RetrogeneDB ID: | retro_btau_1570 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 7:39834210..39835087(-) | ||
| Located in intron of: | ENSBTAG00000001707 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.52587 | ||
| Ensembl ID: | ENSBTAG00000014159 | ||
| Aliases: | None | ||
| Description: | tubulin--tyrosine ligase [Source:RefSeq peptide;Acc:NP_001106704] |
Retrocopy-Parental alignment summary:
>retro_btau_1570
ATGTACACCTTTGTGGTGCGCGATGGGAACAGCAGCGTCTATGCCAATGAGGTGTTCTGGCTGCTGCTCGCCACAGGCCA
CTGGAAGCGGCTGCAATGGGATAACCCCAGGTTCAGCCTGATGCTGGAAGAAAGAAACCGGCTGCCCTTCAGGAGACTGG
ATCGTGAGCCTGGCTGATGCACTTGGTGAATTACTACAGAGGGGCCGACAAACTGTGTCGCAAAGCATCTTTAGTGAAGC
TCATCAAAACCAGCCCAGAACAGGCTGAGTCCTGCACATGGTTCCGCGAGTCCTATGTGATTTATCCAACCAACCTTAAG
ACCCTAGTTGCTCCAGCTCAGAATGGAATCCATCCACTGCTCCGTAGTTCAAGGACAGACGACAGAGAATTTTTTCTGAC
TTAATATAACAGAAAGAAAGAGGAGGGAGAGGGCAACGCTTGGATTGCAAAGTCATCAGCCGGAGCCAAAGGTGAAGGCA
TACTCATCTTCTCAGAAGCTACAGAACTGTTGGATTTCATAGACAACCAAGGCCAGATGCACGTGATCCAGAAATACCTG
GAGCTCCCGTTGTTCCTGGAAGCCTGGTCATCGCAAGTTTGACATCTGAGGCTGGGTCTTGGTGGACTGTCAGTTTAATA
TCTACCTCTATAGTGAGGGTGTCCTGCAGACTGCTTCAGAACCGTATCAGGTGGATTATTTCCAAGATAAAACCAGCCAC
TTGACTAATCACTGCATTCAAAAGGAGTACTCAGAGAACTATGGGAAGTATGAAGAAGGGGAACGCAATGTTCTTTGAGG
AATTCAATCAGTACCTAACAAGTGCTTTGAACATCACCCTGGAAAGTAGTATCTTACTACAAATCAAAGGTATCATA
ORF - retro_btau_1570 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.42 % |
| Parental protein coverage: | 77.19 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | MYTFVVRDENSSVYA-EVSRLLLATGHWKRLRRDNPRFNLMLGERNRLPFGRLGHEPG-LMQLVNYYRGA |
| MYTFVVRD.NSSVYA.EV..LLLATGHWKRL..DNPRF.LML.ERNRLPF.RL..EPG.LM.LVNYYRGA | |
| Retrocopy | MYTFVVRDGNSSVYANEVFWLLLATGHWKRLQWDNPRFSLMLEERNRLPFRRLDREPG<LMHLVNYYRGA |
| Parental | DKLCRKASLVKLIKTSPELAESCTWFPESYVIYPTNLKTPVAPAQNGIHPPLHSSRTDEREFFLASYNRK |
| DKLCRKASLVKLIKTSPE.AESCTWF.ESYVIYPTNLKT.VAPAQNGIHP.L.SSRTD.REFFL..YNRK | |
| Retrocopy | DKLCRKASLVKLIKTSPEQAESCTWFRESYVIYPTNLKTLVAPAQNGIHPLLRSSRTDDREFFLT*YNRK |
| Parental | KEEGEGNVWIAKSSAGAKGEGILISSDATELLDFIDNQGQVHVIQKYLERPLLLE-PGHRKFDIRSWVLV |
| KEEGEGN.WIAKSSAGAKGEGILI.S.ATELLDFIDNQGQ.HVIQKYLE.PL.LE.PGHRKFDI..WVLV | |
| Retrocopy | KEEGEGNAWIAKSSAGAKGEGILIFSEATELLDFIDNQGQMHVIQKYLELPLFLE>PGHRKFDI*GWVLV |
| Parental | DHQFNIYLYREGVLRTASEPYHMDNFQDKTCHLTNHCIQKEYSKNYGKYEE-GNEMFFEAFNRYLTSALN |
| D.QFNIYLY.EGVL.TASEPY..D.FQDKT.HLTNHCIQKEYS.NYGKYEE.GN.MFFE.FN.YLTSALN | |
| Retrocopy | DCQFNIYLYSEGVLQTASEPYQVDYFQDKTSHLTNHCIQKEYSENYGKYEE>GNAMFFEEFNQYLTSALN |
| Parental | ITLESSILLQIKHII |
| ITLESSILLQIK.II | |
| Retrocopy | ITLESSILLQIKGII |
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 | 0 .14 RPM |
| ERP005899_muscle | 0 .16 RPM | 4 .70 RPM |
| SRP017611_brain | 0 .00 RPM | 40 .97 RPM |
| SRP017611_kidney | 0 .00 RPM | 8 .71 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .66 RPM |
| SRP030211_testis | 0 .07 RPM | 1 .52 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1570 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1570 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1570 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000014159 | 1 retrocopy |
retro_btau_1570 ,
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