RetrogeneDB ID: | retro_ocun_1599 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | GL018709:244747..244938(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DYNLT1 | ||
| Ensembl ID: | ENSOCUG00000013012 | ||
| Aliases: | None | ||
| Description: | dynein, light chain, Tctex-type 1 [Source:HGNC Symbol;Acc:11697] |
Retrocopy-Parental alignment summary:
>retro_ocun_1599
AAGACTTGAAGCCAACTCACAAAGCTGGGGAAACCATTCAAATACACTATGACCTACGTCATCATGCAGAAGAACTGAGC
TGGGCCCATACAGGGAGTTCTTGCTTCTAGGACAGCTCTCCTGATGGGAGCTGCAACATACCACCAGAAAACAAGATCAT
GCAGGGCATCATCTGTGCCTTCAGCCTGTCC
ORF - retro_ocun_1599 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.69 % |
| Parental protein coverage: | 56.64 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | QTLSQLTKLGKPFKYIVTCVIMQKNGAG-LHTASSCFWDSSTDGSCTVRWENKTMYCIVSAFGLS |
| .T.SQLTKLGKPFKY..T.VIMQKN.AG..HT.SSCF.DSS.DGSC....ENK.M..I..AF.LS | |
| Retrocopy | KT*SQLTKLGKPFKYTMTYVIMQKN*AG<AHTGSSCF*DSSPDGSCNIPPENKIMQGIICAFSLS |
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 | 7 .28 RPM |
| SRP017611_kidney | 0 .00 RPM | 15 .30 RPM |
| SRP017611_liver | 0 .00 RPM | 15 .11 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1599 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1599 was not experimentally validated.