RetrogeneDB ID: | retro_rnor_2416 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 7:5963747..5964661(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Olfr798 | ||
| Ensembl ID: | ENSRNOG00000043382 | ||
| Aliases: | None | ||
| Description: | olfactory receptor 798 [Source:MGI Symbol;Acc:MGI:3030632] |
Retrocopy-Parental alignment summary:
>retro_rnor_2416
GTGAGTGAGTTTATTCTTCTGGAATTAAAAAATGACCCAAAGCTAATAATTTTGATTTTTTGTAATTTTATTTCTCACTT
ATATTTTGAGCATTACTGGAAATCTGACAATGATTACCCTCACTCTGATAGATTCATACCTCAAGATGCCCATGTACTTC
TTCATCACAAATTTCTCTTTCCTAGAAATCACATTTACAACAGGTTCCATTTCTAAGATCCTTGTGAGCATTGTAACCGG
GGATATGACCATCTCCTACAACTTATGCATGACTCAGGTGTTCTTCTTTATACTCCTGGGTTCATCTGATCGTTTCCTTT
TGACTACTATGTCCTGTGACCAATATGTGGCTATCTGTAAGCCCTTGAATTACACCAAAATAATGAACAGCAGGGTCTGC
ATCCAGCTCAGAGTTAGCTTTTGTCTGGCTAAATTTCTCATAATCTTTCCACCCGCGATTATGGGCCTTCAACTGGACTT
ATGTGACTCCAACATCAATGACCATTTCACCTGTGACTCCTCCCCCATGCTTCTCATCTCTTGCACAGATACAGCCTTTC
TGGAAATCTTGGCATTTCTCCTGGCAGAATCTACCCTCATGGTAACTTTCTCATTAATGATTCTGTCCTATATGTTCATC
CTTAGGACAAGTCTAAGAATCCCCTCTGCTGAACAAAGAAAAAAGGCCTTTTCTACCTGTTCCTCACACATGATTATTGT
GTCCATTTCCTATGAAGCTGTATATTCATACATGTCAAAACTTCAGCAAAGGAAGGCATCGTTTTGAATAAGGGTATAGC
AGTGGTCAACACCTCTGTTGCCCCTATGCTGAATCCTTTTATTTACTCCATTAGAAACAACCAAGTAAAAGAATTCTTTA
AACCTTGATCCAAAAATGCAATTCAAATAATAAT
ORF - retro_rnor_2416 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.25 % |
| Parental protein coverage: | 98.06 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | VSEFILLGLTNDPKLNILIF-IFLFLTYILSITGNLTIITLTLIDSHLKTPMYFFLRNFSFLEIALTV-S |
| VSEFILL.L.NDPKL.ILIF...LFLTYILSITGNLT.ITLTLIDS.LK.PMYFF..NFSFLEI..T..S | |
| Retrocopy | VSEFILLELKNDPKLIILIF>VILFLTYILSITGNLTMITLTLIDSYLKMPMYFFITNFSFLEITFTTGS |
| Parental | IPRFLVSIVTGDMTISFNSCMAQVFFFILLGSTEFFLLTAMSYDRYVAICKPLHYATIMNSRVCIQLIVD |
| I...LVSIVTGDMTIS.N.CM.QVFFFILLGS...FLLT.MS.D.YVAICKPL.Y..IMNSRVCIQL.V. | |
| Retrocopy | ISKILVSIVTGDMTISYNLCMTQVFFFILLGSSDRFLLTTMSCDQYVAICKPLNYTKIMNSRVCIQLRVS |
| Parental | SWLAGFLIIFPPVLMGLQLDFCDSNIIDHFTCDSSPMLLLFCTDIAFLELLAFFLAVFTLMVTFSLVVLS |
| ..LA.FLIIFPP..MGLQLD.CDSNI.DHFTCDSSPMLL..CTD.AFLE.LAF.LA..TLMVTFSL..LS | |
| Retrocopy | FCLAKFLIIFPPAIMGLQLDLCDSNINDHFTCDSSPMLLISCTDTAFLEILAFLLAESTLMVTFSLMILS |
| Parental | YMFILRKILRIPSAEQRKKAFSTCSSHMIVVSISYG-GCIFMYVKTSAKEGVALTKGIAVLNTSVAPMLN |
| YMFILR..LRIPSAEQRKKAFSTCSSHMI.VSISY...CIF..VKTSAKEG..L.KGIAV.NTSVAPMLN | |
| Retrocopy | YMFILRTSLRIPSAEQRKKAFSTCSSHMIIVSISYE<SCIFIHVKTSAKEGIVLNKGIAVVNTSVAPMLN |
| Parental | PFIYSLRNKQVKESFK-TLVKKCISNNN |
| PFIYS.RN.QVKE.FK.TL..KC.SNNN | |
| Retrocopy | PFIYSIRNNQVKEFFK<TLIQKCNSNNN |
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_2416 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2416 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2416 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000043382 | 3 retrocopies |
retro_rnor_1044, retro_rnor_2416 , retro_rnor_2497,
|
| Rattus norvegicus | ENSRNOG00000045823 | 1 retrocopy |