RetrogeneDB ID: | retro_ocun_283 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 1:46542411..46542780(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOCUG00000026913 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC50A1 | ||
| Ensembl ID: | ENSOCUG00000023383 | ||
| Aliases: | None | ||
| Description: | solute carrier family 50 (sugar efflux transporter), member 1 [Source:HGNC Symbol;Acc:30657] |
Retrocopy-Parental alignment summary:
>retro_ocun_283
GCACTACTGCCCTCAGAAGCATCCCTGCTGGGGTTCCTTCTCCTGGGCTATGCCTATTTCTGTCTCCTGGTGCCTGACCC
CAAGGCTGGGCTTTCACAGCTGGGCCTCTTCTGCAGCCTCTTCACCATCAGCATGTACCGCTCACCGCTGGCTGACCTGG
TCAGGGTCGTTCAGACTAAATCAACAAAACGTCTCTTCTTCTCACTCACAATTGTCACCCTCTTTACCTCTGCCTCCTGG
TCTCTCAATGGGTTTCAACTCCAAGATCCCTACATCATAGTGCCCAACCTTCCGGAAATCCTCACCAGCTTCTGGCTTTT
CTGGAAGTACCCACAAGAGCAAGACAGGAACTATCAGCTCCTGCAAACC
ORF - retro_ocun_283 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.57 % |
| Parental protein coverage: | 56.76 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | AVLLPTASLLGFLVLGYAYFWLLVPDPEAQLQQLGLFCSVFTISMYVSPLADLAKVIQTKSTKRLSFSLT |
| A.L...ASLLGFL.LGYAYF.LLVPDP.A.L.QLGLFCS.FTISMY.SPLADL..V.QTKSTKRL.FSLT | |
| Retrocopy | ALLPSEASLLGFLLLGYAYFCLLVPDPKAGLSQLGLFCSLFTISMYRSPLADLVRVVQTKSTKRLFFSLT |
| Parental | IATLLTSASWSFYGFRLRDPYIMVPNLPGILTSFIRFWLFWKYPQEQDRNYRLLQT |
| I.TL.TSASWS..GF.L.DPYI.VPNLP.ILTSF...WLFWKYPQEQDRNY.LLQT | |
| Retrocopy | IVTLFTSASWSLNGFQLQDPYIIVPNLPEILTSF---WLFWKYPQEQDRNYQLLQT |
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 .11 RPM | 3 .75 RPM |
| SRP017611_kidney | 0 .10 RPM | 11 .05 RPM |
| SRP017611_liver | 0 .08 RPM | 10 .94 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_283 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_283 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_283 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 | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000023383 | 1 retrocopy |
retro_ocun_283 ,
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