RetrogeneDB ID: | retro_rnor_627 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 1:190465727..190466280(-) | ||
| 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_627
GAGGTTCCTCGAGAATGCTTCATCCTGTTCACCCTCATTCTGCTCCCATAGCATTGCTATCTACATTAGTCCATCTCTAC
ACAACCCCATGTACTTCTTTCTGGCGAACTGATGTATCCTGGAAATTGGTTACACTGGCTCTGTCATACCCAAGATATGG
AGAGCTGTGTAAGTGAGATCTGAGGAATCTATCAGGAGGGATACGCCACACAAATATTTTCTTCACACTTTTAGGAATAA
CTGAATGCTGCCTATTGGCAGCCACGGCCTTTGGCCACTGTATGACCCCACTTCACTATTCAATCCAAATAGTATTGAGG
TATGTGTCCATTTGGCACTTTTTTCATGGGGATTAGGATGCCTTGTGGGGTTGGGTCAAAACTACTTGAGACCCAATTCT
AACCACCCACAAGGAGTTCATAAATTCTTTGTCATCTTCCATACCACAGTGACATCCATGCTGAACCCTATCATCTATAG
CTTAATGAACCAAGAAGTCAAGGCAGCACTGAGAAGAACTCTGGATCTGAAGAAAGTTCTGATAATAAGTAGA
ORF - retro_rnor_627 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.02 % |
| Parental protein coverage: | 58.31 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | EVPGEC-SLCSPSSALMAFAICTRPSLHTHMHFFLGNLCILEIGHTGSVTPKIWREVLIKVYKRISQEGC |
| EVP.EC.S.CSPS......AI...PSLH..M.FFL.N.CILEIG.TGSV.PKIWR.V.......I..... | |
| Retrocopy | EVPREC>SSCSPSFCSHSIAIYISPSLHNPMYFFLAN*CILEIGYTGSVIPKIWRAV*VRSEESIRRD-- |
| Parental | ASQMLFFTLFR-ITECFLLAVMAFGYRMAHLHYATQM-SREVCAHLAIVSWGIGCLVVLGQNYLRPKSNH |
| .....F...FR.ITEC.LLA..AFG..M..LHY..Q..S.EVC.HLA..SWG.GCLV.LGQNYLRP.SNH | |
| Retrocopy | TPHKYFLHTFR>ITECCLLAATAFGHCMTPLHYSIQI<SIEVCVHLALFSWGLGCLVGLGQNYLRPNSNH |
| Parental | PQEVDKFLVIFHTTVTSMLNPIIYSLMKQEVTAALRTTLGQKKVLIINR |
| PQ.V.KF.VIFHTTVTSMLNPIIYSLM.QEV.AALR.TL..KKVLII.R | |
| Retrocopy | PQGVHKFFVIFHTTVTSMLNPIIYSLMNQEVKAALRRTLDLKKVLIISR |
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_627 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_627 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_627 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 ,
|