Contig : dd_Smed_v6_2099_0_1 S. mediterranea

Id  dd_Smed_v6_2099_0_1 Length  1033    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_004569.2 Homo sapiens RAB4A, member RAS oncogene family 2.0E-77 107-784 678 1
NP_033029.2 Mus musculus RAB4A, member RAS oncogene family 6.0E-77 107-649 543 1
NP_523777.1 Drosophila melanogaster CG4921 gene product from transcript CG4921-RA 6.0E-76 107-649 543 1

17 Domain SequenceFeatures

Domain Type InterPro Domain Description Score Contig Location Length Strand
PF00071 PFAM IPR001806 Ras family 2.5E-55 134-619 486 1
TIGR00231 TIGRFAMs IPR005225 small_GTP: small GTP-binding protein domain 3.5E-29 134-598 465 1
SM00176 SMART IPR002041 Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases 8.5E-6 146-694 549 1
PTHR24073:SF450 PANTHER RAB-PROTEIN 4, ISOFORM A 1.1E-101 107-781 675 1
SM00175 SMART IPR003579 Rab subfamily of small GTPases 4.9E-81 131-628 498 1
G3DSA:3.40.50.300 GENE3D IPR027417 P-loop containing nucleotide triphosphate hydrolases 2.7E-65 101-685 585 1
SM00174 SMART IPR003578 Rho (Ras homology) subfamily of Ras-like small GTPases 3.4E-10 137-628 492 1
SM00177 SMART IPR024156 ARF-like small GTPases; ARF, ADP-ribosylation factor 0.0029 95-631 537 1
PTHR24073 PANTHER FAMILY NOT NAMED 1.1E-101 107-781 675 1
PR00449 PRINTS IPR001806 Transforming protein P21 ras signature 9.4E-35 131-193 63 1
PR00449 PRINTS IPR001806 Transforming protein P21 ras signature 9.4E-35 200-247 48 1
PR00449 PRINTS IPR001806 Transforming protein P21 ras signature 9.4E-35 254-319 66 1
SSF52540 SSF IPR027417 P-loop containing nucleoside triphosphate hydrolases 9.0E-55 113-628 516 1
PR00449 PRINTS IPR001806 Transforming protein P21 ras signature 9.4E-35 554-619 66 1
SM00173 SMART IPR020849 Ras subfamily of RAS small GTPases 1.1E-20 122-628 507 1
PS51419 PROFILE small GTPase Rab1 family profile. 32.86 116-742 627 1
PR00449 PRINTS IPR001806 Transforming protein P21 ras signature 9.4E-35 440-478 39 1

5 ORFs

Contig Location Length Strand Sequence
107-784 678 1
591-851 261 1
559-741 183 -1
875-985 111 1
408-512 105 -1

32 Treefam SequenceFeatures

Gene Family Score Reading Frame Bit Score Coverage Contig Location Length Strand
TF313106 1.3E-40 2 138.6 0.54695064 111-675 565 1
TF317494 4.1E-35 2 121.4 0.5556631 111-684 574 1
TF352279 6.0E-39 2 133.1 0.48596323 120-621 502 1
TF315926 1.7E-32 2 111.9 0.45692158 120-591 472 1
TF313199 3.3E-51 2 173.9 0.52952564 123-669 547 1
TF324491 5.9E-40 2 136.4 0.45401743 123-591 469 1
TF352278 6.9E-55 2 185.5 0.47725073 126-618 493 1
TF326442 4.4E-56 2 189.4 0.4801549 129-624 496 1
TF331879 2.9E-51 2 174.2 0.4394966 129-582 454 1
TF105605 1.8E-37 2 127.9 0.47434658 129-618 490 1
TF313448 4.0E-57 2 193.1 0.5759922 132-726 595 1
TF300803 1.5E-50 2 171.5 0.535334 132-684 553 1
TF106302 2.6E-17 2 61.5 0.43368828 132-579 448 1
TF352281 4.5E-35 2 119.8 0.5324298 135-684 550 1
TF352282 7.8E-34 2 115.9 0.42787996 135-576 442 1
TF326626 2.1E-32 2 111.3 0.45111325 135-600 466 1
TF312895 8.2E-31 2 107.0 0.45982575 135-609 475 1
TF315072 9.0E-29 2 99.9 0.5788964 135-732 598 1
TF329292 6.4E-25 2 86.4 0.45111325 135-600 466 1
TF313852 1.6E-20 2 72.5 0.45111325 135-600 466 1
TF329398 1.8E-18 2 65.7 0.517909 135-669 535 1
TF331746 4.5E-17 2 61.4 0.4714424 135-621 487 1
TF105461 1.3E-12 2 48.1 0.45111325 135-600 466 1
TF350739 5.5E-6 2 23.9 0.44530493 141-600 460 1
TF300099 5.0E-57 2 193.0 0.5411423 144-702 559 1
TF314986 9.5E-23 2 79.8 0.44240078 144-600 457 1
TF300837 8.7E-19 2 66.7 0.46563408 144-624 481 1
TF323428 1.4E-48 2 164.9 0.4714424 147-633 487 1
TF328564 8.3E-33 2 112.8 0.44530493 147-606 460 1
TF105465 2.9E-8 2 33.6 0.42207164 147-582 436 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)