediterranea

Id  dd_Smed_v6_1070_0_1 Length  4228    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_003745135.1 Metaseiulus occidentalis collagen alpha-1(II) chain-like 4.0E-35 3031-4050 1020 1
XP_004923583.1 Bombyx mori collagen alpha-1(II) chain-like 4.0E-34 3379-4050 672 1
XP_004534844.1 Ceratitis capitata collagen alpha-1(II) chain-like 5.0E-31 3379-4050 672 1

11 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PS51461 PROFILE IPR000885 Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. 40.252 3409-4041 633 1
SM00038 SMART IPR000885 Fibrillar collagens C-terminal domain 1.1E-17 3418-4047 630 1
PTHR24023:SF362 PANTHER COLLAGEN ALPHA-1(XXVII) CHAIN 1.1E-244 205-4047 3843 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.8E-8 3196-3366 171 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 7.2E-8 313-483 171 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 9.0E-7 2125-2286 162 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 4.4E-8 1510-1680 171 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.5E-8 3070-3231 162 1
PF01391 PFAM IPR008160 Collagen triple helix repeat (20 copies) 2.3E-7 1924-2097 174 1
PF01410 PFAM IPR000885 Fibrillar collagen C-terminal domain 1.1E-44 3457-4044 588 1
PTHR24023 PANTHER FAMILY NOT NAMED 1.1E-244 205-4047 3843 1

14 ORFs

Contig Location Length Strand Sequence
175-4050 3876 1
831-1244 414 -1
2501-2905 405 -1
2157-2498 342 -1
275-580 306 -1
572-802 231 1
2186-2401 216 1
1301-1489 189 1
1760-1891 132 1
3720-3845 126 -1
50-169 120 -1
2546-2662 117 1
1148-1261 114 1
3833-3946 114 -1

2 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF316865 1.0E-102 1 342.9 0.4720908 1053-3048 1996 1
TF323987 8.9E-123 1 410.7 0.43803218 2127-3978 1852 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)