RetrogeneDB ID: | retro_etel_490 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | GeneScaffold_8189:91944..92717(+) | ||
| Located in intron of: | ENSETEG00000007170 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NDUFS2 | ||
| Ensembl ID: | ENSETEG00000015746 | ||
| Aliases: | None | ||
| Description: | NADH dehydrogenase (ubiquinone) Fe-S protein 2, 49kDa (NADH-coenzyme Q reductase) [Source:HGNC Symbol;Acc:7708] |
Retrocopy-Parental alignment summary:
>retro_etel_490
GAAAAGAGAGAAGATGTTTGAGTTCTATGAGTGAGTGTCCCGTCGCCCTGAGTGCACGCTGCTTACGTCAGGCCAGGAGG
CGTGTACCAGTACCTACCCTCGAGCTCATAGATGACATCTATGAGTTTTCTGAGAACTTCCTATCCGGATTGATGAGGTG
GAGGAGATGCTGACCAACAACAGGATCTGGCGATATCGCACAGTGGACATCAGGGTTGTAACAGCAGAGGATGCCCTTAA
CTATGGTTTCAGTGGGGTGATGCTCCGGGGCTCCGGTATCCAGTGAGTCCTTCAGAAGGCATAGCCCTATGATGTGTATG
ACCAGGTGGAGTTTGATGTTCCCATTGGCTCCCAAGGGGACTGCTACGATCGGTACCTGTGTTGGGTGGAGGAGATGCGC
CAGTCCCTTTGGATCATCCTACAGTTTTTTAACAAGATACCTCCTGGGGAGATCAAGGTGGATGACGCCAAAAGTGTCTC
CTCTAAAGCGATCCGAGGGGAAGACTTCCATGGAGTCGCTGATTCACCATTTTAAGCTGCACACCGAGGGCTACCAGGTT
CCTCCAGGGGCCACTTACACTGCCATTGAGGCTCCTAAGGGCGAGTTTGGTGTATACCTGGTGTCTGATGGCAGCAGCCG
CTCGTATTGATGCAAGATCAAGGCGCCTGGTTTTGCCCACTTGGCTGGTTTGGAAAAGATGTCCAAGGGACACATGCTGG
TAGATGGTGTCATCATAGGTACCCAAGACATTGTGTTTGGAGAAGTAGATCGG
ORF - retro_etel_490 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.06 % |
| Parental protein coverage: | 55.84 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | EEREKMFEFYERVSGARMHAAYVRPGGVHQDLP-LGLMDDIYEFSKNF-SLRIDEVEEMLTNNRIWRNRT |
| E.RE........V.....HAAYVRPGGV.Q.LP.L.L.DDIYEFS.NF...RIDEVEEMLTNNRIWR.RT | |
| Retrocopy | EKREDV*VL*VSVPSP*VHAAYVRPGGVYQYLP<LELIDDIYEFSENF<PIRIDEVEEMLTNNRIWRYRT |
| Parental | VDIGVVTAEDALNYGFSGVMLRGSGIQWDLRKTQPYDVYDQVEFDVPIGSHGDCYDRYLCRVEEMRQSLR |
| VDI.VVTAEDALNYGFSGVMLRGSGIQ..L.K..PYDVYDQVEFDVPIGS.GDCYDRYLC.VEEMRQSL. | |
| Retrocopy | VDIRVVTAEDALNYGFSGVMLRGSGIQ*VLQKA*PYDVYDQVEFDVPIGSQGDCYDRYLCWVEEMRQSLW |
| Parental | IILQCLNKMPPGEIKVDDA-KVSP-KRAEMKTSMESLIHHFKLYTEGYQVPPGATYTAIEAPKGEFGVYL |
| IILQ..NK.PPGEIKVDDA.KVSP.KR.E.KTSMESLIHHFKL.TEGYQVPPGATYTAIEAPKGEFGVYL | |
| Retrocopy | IILQFFNKIPPGEIKVDDA>KVSPLKRSEGKTSMESLIHHFKLHTEGYQVPPGATYTAIEAPKGEFGVYL |
| Parental | VSDGSSRPYRCKIKAPGFAHLAGLDKMSKGHMLADVVAIIGTQDIVFGEVDR |
| VSDGSSR.Y.CKIKAPGFAHLAGL.KMSKGHML.D.V.IIGTQDIVFGEVDR | |
| Retrocopy | VSDGSSRSY*CKIKAPGFAHLAGLEKMSKGHMLVDGV-IIGTQDIVFGEVDR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_490 was not experimentally validated.
Retrocopy orthology:
Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000015746 | 1 retrocopy |
retro_etel_490 ,
|
| Rattus norvegicus | ENSRNOG00000038372 | 1 retrocopy |