RetrogeneDB ID: | retro_rnor_903 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 13:15896209..15896921(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Frmd3 | ||
| Ensembl ID: | ENSRNOG00000006503 | ||
| Aliases: | None | ||
| Description: | FERM domain-containing protein 3 [Source:RefSeq peptide;Acc:NP_001100132] |
Retrocopy-Parental alignment summary:
>retro_rnor_903
TATACAAAGTCCAGTCAGATCAAGACTGTGCCAATCAGCAAGATAATTCTTAAAGGAAGAAAATTTTGATATAATGGTAA
AGTTTCTAAAGAAGTTGTAGAGGCAAGCTCCAAATCCCAGTGGGATCCTCCTGAGGTGCACAGAGTCAACATTACTCAGA
GTCGCAGCTTTCACTCCCTGAACAAACAGCTCATTAACATGGAACCTTTGCAACCCCTCCTTCCTTCCCCCACTGAACAG
GAAGAAGTTCCTATGGATGAGGGTGCCCCATTGCCTAACATGCATGTATCTGAGTCCCTAATTGCCAGCTTATCAGTAAA
GGGGGTTCAGTGTGCTGATCCTCCAGATGAGAGGAAGGTAGAGAGAAAGAAGACCCCTTGACCATCTCTGAACTAGTATT
CAATCCCAGCGCCAGTCTGCTCCCTACCCCAGTGGATGATGATGACATCAACATGCTCTTTGACTGTCCATCCAGGCTCA
AGTTAGAATGAGGCTATACAGATTCAAGGAACTTGAAGCATATGGAAAAGCCTTTTTGATTGCTGAAGAGGAGGAGTTGA
AGGAAGCTCGCCAAGCTTTGTCATAGAGCTATTCCATCCTGTCCAGCCGTATTTGATTCAATCCCCTGGTCAAGAGTTTT
TCCAGGCTTCTTGGGGTGGGTCTGGGACTGCTGCTGTTTGTATTTCCTCTGCTCCTCCTCCTTTTGGAGTCA
ORF - retro_rnor_903 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.66 % |
| Parental protein coverage: | 63.59 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | YAKSSQIKTVSSSKIFFKGSRFRYSGKVAKEVVEASSKIQRDPPEVHRVNITQSRSFHSLNKQLIINMEP |
| Y.KSSQIKTV..SKI..KG..F.Y.GKV.KEVVEASSK.Q.DPPEVHRVNITQSRSFHSLNKQLI.NMEP | |
| Retrocopy | YTKSSQIKTVPISKIILKGRKF*YNGKVSKEVVEASSKSQWDPPEVHRVNITQSRSFHSLNKQLI-NMEP |
| Parental | LQPLLPSPTEQEEEVPMGEGTPLPKMDVSESLISSSPVKGAQCADPPDE-EEDRLKEDPLTISELAYNPS |
| LQPLLPSPTEQ.EEVPM.EG.PLP.M.VSESLI.S..VKG.QCADPPDE.EE.R.KEDPLTISEL..NPS | |
| Retrocopy | LQPLLPSPTEQ-EEVPMDEGAPLPNMHVSESLIASLSVKGVQCADPPDE<EEGREKEDPLTISELVFNPS |
| Parental | ASLLPTPVDDDEINMLFDCPSRLELEREDTDSFEELEADENAF-LIAEEEELKEARQALSWSYSILTGRI |
| ASLLPTPVDDD.INMLFDCPSRL.LE...TDS...L...E..F.LIAEEEELKEARQALS.SYSIL..RI | |
| Retrocopy | ASLLPTPVDDDDINMLFDCPSRLKLE*GYTDS-RNLKHMEKPF<LIAEEEELKEARQALS*SYSILSSRI |
| Parental | WVNPLVKSFSRLLVVGLGLLLFVFPLLLLLLES |
| ..NPLVKSFSRLL.VGLGLLLFVFPLLLLLLES | |
| Retrocopy | *FNPLVKSFSRLLGVGLGLLLFVFPLLLLLLES |
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 |
|---|---|---|
| SRP017611_brain | 0 .00 RPM | 3 .38 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_903 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_903 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_903 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 | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000006503 | 1 retrocopy |
retro_rnor_903 ,
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