RetrogeneDB ID: | retro_btau_746 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 19:649371..650050(+) | ||
| Located in intron of: | ENSBTAG00000034681 | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000047948 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | N6AMT2 | ||
| Ensembl ID: | ENSBTAG00000008296 | ||
| Aliases: | None | ||
| Description: | N(6)-adenine-specific DNA methyltransferase 2 [Source:UniProtKB/Swiss-Prot;Acc:Q17QF2] |
Retrocopy-Parental alignment summary:
>retro_btau_746
ATGAGTGATTGTGAAGACGAGGCCCCCTGCTCCCAGCTTTCTTCATACACCCTTGCAGCTCTGCAGGAATTTTATGCTGA
GCAGCAGCAGCACCACTCTCACCTCCGTGGTGATGACAAGTACAACATCGGGATAATAGAAGAGAACTGGCGGGTGAGCC
AGTTCTGGTACAGCCCGGAGACGGCCCTGTACCTTGCTGAGGACGGCTTGGCAGCTGCCGGGGAGGGTGGCAGAATAGCG
TGTGTGAGCGCCCCCAGCGTCTACCAGAAGCTGAGAGAGCGGCACAGAGACGATGTCTTCCTCTGCATATTTGAGTACAA
CCGGAGGTTTGCCGTATACGGAAAGGACTTTGTCTACTATGACTACAAGAACCCTGTGGACTTACCCGAGAGGATCACCA
CACACAGCTTTGCCATCGTCGTGGCAGATCACCCCTATCACTTGGAGGAATGTCTTAGGAAAATGTCAGAAACCATCAAG
CTCCTGACCCGGGGAAAGATTCTGCTGTGCACAGGTGCTGTCGTGGAGGCGGTGGCAGCAAAGCTGCTTGGAGTGAAGAT
GTGCAAGTTTATTCCAGAACACACTCACCCTGGGAAACGAGTTTCACTGTTTCGTGAATTACGACTCCAGGCTGGACCGT
GATCTGTCAGTGCAGCTCCCAGTGCAGGAAGGACCCAAG
ORF - retro_btau_746 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.02 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MSDSENEGP-PQLSSYALAALQEFYAEQQHHHSDLCGDDKYNIGIIEENWQLSQFWYSPETATCLAEDAV |
| MSD.E.E.P..QLSSY.LAALQEFYAEQQ.HHS.L.GDDKYNIGIIEENW..SQFWYSPETA..LAED.. | |
| Retrocopy | MSDCEDEAPCSQLSSYTLAALQEFYAEQQQHHSHLRGDDKYNIGIIEENWRVSQFWYSPETALYLAEDGL |
| Parental | AAAGEGGRIACVSAPSVYQKLRERHRDDVSVCIFEYDRRFAIYGEDFVYYDYKNPVDLPERIATHSFDIV |
| AAAGEGGRIACVSAPSVYQKLRERHRDDV..CIFEY.RRFA.YG.DFVYYDYKNPVDLPERI.THSF.IV | |
| Retrocopy | AAAGEGGRIACVSAPSVYQKLRERHRDDVFLCIFEYNRRFAVYGKDFVYYDYKNPVDLPERITTHSFAIV |
| Parental | VADPPYLSEECLRKMSETIKLLTRGKILLCTGAVMEDAAAKLLGVKMCKFIPEHTRTLGNEFRCF-VNYN |
| VAD.PY..EECLRKMSETIKLLTRGKILLCTGAV.E..AAKLLGVKMCKFIPEHT...G.....F.VNY. | |
| Retrocopy | VADHPYHLEECLRKMSETIKLLTRGKILLCTGAVVEAVAAKLLGVKMCKFIPEHTHP-GKRVSLF>VNYD |
| Parental | SGLDCNLSVQLPVQEGPK |
| S.LD..LSVQLPVQEGPK | |
| Retrocopy | SRLDRDLSVQLPVQEGPK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 15 .14 RPM |
| ERP005899_muscle | 0 .00 RPM | 11 .72 RPM |
| SRP017611_brain | 0 .00 RPM | 19 .32 RPM |
| SRP017611_kidney | 0 .00 RPM | 14 .76 RPM |
| SRP017611_liver | 0 .00 RPM | 9 .29 RPM |
| SRP030211_testis | 0 .01 RPM | 24 .05 RPM |
Bos taurus was not studied using ChIP-Seq data.
1 EST(s) were mapped to retro_btau_746 retrocopy
| EST ID | Start | End | Identity | Match | Mis-match | Score |
|---|---|---|---|---|---|---|
| EE238177 | 649763 | 649895 | 99.3 | 131 | 1 | 130 |
Bos taurus was not studied using FANTOM5 data.
retro_btau_746 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_746 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000008296 | 1 retrocopy |
retro_btau_746 ,
|
| Oryctolagus cuniculus | ENSOCUG00000003942 | 1 retrocopy |