RetrogeneDB ID: | retro_shar_524 | ||
Retrocopy location | Organism: | Tasmanian devil (Sarcophilus harrisii) | |
| Coordinates: | GL849800.1:197625..197950(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SPG7 | ||
| Ensembl ID: | ENSSHAG00000015455 | ||
| Aliases: | None | ||
| Description: | spastic paraplegia 7 (pure and complicated autosomal recessive) [Source:HGNC Symbol;Acc:11237] |
Retrocopy-Parental alignment summary:
>retro_shar_524
TCTGGTCCATTGTGACATACCCTACAATCTGAAACCATATCAACTTTGGTATATGCTGGTAGTAGATTTAGCTTGAAAGA
ACTTCAAGTGTCTGGTATCCATAAAGAAATGGCATGGACCATGGGTATCTTTGTGGATTCCCATCACCAAAATAATTCTA
CAACGTCTCTCCAAATAAATGTGCAGTGGCTGAAAGAATATCATTCCAATCTGATGTTCCTCCCAAGAAACCATCTACAC
TGAAGAAGGGAGATAGTTCTGCTGAAAAACTCAAGTTGGCAATCAGTTTGCACCACTAGTTATGCCCATCAGAAATGTCT
TCAAG
ORF - retro_shar_524 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 58.41 % |
| Parental protein coverage: | 52.61 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SGPIRPIVRCPTVRYHTKVRAGRGFSLEELRVAGIHKKVARTIGISVDPRRRNKSTESLQANVQRLKEYR |
| SGP........T....T.V.AG..FSL.EL.V.GIHK..A.T.GI.VD....N.ST.SLQ.NVQ.LKEY. | |
| Retrocopy | SGPL*HTLQSETIS--TLVYAGSRFSLKELQVSGIHKEMAWTMGIFVDSHHQNNSTTSLQINVQWLKEYH |
| Parental | SKLILFPR-KPSAPKKGDSSAEELKLA-TQLTGPVMPIRNVFK |
| S.L...PR.KPS..KKGDSSAE.LKLA..Q....VMPIRNVFK | |
| Retrocopy | SNLMFLPR<KPSTLKKGDSSAEKLKLA<NQFAPLVMPIRNVFK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_524 was not experimentally validated.
Retrocopy orthology:
Sarcophilus harrisii 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 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Sarcophilus harrisii | ENSSHAG00000015455 | 2 retrocopies |
retro_shar_263, retro_shar_524 ,
|