RetrogeneDB ID: | retro_rnor_1743 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 20:46174363..46174796(+) | ||
| Located in intron of: | ENSRNOG00000000596 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cldn7 | ||
| Ensembl ID: | ENSRNOG00000017325 | ||
| Aliases: | None | ||
| Description: | Claudin-7 [Source:UniProtKB/Swiss-Prot;Acc:Q9Z1L1] |
Retrocopy-Parental alignment summary:
>retro_rnor_1743
ATGTACGACTCAGTGCTCGCCCTGCTGGCCGCCCTGCAGGCCGCTGGAGCCTTATTGGTGGTGGCCCTGGTGTTGGGCTT
CCTGGCCGTGTTGTCACCATGAGGAACATGAAGTGCACACGAAGTGGTGGAGATGACAAAGCGAGGAAGGCCCGTAAAGC
TGTGACAGGCATTGTTTTTATCGTGGCAGGTCTCGCTGCCTTGTAGCGTGCTCCTGGATTGGTCATCAGATGGTCACAGA
CTTTTATAACCCCTTGATGCCCATGAACATTAAGTACGGGTTTGGTCCTGCTATCTTTATTGACTGGGCAGGGTCTGCTC
TGGGCCTTCTGGGAGGTGCCCTGCTCTCTTGCTCCTGTCCTGGCAGTGAAAGCTAAGTTGTACACCGTGTACCCCGCTCC
TACCCCAAGTCCAATTCTTCCAAGGATTACGTG
ORF - retro_rnor_1743 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.7 % |
| Parental protein coverage: | 69.19 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MYDSVLALPAATQATRALMIVSLVLGFLAMF-VATMGMKCTRCGGDDKVKKARIAMTGGIIFIVAGLAAL |
| MYDSVLAL.AA.QA..AL..V.LVLGFLA...V....MKCTR.GGDDK..KAR.A.TG.I.FIVAGLAAL | |
| Retrocopy | MYDSVLALLAALQAAGALLVVALVLGFLAVL<VTMRNMKCTRSGGDDKARKARKAVTG-IVFIVAGLAAL |
| Parental | -VACSWIGHQIVTDFYNPLTPMNIKYEFGPAIFIGWAGSALVLLGGALLSCSCPGSESKAAYRAPRSYPK |
| .VACSWIGHQ.VTDFYNPL.PMNIKY.FGPAIFI.WAGSAL.LLGGALLSCSCPGSES....R.PRSYPK | |
| Retrocopy | <VACSWIGHQMVTDFYNPLMPMNIKYGFGPAIFIDWAGSALGLLGGALLSCSCPGSES*VVHRVPRSYPK |
| Parental | SNSSKEYV |
| SNSSK.YV | |
| Retrocopy | SNSSKDYV |
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 | 11 .65 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .94 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1743 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1743 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1743 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 | ENSRNOG00000017325 | 1 retrocopy |
retro_rnor_1743 ,
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