RetrogeneDB ID: | retro_ecab_41 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 11:45555241..45556576(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSECAG00000004384 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RTN4RL2 | ||
| Ensembl ID: | ENSECAG00000007358 | ||
| Aliases: | None | ||
| Description: | reticulon 4 receptor-like 2 [Source:HGNC Symbol;Acc:23053] |
Retrocopy-Parental alignment summary:
>retro_ecab_41
CTCCCACCAGGGTGCTGTGTGGAACTGCTGCTGCTGCTGCTGGCCGGGGAGCTGCCCCTGGGTGGCAGCTGCCCGCGGGA
CTGCGTGTGCTACCCAGCACCCATGACAGTCAGCTGCCAGGCTCACAACTTCGATGCCATCCCTGAGGGCATCCCAGAGG
ACAGCGAGCGCATCTTCCTGCAGAACAACCGCATCACCCTCCTCCAGAGGGGCCACTTCAGCCCCGCTATGGTCACCCTG
TGGATCTACTCCAACAACATCACCTTCATTGACCCCAGAACCTTCGAGGGCTTCGTGCACCTGGAGGAGCTGGACCTCGG
CGACAACCGGCAGCTGCGGACGCTGGCACCCGAGACCTTCCAGGGCCTGGTGAAGCTCCATGCCCTCTACCTCTATAAGT
GTGGGCTCAGTGCCCTGCCAGCGGGCATCTTTGGTGGCCTGCACAGCCTGCAGTACCTCTACCTGCAGGACAACCACATT
GAGTACCTCCAGGATGACATCTTTGTGGACCTGGTCAACCTCAGCCACCTGTTCCTCCATGGCAACAAGCTGTGGAGCCT
GGGCCAGGACACCTTCCGGGGACTGGTGAACCTGGACCGGCTGCTGCTGCATGAGAACCAGCTGCAGTGGGTCCACCACA
GGGCTTTCCATGACCTCCGCAGGCTGACCACCCTCTTCCTCTTCAACAACAGTCTCACTGAGCTGCAGGGTGACTGCCTG
GCACCCCTGGGGGCCCTGGAGTTCCTCCGGCTCAACGGGAATGCCTGGGACTGTGGCTGCCGGGCACGCTCCCTGTGGGA
ATGGCTGCGGAGGTTCCGAGGCTCGAGCTCTGCCGTCCCCTGTGCATCCCCCGAGCTGCGGCATGGCCAGGACCTGAAGC
TGCTGCGGGCCGAGGACTTCCGGAACTGCACGGGGCCAGCGTCCCCTCACCAGATCAAGTCGCACACGCTCACCACCACC
GACAGGGCCGCCCGCAAGGAACACCACCCACCCCACGGCCCCGCCAGGGACAAGGGCCACCCACGTGGCCATCTGCCTGG
CTCCCGGCAGGGCTACAAGAAGCCAGGCAAGAACTGCACCAGCCACAGGAATCGCAACCAGGTCTCGAAGGTGGGCGCCG
GCAAGCAGGCCCACGAGCTGCAGGACTACGCCCCCGACTACCAGCACAAGTTCGGCTTTGACATCATGCCCACGGCACGG
CCCAAGAGGAAGGGCAAGTGTGCCCGCAGGACCCCCATCCGTGCCCCCAGCGGGGTGCAGCAGGCCTCCTCGGGCAGTTC
CCTGGGGGCCTCATTCCTGGCCTGGATACTGGGGCTGGCAATCACTCTCCGCTGA
ORF - retro_ecab_41 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.3 % |
| Parental protein coverage: | 74.14 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PASACLLLMLLALP---PAAPSCPMLCTCYSSPPTVSCQANNFSSVPLSLPPSTQRLFLQNNLIRTLRPG |
| P...C..L.LL.L....P...SCP..C.CY..P.TVSCQA.NF...P...P....R.FLQNN.I..L..G | |
| Retrocopy | PPGCCVELLLLLLAGELPLGGSCPRDCVCYPAPMTVSCQAHNFDAIPEGIPEDSERIFLQNNRITLLQRG |
| Parental | TFGPNLLTLWLFSNNLSTIYPGTFRHLQALEELDLGDNRHLRSLEPDTFQGLERLQPMHHLTLQVSSLPL |
| .F.P...TLW..SNN...I.P.TF.....LEELDLGDNR.LR.L.P.TFQGL..L..........S.LP. | |
| Retrocopy | HFSPAMVTLWIYSNNITFIDPRTFEGFVHLEELDLGDNRQLRTLAPETFQGLVKLHALYLYKCGLSALPA |
| Parental | TNEDGILRINYLKLESNNFFTHKDDLFADLANLSHLFLHGNRLRLLTEHVFRGLGSLDRLLLHGNRLQGV |
| ....G.....YL.L..N......DD.F.DL.NLSHLFLHGN.L..L....FRGL..LDRLLLH.N.LQ.V | |
| Retrocopy | GIFGGLHSLQYLYLQDNHIEYLQDDIFVDLVNLSHLFLHGNKLWSLGQDTFRGLVNLDRLLLHENQLQWV |
| Parental | HRAVFRGLSRL-TISTVNNSLS-LPGEALAEL-PLEFLRLNANPWACDCRARPLWAWFQRARVSSSDVTC |
| H...F..L.RL.T....NNSL..L.G..LA.L..LEFLRLN.N.W.C.CRAR.LW.W..R.R.SSS.V.C | |
| Retrocopy | HHRAFHDLRRLTTLFLFNNSLTELQGDCLAPLGALEFLRLNGNAWDCGCRARSLWEWLRRFRGSSSAVPC |
| Parental | ATPPERQGRDLRALREADFQACP-PAAP |
| A.P..R.G.DL..LR..DF..C..PA.P | |
| Retrocopy | ASPELRHGQDLKLLRAEDFRNCTGPASP |
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 |
|---|---|---|
| SRP021940_articular_cartilage | 1 .59 RPM | 0 .00 RPM |
| SRP021940_cerebellum | 13 .87 RPM | 0 .21 RPM |
| SRP021940_embryo | 2 .89 RPM | 5 .01 RPM |
| SRP021940_placental_villous | 0 .87 RPM | 0 .00 RPM |
| SRP021940_synovial_membrane | 3 .21 RPM | 0 .22 RPM |
| SRP021940_testis | 1 .02 RPM | 0 .06 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_41 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_41 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_41 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 | |
|---|---|---|---|
| Equus caballus | ENSECAG00000007358 | 1 retrocopy |
retro_ecab_41 ,
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