Contig : dd_Smed_v6_4873_0_1 S. mediterranea

Id  dd_Smed_v6_4873_0_1 Length  880    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
NP_727960.1 Drosophila melanogaster Dorsal switch protein 1 7.0E-47 83-607 525 1
NP_002119.1 Homo sapiens high mobility group box 1 1.0E-41 122-604 483 1
NP_034569.1 Mus musculus high mobility group box 1 1.0E-41 122-604 483 1

14 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
SSF47095 SSF IPR009071 HMG-box 5.89E-24 119-349 231 1
PF09011 PFAM IPR009071 HMG-box domain 4.3E-20 128-340 213 1
SSF47095 SSF IPR009071 HMG-box 1.7E-23 347-601 255 1
G3DSA:1.10.30.10 GENE3D IPR009071 DNA Binding (I), subunit A 1.9E-24 131-340 210 1
G3DSA:1.10.30.10 GENE3D IPR009071 DNA Binding (I), subunit A 5.8E-21 395-601 207 1
PF00505 PFAM IPR009071 HMG (high mobility group) box 6.1E-21 401-598 198 1
PR00886 PRINTS High mobility group (HMG1/HMG2) protein signature 5.46E-14 227-292 66 1
PR00886 PRINTS High mobility group (HMG1/HMG2) protein signature 5.46E-14 500-556 57 1
PR00886 PRINTS High mobility group (HMG1/HMG2) protein signature 5.46E-14 446-499 54 1
SM00398 SMART IPR009071 high mobility group 2.0E-18 131-346 216 1
SM00398 SMART IPR009071 high mobility group 9.3E-22 398-601 204 1
PS50118 PROFILE IPR009071 HMG boxes A and B DNA-binding domains profile. 19.065 401-598 198 1
PS50118 PROFILE IPR009071 HMG boxes A and B DNA-binding domains profile. 16.464 134-343 210 1
PTHR13711 PANTHER SWI/SNF-RELATED CHROMATIN BINDING PROTEIN 4.8E-62 107-598 492 1

6 ORFs

Contig Location Length Strand Sequence
107-670 564 1
336-503 168 1
459-620 162 -1
41-202 162 -1
745-879 135 -1
731-835 105 1

1 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF328989 8.0E-4 2 16.9 0.4034091 243-597 355 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)