RetrogeneDB ID: | retro_rnor_131 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 1:130673867..130674614(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000049257 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Tspan7 | ||
| Ensembl ID: | ENSRNOG00000003229 | ||
| Aliases: | Tspan7, A15, DXS1692E, MXS1, TALLA-1, Tm4sf2 | ||
| Description: | tetraspanin-7 [Source:RefSeq peptide;Acc:NP_001102285] |
Retrocopy-Parental alignment summary:
>retro_rnor_131
GTGGCACTGAGGAGAATGGAGACCAAATTTGTGGCATCATGTCTCAAAATCTTCCTCCTCATCTACTCCTTTGCATTTTG
GAGCACTGGGGTTATCTTGTTGGCTTTTGGAGTCTGGGGAAAGCTTACTCTGGGCACGTATCTCTCTCTTCTTGCCAAGA
ATATTGCAGACATTCCCTTTGTGCTCATTGGAATTGGTACCATGATTATCATTTTCGGTTTATTCGGATGCTTTGCTTCA
TGCAGAGGTAGCCCATGGATGCTGAAGTTGTATTCTCTGTTTCTGTCACTGGTGTTCCTGATTGAGCTTGTTGCTAGCAT
CTCAGGGCTTCTGCTTCATCGTGAGATCAAGGACAGATTCCTGAAGATTTATACCAATGCTATACAGAACTATAACGGCA
ATGATAAGAAGAGTCAGGCAGTGGACCAGGTGCAGTATGGTCTGATGTGCTGTGGTGTGAAGAACTACAAAGACTGGAAC
GACAACCCCTACTTCCTGAATCATGGTATCCCCCAGAGTTGCTGCAAGGATGAAACTGACTGTAATCCCCCGGATCTACA
CAATCTGACCACAGCTGCCACCAAAGTTAACAAGAGAGGTTGCTATGATCTGATGATAGGTTTCTTTGAGGCAAACATGG
CAGTCATCATTGGAATGCTGTTTACAACCACATTTTCCCAGTTGATTGGCATAAGGTTGTCCTGTTGTCTGTCCCGGATC
ATCATGACCCAACGGTATAAGAGGTGT
ORF - retro_rnor_131 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.96 % |
| Parental protein coverage: | 99.15 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | CLQLLVHPYAFYFWITGAILLAVGVWGKLTLGTYISLIAENSTNAPYVLIGTGTTIVVFGLFGCFATCRG |
| CL......Y.F.FW.TG.ILLA.GVWGKLTLGTY.SL.A.N....P.VLIG.GT.I..FGLFGCFA.CRG | |
| Retrocopy | CLKIFLLIYSFAFWSTGVILLAFGVWGKLTLGTYLSLLAKNIADIPFVLIGIGTMIIIFGLFGCFASCRG |
| Parental | SPWMLKLYAMFLSLVFLAELVAGISGFVFRHEIKDTFLRTYTDAMQNYNGKDERSRAVDHVQRSLSCCGV |
| SPWMLKLY..FLSLVFL.ELVA.ISG.....EIKD.FL..YT.A.QNYNG.D..S.AVD.VQ..L.CCGV | |
| Retrocopy | SPWMLKLYSLFLSLVFLIELVASISGLLLHREIKDRFLKIYTNAIQNYNGNDKKSQAVDQVQYGLMCCGV |
| Parental | QNYTNWSSSPYFLEHGIPPSCCMNETDCNPLDLHNLTVAATKVNQKGCYDLVTSFMETNMGIIAGVAFGI |
| .NY..W...PYFL.HGIP.SCC..ETDCNP.DLHNLT.AATKVN..GCYDL...F.E.NM..I.G..F.. | |
| Retrocopy | KNYKDWNDNPYFLNHGIPQSCCKDETDCNPPDLHNLTTAATKVNKRGCYDLMIGFFEANMAVIIGMLFTT |
| Parental | AFSQLIGMLLACCLSRFITANQYE |
| .FSQLIG..L.CCLSR.I....Y. | |
| Retrocopy | TFSQLIGIRLSCCLSRIIMTQRYK |
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 | 795 .03 RPM |
| SRP017611_kidney | 0 .00 RPM | 51 .64 RPM |
| SRP017611_liver | 0 .00 RPM | 52 .31 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_131 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_131 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_131 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Mus musculus | retro_mmus_157 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000002809 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000058254 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000008547 | 2 retrocopies | |
| Rattus norvegicus | ENSRNOG00000003229 | 1 retrocopy |
retro_rnor_131 ,
|