RetrogeneDB ID: | retro_etel_2092 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_53357:2700..3277(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSETEG00000008061 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MPDU1 | ||
| Ensembl ID: | ENSETEG00000018609 | ||
| Aliases: | None | ||
| Description: | mannose-P-dolichol utilization defect 1 [Source:HGNC Symbol;Acc:7207] |
Retrocopy-Parental alignment summary:
>retro_etel_2092
AGACTTTTCGTCCACTGGGACCTGCTGCACATCCCTTGCCTCAAGATTCTCCTCAGCAAAGGCCTGGGGCTGGGCCTTGT
ATCTAGCTCCCTGCTATTAAAACCGCCCCTGGTGTTTAAAATCCTGGGCGCCAAGAATGCAGACAGGCTGAGTCTTCAGT
GGGTCATGCTGGAGCTACTGACCTTGACTGGGACTATGGTCTACAGCATCACCAACAAGCTTCCCTTTGGCTCTTGGGGT
GAAGCCCTCTTCCTGATGCTCCAGACGCTCACCACTGGCTGCCTGGTCCTGCACTGCAGGGGCAGACTGTGAAAGGAGCT
GCTTTCCTAGTCGGTTCCACCCTGCTCCTGTTGCTGCTGCTCTCACCCCTGACCCCGCTGGCGTGGTCACTTGGCTCCAG
GCTTCCAGCGTGCCTGCTGTGGTAGGGGGCAGGCTGCTCCAGGCCACCACCAACGACTACAACAACGGGCACACAGGTCA
GCTCTTGGCCGCCACAGTCTTTCTCTTGTTTGGGGGCTCCCTGGCCCAGATCTTCAACCCCATTTAGGAAATGGGAGACC
CTCTCGTGGCTGGCACC
ORF - retro_etel_2092 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.0 % |
| Parental protein coverage: | 89.25 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | RLFVQWDLLHVPCLKILLSKGLGLGIVSASLLVKLPQVFKILSAKSAEGLSLQSVMLELVALTGTMVYST |
| RLFV.WDLLH.PCLKILLSKGLGLG.VS.SLL.K.P.VFKIL.AK.A..LSLQ.VMLEL..LTGTMVYS. | |
| Retrocopy | RLFVHWDLLHIPCLKILLSKGLGLGLVSSSLLLKPPLVFKILGAKNADRLSLQWVMLELLTLTGTMVYSI |
| Parental | TNKFPFSSWGEALFLMLQTLTIGFLVLHYR-GQTVKGVAFLVCYTLLLLLLLSPLTPLA-VVTWLQASNV |
| TNK.PF.SWGEALFLMLQTLT.G.LVLH.R.GQTVKG.AFLV..TLLLLLLLSPLTPLA.VVTWLQAS.V | |
| Retrocopy | TNKLPFGSWGEALFLMLQTLTTGCLVLHCR<GQTVKGAAFLVGSTLLLLLLLSPLTPLA<VVTWLQASSV |
| Parental | PAVVGGRLLQATTN-YYNGHTGQLSAITVFLLFGGSLARIFTSIQEK-EPFMAGT |
| PAVVGGRLLQATTN.Y.NGHTGQL.A.TVFLLFGGSLA.IF..I.E...P..AGT | |
| Retrocopy | PAVVGGRLLQATTNDYNNGHTGQLLAATVFLLFGGSLAQIFNPI*EMGDPLVAGT |
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_2092 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 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000018609 | 3 retrocopies |
retro_etel_1794, retro_etel_2092 , retro_etel_331,
|
| Sus scrofa | ENSSSCG00000017955 | 1 retrocopy |