Contig : dd_Smed_v6_11729_0_1 S. mediterranea

Id  dd_Smed_v6_11729_0_1 Length  2448    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_032800.2 Mus musculus poly(A) binding protein, cytoplasmic 1 0.0 102-2069 1968 1
NP_599180.1 Rattus norvegicus poly(A) binding protein, cytoplasmic 1 0.0 102-2069 1968 1
NP_957176.1 Danio rerio poly A binding protein, cytoplasmic 1 b 0.0 102-2069 1968 1

28 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PS51309 PROFILE IPR002004 Poly(A)-binding protein C-terminal (PABC) domain profile. 22.108 1839-2069 231 1
TIGR01628 TIGRFAMs IPR006515 PABP-1234: polyadenylate binding protein, human types 1, 2, 3, 4 family 1.9E-221 114-2057 1944 1
SM00361 SMART IPR003954 RNA recognition motif 3.2 966-1181 216 1
PS50102 PROFILE IPR000504 Eukaryotic RNA Recognition Motif (RRM) profile. 18.137 963-1193 231 1
PTHR24011 PANTHER FAMILY NOT NAMED 0.0 120-2111 1992 1
SSF63570 SSF IPR002004 PABC (PABP) domain 2.09E-38 1719-2072 354 1
PS50102 PROFILE IPR000504 Eukaryotic RNA Recognition Motif (RRM) profile. 16.995 114-347 234 1
SSF54928 SSF RNA-binding domain, RBD 1.22E-47 111-614 504 1
PS50102 PROFILE IPR000504 Eukaryotic RNA Recognition Motif (RRM) profile. 17.643 378-608 231 1
PF00658 PFAM IPR002004 Poly-adenylate binding protein, unique domain 5.6E-31 1845-2054 210 1
G3DSA:3.30.70.330 GENE3D IPR012677   6.0E-29 624-878 255 1
G3DSA:3.30.70.330 GENE3D IPR012677   1.3E-23 378-620 243 1
G3DSA:3.30.70.330 GENE3D IPR012677   2.3E-32 93-350 258 1
PF00076 PFAM IPR000504 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 1.4E-21 660-860 201 1
PF00076 PFAM IPR000504 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 1.4E-19 384-587 204 1
PF00076 PFAM IPR000504 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 2.0E-18 969-1172 204 1
PF00076 PFAM IPR000504 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 2.7E-19 120-329 210 1
G3DSA:3.30.70.330 GENE3D IPR012677   5.0E-30 924-1208 285 1
G3DSA:1.10.1900.10 GENE3D IPR002004 c-terminal domain of poly(a) binding protein 1.7E-33 1842-2075 234 1
SM00360 SMART IPR000504 RNA recognition motif 3.0E-24 966-1181 216 1
SM00360 SMART IPR000504 RNA recognition motif 8.9E-26 654-869 216 1
SSF54928 SSF RNA-binding domain, RBD 5.11E-49 651-1205 555 1
PTHR24011:SF45 PANTHER POLYADENYLATE-BINDING PROTEIN 0.0 120-2111 1992 1
SM00517 SMART IPR002004 C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein. 1.6E-35 1875-2063 189 1
PS50102 PROFILE IPR000504 Eukaryotic RNA Recognition Motif (RRM) profile. 19.638 651-881 231 1
SM00361 SMART IPR003954 RNA recognition motif 0.6 654-869 216 1
SM00360 SMART IPR000504 RNA recognition motif 1.7E-22 381-596 216 1
SM00360 SMART IPR000504 RNA recognition motif 6.1E-21 117-335 219 1

10 ORFs

Contig Location Length Strand Sequence
72-2144 2073 1
263-457 195 -1
2258-2446 189 -1
1627-1770 144 1
1110-1253 144 -1
1333-1455 123 1
430-549 120 1
1947-2066 120 -1
1807-1920 114 -1
2338-2448 111 -1

2 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF300458 0.0 3 1106.3 0.8006536 114-2073 1960 1
TF314644 2.8E-16 3 59.4 0.439134 651-1725 1075 1
 

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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)