RetrogeneDB ID: | retro_etel_999 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_198829:4181..4783(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NARF | ||
| Ensembl ID: | ENSETEG00000009329 | ||
| Aliases: | None | ||
| Description: | nuclear prelamin A recognition factor [Source:HGNC Symbol;Acc:29916] |
Retrocopy-Parental alignment summary:
>retro_etel_999
TCAGGTGAGCTCCTGCAGATGGTGAAGCAGAGTGACCTCACCATGCAGGCAGCGGCTGTGAGCACTTTGTCTGAGACTTG
AGTGGGGAAGAGGCCCAGCGCCGTGAGGTAGCCGGCTCAGATGGGTACCTGGCCACATCTTCTGCAACGTTGCCAAGGAG
CGTGGCGAGGATATTGGGGAGAAGGTCACATATCGAGCCCTGAGAAACAGAGCTTCTGGGGGGCCACCCTGGAGAGAGAC
CGGGGAGGTGCTGCTCTGCGTGGCTGCTGCCTGCGTGGCTTCTGAAACGTCCAGACGCGGTCCTGGCGATGGAGACGGGC
AGGCCCCTGTACCAACTGGTGGAGGTCCTCGGTGTCCCAGAGGGCACATGCATGGCAGAGGCCAGGCCCCGGCTGAGGGT
GGTCCTGCAGACGAGGCATTGCTGGGGTAGATGGAAGACATCTCTGCGGAGGTCCCCACTCAGGCCCCCCAGGCCAGCGC
ACAGGTGCAGATGTTCCACCAGGACTGACTCCACCCCTCACCCCGCCCCCAGGGTGCAGACAACTCTGCAAACTGCTTTC
CCCAGCGCTGGGCTCGCCGCCGGTGCCTCAGACTTCAAGTGG
ORF - retro_etel_999 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.81 % |
| Parental protein coverage: | 53.89 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | SGELLQMMEQSDLTVKDAAVDTLFR-DLTEEEIQRHEGAGSDGYLA-HVFRHAAKELFGEDV-EKVTYRA |
| SGELLQM..QSDLT...AAV.TL...DL..EE.QR.E.AGSDGYLA.H.F...AKE..GED..EKVTYRA | |
| Retrocopy | SGELLQMVKQSDLTMQAAAVSTLSE<DLSGEEAQRREVAGSDGYLA<HIFCNVAKER-GEDIGEKVTYRA |
| Parental | LRNR-DFQEVTLEKD-GEVVLRFAAAYGFRNVQ-NVVLKLKKGRLPYHFVEVLA-CPGGCLHGRGQARAE |
| LRNR..F...TLE.D.G...LR.....GF.NVQ...VL....GR..Y..VEVL..CP.G..HGRGQA.AE | |
| Retrocopy | LRNR<SFWGATLERDRGGAALRGCCLRGF*NVQ<DAVLAMETGRPLYQLVEVLG<CPRGHMHGRGQAPAE |
| Parental | DGPADKVLLQQMEDIYAEVPTRPPEASAQVRTLYQEWLHGA-DPPRVQEALHTSFPSAGLAASSLDIKW |
| .GPAD..LL..MEDI.AEVPT..P.ASAQV....Q..LH.....PRVQ..L.T.FPSAGLAA...D.KW | |
| Retrocopy | GGPADEALLG*MEDISAEVPTQAPQASAQVQMFHQD*LHPS>PAPRVQTTLQTAFPSAGLAAGASDFKW |
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_999 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 5 parental genes, and 27 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000018178 | 1 retrocopy | |
| Canis familiaris | ENSCAFG00000012976 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000011246 | 1 retrocopy | |
| Echinops telfairi | ENSETEG00000009329 | 1 retrocopy |
retro_etel_999 ,
|
| Myotis lucifugus | ENSMLUG00000017740 | 23 retrocopies |
retro_mluc_1006, retro_mluc_1012, retro_mluc_1083, retro_mluc_1091, retro_mluc_1124, retro_mluc_1256, retro_mluc_1282, retro_mluc_1457, retro_mluc_1573, retro_mluc_1622, retro_mluc_1632, retro_mluc_1700, retro_mluc_1718, retro_mluc_1898, retro_mluc_1973, retro_mluc_2365, retro_mluc_671, retro_mluc_688, retro_mluc_817, retro_mluc_825, retro_mluc_877, retro_mluc_879, retro_mluc_982,
|