RetrogeneDB ID: | retro_rnor_202 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 2:179644044..179644617(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000047443 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSRNOG00000049404 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_rnor_202
ATGAGCATGCTCAGTCTACAGAAGAGGCTTGCCTCTAGTGTCCTCCACTGTGGTAAAAAGAAGGTCCAGTTGGACCCCAA
TGAGACCAATAAAATTGCCAATGCCAACTCCTGTCAGCTGATCAGGAAGCTGATTGAAGATGGCCTGATCATCTGGAAGC
CTGTAACTGTCCATTCTCAGGCTCACTGCGAGAAAAACACCTTGAAGGGCAGGCATATGGTCATAGGGAAGGGAAAGGGC
ACTGCCAACATTTGGGTGCCTGAGAGGGTGACCTGGATGAGAAGGATGAGCATCCTGCACCGGCTTCTCAGGAGATACTG
CGAATCTAAGAAGATTGACTGCCATATGTGTCATAGCCTGTACCTGAGGGTCAAAAGGAATGTATTCAAAAACCAATGGA
TTCTTATGGAGCAGATCCACAAACCAAAGGCAGACAAGGCCTGCAAGAAACTACTGGCTGACCAGGGTGATGTTCAAAGT
TCTAAGTCCAAGGACGCACAAAAACTTGTGAGAGTAGCACCTCCATTTCAAGAAGGGGAAGATAATCAAGACTCTGTCCA
AGGCGGAAGAGAC
ORF - retro_rnor_202 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.74 % |
| Parental protein coverage: | 87.43 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSMFGLQKCLASSFLHCAKKKVHLDPNETDKIANANARQLIRKLIEDGLIIWKPVTVHPQTRCLK-TLKG |
| MSM..LQK.LASS.LHC.KKKV.LDPNET.KIANAN..QLIRKLIEDGLIIWKPVTVH.Q..C.K.TLKG | |
| Retrocopy | MSMLSLQKRLASSVLHCGKKKVQLDPNETNKIANANSCQLIRKLIEDGLIIWKPVTVHSQAHCEKNTLKG |
| Parental | RHMVIGKGKGTANTWVPERVTWMRRMRILHRLLRRYWESKKIDHHMYHSLYLKVKRNVFKNQWILMEQIL |
| RHMVIGKGKGTAN.WVPERVTWMRRM.ILHRLLRRY.ESKKID.HM.HSLYL.VKRNVFKNQWILMEQI. | |
| Retrocopy | RHMVIGKGKGTANIWVPERVTWMRRMSILHRLLRRYCESKKIDCHMCHSLYLRVKRNVFKNQWILMEQIH |
| Parental | KPKADKACKKLLADQDEAHSTNTKAAQK |
| KPKADKACKKLLADQ....S...K.AQK | |
| Retrocopy | KPKADKACKKLLADQGDVQSSKSKDAQK |
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_202 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_202 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_202 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 49 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000004741 | 37 retrocopies |
retro_rnor_1029, retro_rnor_1039, retro_rnor_1295, retro_rnor_1338, retro_rnor_1405, retro_rnor_1440, retro_rnor_1449, retro_rnor_1478, retro_rnor_1512, retro_rnor_1525, retro_rnor_1558, retro_rnor_1577, retro_rnor_1765, retro_rnor_1766, retro_rnor_1795, retro_rnor_1814, retro_rnor_1860, retro_rnor_1885, retro_rnor_1905, retro_rnor_1907, retro_rnor_1970, retro_rnor_1981, retro_rnor_208, retro_rnor_2169, retro_rnor_2522, retro_rnor_2536, retro_rnor_2708, retro_rnor_2773, retro_rnor_2783, retro_rnor_2921, retro_rnor_2943, retro_rnor_326, retro_rnor_426, retro_rnor_434, retro_rnor_464, retro_rnor_465, retro_rnor_829,
|
| Rattus norvegicus | ENSRNOG00000049404 | 12 retrocopies |