RetrogeneDB ID: | retro_rnor_626 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 1:187263765..187264286(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSRNOG00000047333 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_rnor_626
AGTTCTGCTCTCATTGCCTTTTCAATCTGCACCAGTCTATCTCTACACACCCCCATGTACTTCTCTCTAGCGAAATTATT
TATCCTGGAAATAGGTTACACTGGCTCTGTCAAACCCAAGATTTGGAGAGCCTTGTAAGTGAGATCTGAAGAATCTCTCA
GGTGGGAAGAGACACACAAAAGCTTTTCTTCACACTTTTTGGTACAAATTAGTGCTGCCTATTGACAGTCATGACCTTTG
GCCACTGTATGGTCCTGCTTCCCCAAGCAACCCAAATGAGTCGTGAGGTATGTGCCCATTTGGCAATTGTTTCGTGGGGA
ATAGGTTGCCTTGTAGGGTTGGGATAAAACTACTTGAGGCCCAAATCTAACCACTCACAAGGAATTGATAAATTCTTGTT
CATCTTCCATACCACAGTGAGATTCATGCTGGACCCCATCATCTATAGCTTAAGGAACCAAGAAGTCAAGGTGGCACTGA
GAAGAACTCTGGGTCTGAAGAAAGTTCTGATAATAAATAGG
ORF - retro_rnor_626 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.64 % |
| Parental protein coverage: | 54.86 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SSALMAFAICTRPSLHTHMHFFLGNLCILEIGHTGSVTPKIWREVLIKVYKRISQEGCASQMLFFTLFRI |
| SSAL.AF.ICT..SLHT.M.F.L..L.ILEIG.TGSV.PKIWR............E..........L..I | |
| Retrocopy | SSALIAFSICTSLSLHTPMYFSLAKLFILEIGYTGSVKPKIWRAL*VRSEESLRWEETHKSFSSHFLVQI |
| Parental | TE-CFLLAVMAFGYRMAHLHYATQMSREVCAHLAIVSWGIGCLVVLGQNYLRPKSNHPQEVDKFLVIFHT |
| ...C.L..VM.FG..M..L..ATQMSREVCAHLAIVSWGIGCLV.LG.NYLRPKSNH.Q..DKFL.IFHT | |
| Retrocopy | SA<CLL-TVMTFGHCMVLLPQATQMSREVCAHLAIVSWGIGCLVGLG*NYLRPKSNHSQGIDKFLFIFHT |
| Parental | TVTSMLNPIIYSLMKQEVTAALRTTLGQKKVLIINR |
| TV..ML.PIIYSL..QEV..ALR.TLG.KKVLIINR | |
| Retrocopy | TVRFMLDPIIYSLRNQEVKVALRRTLGLKKVLIINR |
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 | 0 .00 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_626 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_626 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_626 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000047333 | 6 retrocopies |
retro_rnor_1661, retro_rnor_1683, retro_rnor_1684, retro_rnor_2512, retro_rnor_626 , retro_rnor_627,
|