RetrogeneDB ID: | retro_etel_224 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | GeneScaffold_3834:55218..55661(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LYSMD2 | ||
| Ensembl ID: | ENSETEG00000020371 | ||
| Aliases: | None | ||
| Description: | LysM, putative peptidoglycan-binding, domain containing 2 [Source:HGNC Symbol;Acc:28571] |
Retrocopy-Parental alignment summary:
>retro_etel_224
GCGGGCGTCCCCCGAGCGCCCCTGGGGCACCGGGTCTGCTTGGGCGAAACGCTGCAGGGCATCGCGCTCAAGTACGGAGT
CACAGTGGTGCCGATAAAAAGAGCAAACAAACTATTTCCCAATGATTGTATATTTCTGAAGAAAACTGAGCATCCCAGTT
ATATTAGAGAAGCCTTTGTTGTTTAATGGACTTAACGGATCTCCAGCAAAGGAAACTAATAGCAGTCATTCTCCCGGAGA
GAAGCCGCAGGTGCCTGGGGCCCAACTGGCCCCTCCCAGTGGGCAGGAAGGGACGCGCAGCCCGTGCAGCCCAAGGAAGT
GCCAGCCTGGGATTTCCTGCAGAGACTAGACTTGCAGTTTAAGCTCTCAACACACGCAGCCAAGAAACTGAACGAAGACA
GCAGAGATGAGACGGTCCCTCTGCAACTTCTCTCTATCACAGT
ORF - retro_etel_224 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.81 % |
| Parental protein coverage: | 75.38 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | AGAIERLVEHRVCSGCTLQGIALK--VKMEQIKRANKLFTNDCI-FLKKTLNIPVISEKPLLFNGLNSID |
| AG.......HRVC.G.TLQGIALK..V....IKRANKLF.NDCI.F..K.L.IPVI.EKPLLFNGLN... | |
| Retrocopy | AGVPRAPLGHRVCLGETLQGIALKYGVTVVPIKRANKLFPNDCI>F*RK-LSIPVILEKPLLFNGLNG-- |
| Parental | SPENETVDGSLSHGEEPQGTRADLSPPSPQEA-DAEPVQPEEVSAQDFLQRLDLQIKLSTQAAKKLKEES |
| SP..ET...S.S.GE.PQ...A.L.PPS.QE..DA.PVQP.EV.A.DFLQRLDLQ.KLST.AAKKL.E.S | |
| Retrocopy | SPAKET-NSSHSPGEKPQVPGAQLAPPSGQEG<DAQPVQPKEVPAWDFLQRLDLQFKLSTHAAKKLNEDS |
| Parental | RDE-DSPYAASLYHS |
| RDE.D.P.A.SLYHS | |
| Retrocopy | RDE<DGPSATSLYHS |
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_224 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000020371 | 1 retrocopy |
retro_etel_224 ,
|