RetrogeneDB ID: | retro_rnor_1924 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 3:144072379..144073129(-) | ||
| Located in intron of: | ENSRNOG00000005438 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Wbp4 | ||
| Ensembl ID: | ENSRNOG00000011678 | ||
| Aliases: | Wbp4, Fbp21 | ||
| Description: | WW domain-binding protein 4 [Source:UniProtKB/Swiss-Prot;Acc:Q5HZF2] |
Retrocopy-Parental alignment summary:
>retro_rnor_1924
ATGGCCGACTACTGGAAGTCACAACCGAAGAAATTCTGTGATTACTGCAAGTGCTGGATAGCTGACAATAGGCCTAGTGT
TGAATTTCATGAAAGAGGAAAGAACCACAAGGAAAATGTGGCCAGGAAGATCAGCGAGATTAAACAGAAAAGCCTGGATA
AGGCAAAGGAAGAAGAAAAGGCATCCAAGGAGTTTGCTGCCATGGAGGCGGCTGCCCTGAAGGCATACCAAGAGGATCTG
AAAAGGCTTGGCTTGCAGTCAGACATTTCAGAGCCAACTATATCACCAGTCACCAACACTGTCCAGCCCACCCCTACAGC
AAATCAACAGAAAGAGAAGAAAAAGAAGAAGAAAAAGAAAGAGGCTTCTAAGGGTAGATGGGTGGAAGGCATAACAGCCG
ACGGCCACTGTTACTATTATGATCTCGTCACAGGAGCATCTCAGTGGGAAAAGCCAGAAGGATTTCAAGGGAACTTAAAA
AAGACAGCAGCGAAGGCCATTTGGGTAGAAGGTTTAAGTGAAGATGGCTACACCTATTAGTATAATACAGAAACAGGAGA
ATCCAAATGGGAAAAGCCTGATGATTTCATTCCACATGGTGGTGATGTGCTTTCTAGTAAGGACAGTGAAAAGTTACCTG
ACACCCTAGAAGACTCCAAATCATCCGATTCTCACAGCGATTCTGATGATGAACAGAAGAAAGCGGGAGAGGCCTCTGCA
GAAACAAAGAAGCTAATAATCAAGTTTAAG
ORF - retro_rnor_1924 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.4 % |
| Parental protein coverage: | 66.84 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MADYWKSQPKKFCDYCKCWIADNRPSVEFHERGKNHKENVARKISEIKQKSLDKAKEEEKASKEFAAMEA |
| MADYWKSQPKKFCDYCKCWIADNRPSVEFHERGKNHKENVARKISEIKQKSLDKAKEEEKASKEFAAMEA | |
| Retrocopy | MADYWKSQPKKFCDYCKCWIADNRPSVEFHERGKNHKENVARKISEIKQKSLDKAKEEEKASKEFAAMEA |
| Parental | AALKAYQEDLKRLGLQSDISEPTISPVTNTVQPTPTANQQKEKKKKKKKKEASKGRWVEGVTADGHCYYY |
| AALKAYQEDLKRLGLQSDISEPTISPVTNTVQPTPTANQ............ASKGRWVEG.TADGHCYYY | |
| Retrocopy | AALKAYQEDLKRLGLQSDISEPTISPVTNTVQPTPTANQXXXXXXXXXXXXASKGRWVEGITADGHCYYY |
| Parental | DLVTGASQWEKPEGFQGNLKKTAAKAIWVEGLSEDGYTYYYNTETGESKWEKPDDFIPHGGDVLSSKDSE |
| DLVTGASQWEKPEGFQGNLKKTAAKAIWVEGLSEDGYTY.YNTETGESKWEKPDDFIPHGGDVLSSKDSE | |
| Retrocopy | DLVTGASQWEKPEGFQGNLKKTAAKAIWVEGLSEDGYTY*YNTETGESKWEKPDDFIPHGGDVLSSKDSE |
| Parental | KLPDTLEDSKSSDSHSDSDDEQKKAGEASAETKKLIIKFK |
| KLPDTLEDSKSSDSHSDSDDEQKKAGEASAETKKLIIKFK | |
| Retrocopy | KLPDTLEDSKSSDSHSDSDDEQKKAGEASAETKKLIIKFK |
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 | 15 .46 RPM |
| SRP017611_kidney | 0 .07 RPM | 13 .26 RPM |
| SRP017611_liver | 0 .07 RPM | 6 .39 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1924 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1924 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1924 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 | ENSRNOG00000011678 | 1 retrocopy |
retro_rnor_1924 ,
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