RetrogeneDB ID: | retro_rnor_2995 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | X:147696478..147696896(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Dmrtc1c | ||
| Ensembl ID: | ENSRNOG00000037923 | ||
| Aliases: | Dmrtc1c1, Dmrtc1c, Dmrtc1c2 | ||
| Description: | DMRT-like family C1c [Source:RefSeq peptide;Acc:NP_001014244] |
Retrocopy-Parental alignment summary:
>retro_rnor_2995
GGAAATGACAGGTGGGAGTTACCCCTTGATCCAACTTGGCCCTTCTGCCCCCAAGACAGGATCTGTCCAACCCCAGTGTG
CACTTCCTCCAACCCCTTCAGAGAGCTCCTATTTGCAGATTGTCTGCCAGGCTGTGAAATGCCAGAGAGCAATGGAGAAC
CTTGGACCAAAACAAAAGACAAATCAGCTATTCCCTGCTGGCCCTCCAACTTTGAATGAAACAAGGGTAGTAAGACTGGA
GCCACACCAGTAATCAAACTGGTCTGAGAGGACTTGCGAATCATTTTAGCAGAGGCCACAGTTGTTGCACCGGGACCCAA
GTCAGGGAACACAACAAGGCCCTGCTTGCTGTGAGTTCTGAGAAGAGTGTGAATGGTACATGCTAAAGAAATGCCAGATT
CAACTTCCAAGAACAACC
ORF - retro_rnor_2995 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.34 % |
| Parental protein coverage: | 50.36 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | GNGTEEAPSTPP-GPSASSTGSVQPPWALP-QPLQRATISRLPAGLGLAREQ-MSLRTMEPKDKPAVPCR |
| GN...E.P..P..GPSA..TGSVQP..ALP.QPLQRA.I.RL.A.L..AREQ.M.......K.....P.. | |
| Retrocopy | GNDRWELPLDPT>GPSAPKTGSVQPQCALP>QPLQRAPICRLSARL*NAREQ<MENLGPKQKTNQLFPAG |
| Parental | PST-SEYNMGNRTAAALPVM-EPRLRGHTSHAGRGHSCGSRIQVREQGEALLAVGSEKKGHSA-PIKRRQ |
| P.T..E.N.G..T.A..PV.....LRG...H..RGHSC....QVRE...ALLAV.SEK........K..Q | |
| Retrocopy | PPT<FE*NKGSKTGAT-PVI<QTGLRGLANHFSRGHSCCTGTQVREHNKALLAVSSEKSVNGT<MLKKCQ |
| Parental | IRLPRTT |
| I.LPRTT | |
| Retrocopy | IQLPRTT |
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 .07 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 29 .31 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_2995 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2995 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2995 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 | ENSRNOG00000037923 | 1 retrocopy |
retro_rnor_2995 ,
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