Transcript : dd_Smed_v6_1125_0_1 S. mediterranea

Length  1962     Open in Genome Browser Source  Transcriptome assembly (Trinity v2.2.0)
Published Transcripts 
EST: AY067846.1, clone H.63.12f unknown mRNA sequence
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Organism Field Displayer

Association Displayer

Sequence Features

GO Displayer

3 Blast Sequence Features

Blast Target Species Blast Description evalue Contig Location Length Strand
NP_056393.2 Homo sapiens LSM14A mRNA processing body assembly factor 6.0E-32 136-408 273 1
XP_008403756.1 Poecilia reticulata LSM14A, SCD6 homolog A (S. cerevisiae) 3.0E-34 136-591 456 1
XP_008295663.1 Stegastes partitus LSM14A, SCD6 homolog A (S. cerevisiae) 1.0E-33 136-441 306 1

7 Domain Sequence Features

Domain Type InterPro Domain Description Score Contig Location Length Strand
PS51512 PROFILE IPR025762 DFDF domain profile. 9.341 1087-1194 108 1
SSF50182 SSF IPR010920 Sm-like ribonucleoproteins 3.43E-28 139-363 225 1
PS51513 PROFILE IPR025761 FFD box profile. 14.874 1255-1302 48 1
PF09532 PFAM IPR019050 FDF domain 2.9E-12 1108-1386 279 1
PTHR13586 PANTHER SCD6 PROTEIN-RELATED 7.2E-66 133-1617 1485 1
PF12701 PFAM IPR025609 Scd6-like Sm domain 9.9E-37 133-408 276 1
PTHR13586:SF0 PANTHER GH08269P 7.2E-66 133-1617 1485 1

Genomics

Predicted Gene Displayer

J Browse Displayer

Homologue Displayer

6 ORFs

Contig Location Length Strand Sequence
133-1620 1488 1
896-1150 255 1
1367-1570 204 -1
1493-1669 177 1
1701-1820 120 -1
1196-1303 108 1

3 Treefam Sequence Features

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF313514 3.1E-77 1 261.2 0.72986746 141-1572 1432 1
TF329702 0.0076 1 13.2 0.58154947 417-1557 1141 1
TF317210 0.0038 1 15.4 0.49745157 531-1506 976 1

Expression Information

Planmine Rnai Result Displayer

Planmine Anatomy Displayer

Planmine Cell Type Displayer

Planmine Single Cell Displayer

Planmine Timeseries Result Displayer

Planmine Regeneration Time Course Displayer

Planmine Additional Displayer




To cite PlanMine, please refer to the following publication:

Rozanski, A., Moon, H., Brandl, H., Martín-Durán, J. M., Grohme, M., Hüttner, K., Bartscherer, K., Henry, I., & Rink, J. C.
PlanMine 3.0—improvements to a mineable resource of flatworm biology and biodiversity
Nucleic Acids Research, gky1070. doi:10.1093/nar/gky1070 (2018)