RetrogeneDB ID: | retro_rnor_2757 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | AABR06111408.1:23..591(+) | ||
| 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: | ENSRNOG00000015230 | ||
| Aliases: | None | ||
| Description: | RGD1309374 protein [Source:UniProtKB/TrEMBL;Acc:Q3B8R1] |
Retrocopy-Parental alignment summary:
>retro_rnor_2757
ATGGAGGTATTAATAGGGGACCCTATTACCACATGTCTTTCTCCCTCAGTGTATGATATAATTTGTAATCTTGGGTTTCA
ACTCAGAGAAAATTGTGATATCAATAGCATTGTAACTCAGAATGGTGAAGTATGCTGGAAAACAATCACAGACTGTGTGA
GCTACACAGAGTTTAGAGCAGGGTCTGGATTACTGGGGAAGCGTGAGGCTGCTGGGCCCTGTGTGTGAGGCTGTCCATTC
ACATTTCTTATCTCTGACCAAGGGGCAATTTGAAATTCGATATGCACCGTGGTTCCAGTGGACAAGTTTTCCAGAGTTAT
TTCCTGAAATATTTGATGCCTTGGAAAGTCTACAATCTCCTGCTATTTCTCTTAGCTTAATGAAACTGACATCGTGTCTA
GAACGAGCCTTGGGTGATGTATTTTTACTGATTGGGAAGGAATGCCCCTTTCTTTTAAGAGATCTGCTTTCATCTGAGGA
GCTTGCTCAAGTCTTCAGTCAGTCTGTGATGAATGTGCTAAAAGTCTTCGTTGGCTCTCCGTGTGGTCTCAACCTGCGTA
ACGTCTTA
ORF - retro_rnor_2757 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.21 % |
| Parental protein coverage: | 65.62 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MEILTGDSITTCLSPLVHDLICNLGFELTEICDINSIVTQNGEVRWKAITDRVSYAE-LGHSLDYRQSVQ |
| ME.L.GD.ITTCLSP.V.D.ICNLGF.L.E.CDINSIVTQNGEV.WK.ITD.VSY.E.L...LDY..SV. | |
| Retrocopy | MEVLIGDPITTCLSPSVYDIICNLGFQLRENCDINSIVTQNGEVCWKTITDCVSYTE>LEQGLDYWGSVR |
| Parental | RLGPVCEAIHLHISSLSRAQFETQYSPWYQWTTSPELFLEIYDALESSQSAAISLSVMKLASCLERALGD |
| .LGPVCEA.H.H..SL...QFE..Y.PW.QWT..PELF.EI.DALES.QS.AISLS.MKL.SCLERALGD | |
| Retrocopy | LLGPVCEAVHSHFLSLTKGQFEIRYAPWFQWTSFPELFPEIFDALESLQSPAISLSLMKLTSCLERALGD |
| Parental | VFLLIGNECPFLLRDLLASAELAHVFGHAVMDVLKVFIGSPCGLNLRNVL |
| VFLLIG.ECPFLLRDLL.S.ELA.VF...VM.VLKVF.GSPCGLNLRNVL | |
| Retrocopy | VFLLIGKECPFLLRDLLSSEELAQVFSQSVMNVLKVFVGSPCGLNLRNVL |
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 | 5 .61 RPM |
| SRP017611_kidney | 0 .00 RPM | 7 .47 RPM |
| SRP017611_liver | 0 .00 RPM | 7 .26 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2757 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2757 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2757 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 | ENSRNOG00000015230 | 1 retrocopy |
retro_rnor_2757 ,
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