RetrogeneDB ID: | retro_mmus_2247 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 3:47050384..47051641(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000072387 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Ikzf5 | ||
| Ensembl ID: | ENSMUSG00000040167 | ||
| Aliases: | Ikzf5, 2610034F18Rik, PEGASUS, Zfpn1a5 | ||
| Description: | IKAROS family zinc finger 5 [Source:MGI Symbol;Acc:MGI:1914393] |
Retrocopy-Parental alignment summary:
>retro_mmus_2247
ATGGGTGAAAAGAAACCAGAGCCTTTGGACTTTGTAAAAGATTTCCCGGAATACCTGACCCAGCAGACGCATCATGTGAA
CATGATTTCGGGATCTGTTAGTGGGGACAAAGAAGCAGAGACTCTTCAGGGAGCTGAAGCAGATGGCGATCAAAATGGCC
TTGATCACCCGTCTGTTGAAGTTTCCCTGGATGAAAACTCAGGAATGTTAGTAGACGGGTTTGAGAGGACCTTCGATGGG
AAGCTCAAGTGTCGGTACTGCAACTATGCCAGCAAAGGAACGGCCAGGCTCATTGAGCACATCAGGATCCACACAGGCGA
GAAGCCTCACAGGTGTCACTTATGTCCATTTGCATCTGCTTACGAGCGCCACCTGGAATCCCATATGCGCTCTCACACTG
GGGAAAAACCATACAAATGTGAATTGTGCTCCTTCTGCTGCAGTGACCGAAGTAACCTGTCCCACCATCGAAGGCGCAAA
CATAAAATGGTACCAATTAAAGGTACCAGGTCTTCCTTAAGCAGCAAGAAAATGTGGGGGGTTTTACAAAAGAAAACAAG
CAATCTGGGGTATAGCAGAAGAGCACTAATCAACTTAAGTCCACCTTCCATGGTGGTCCAGAAACCAGACTACCTTAATG
ATTTTACACACGAAATCCCAAATATTCAGACTGACTCCTATGAAGCTATGGCTAAAACTACACCAACTGGTGGCCTGCCA
AGGGACCCCCAAGAACTCATGGTTGACAACCCTTTGAATCAGCTCTCTACTTTAGCAGGACAGTTCTCCAGCTTGCCACC
AGAAAACCAAAACCCTGCCTCTCCTGATGTAGATGCCTGCCCTGATGAAAAGCCTTTCATGATTCAGCAACCCTCTGCCC
AAGCAGTTGTCTCTGCTGTGTCAGCAAGTATTCCTCAGAGCTCCTCCCCCACAAGTCCGGAACCGTGGCCATCACATAGT
CAGAGGAACTACAGTCCAGTGGCAGGGCCCAGCAGTGAACCAAGTGCCCACACCAGTACTCCCAGCATAGGAAACAGCCA
GCCAAGCACTCCAGCTCCAACCCTGCCGGTGCAGGATCCTCAGCTTCTACACCACTGCCAGCACTGTGACGTGTACTTTG
CAGACAACGTCCTTTACACTGTCCATATGGGGTGCCATGGGTATGACAGCCCCTTTCAGTGTAACGTATGTGGGTACAAA
TGTAAAGACAAGTACGATTTTGCCTGTCATTTTGCAAGAGGGCAACACAACCAGCAC
ORF - retro_mmus_2247 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.09 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MGEKKPEPLDFVKDFQEYLTQQTHHVNMISGSVSGDKEAETLQGAGTDGDQNGLDHPSVEVSLDENSGML |
| MGEKKPEPLDFVKDF.EYLTQQTHHVNMISGSVSGDKEAETLQGA..DGDQNGLDHPSVEVSLDENSGML | |
| Retrocopy | MGEKKPEPLDFVKDFPEYLTQQTHHVNMISGSVSGDKEAETLQGAEADGDQNGLDHPSVEVSLDENSGML |
| Parental | VDGFERTFDGKLKCRYCNYASKGTARLIEHIRIHTGEKPHRCHLCPFASAYERHLEAHMRSHTGEKPYKC |
| VDGFERTFDGKLKCRYCNYASKGTARLIEHIRIHTGEKPHRCHLCPFASAYERHLE.HMRSHTGEKPYKC | |
| Retrocopy | VDGFERTFDGKLKCRYCNYASKGTARLIEHIRIHTGEKPHRCHLCPFASAYERHLESHMRSHTGEKPYKC |
| Parental | ELCSFRCSDRSNLSHHRRRKHKMVPIKGTRSSLSSKKMWGVLQKKTSNLGYSRRALINLSPPSMVVQKPD |
| ELCSF.CSDRSNLSHHRRRKHKMVPIKGTRSSLSSKKMWGVLQKKTSNLGYSRRALINLSPPSMVVQKPD | |
| Retrocopy | ELCSFCCSDRSNLSHHRRRKHKMVPIKGTRSSLSSKKMWGVLQKKTSNLGYSRRALINLSPPSMVVQKPD |
| Parental | YLNDFTHEIPNIQTDSYEAMAKTTPTGGLPRDPQELMVDNPLNQLSTLAGQLSSLPPENQNPASPDVDAC |
| YLNDFTHEIPNIQTDSYEAMAKTTPTGGLPRDPQELMVDNPLNQLSTLAGQ.SSLPPENQNPASPDVDAC | |
| Retrocopy | YLNDFTHEIPNIQTDSYEAMAKTTPTGGLPRDPQELMVDNPLNQLSTLAGQFSSLPPENQNPASPDVDAC |
| Parental | PDEKPFMIQQPSAQAVVSAVSASIPQSSSPTSPEPRPSHSQRNYSPVAGPSSEPSAHTSTPSIGNSQPST |
| PDEKPFMIQQPSAQAVVSAVSASIPQSSSPTSPEP.PSHSQRNYSPVAGPSSEPSAHTSTPSIGNSQPST | |
| Retrocopy | PDEKPFMIQQPSAQAVVSAVSASIPQSSSPTSPEPWPSHSQRNYSPVAGPSSEPSAHTSTPSIGNSQPST |
| Parental | PAPTLPVQDPQLLHHCQHCDVYFADNVLYTVHMGCHGYDSPFQCNVCGCKCKDKYDFACHFARGQHNQH |
| PAPTLPVQDPQLLHHCQHCDVYFADNVLYTVHMGCHGYDSPFQCNVCG.KCKDKYDFACHFARGQHNQH | |
| Retrocopy | PAPTLPVQDPQLLHHCQHCDVYFADNVLYTVHMGCHGYDSPFQCNVCGYKCKDKYDFACHFARGQHNQH |
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 |
|---|---|---|
| SRP007412_brain | 0 .07 RPM | 16 .45 RPM |
| SRP007412_cerebellum | 0 .26 RPM | 16 .33 RPM |
| SRP007412_heart | 0 .06 RPM | 13 .17 RPM |
| SRP007412_kidney | 0 .15 RPM | 11 .70 RPM |
| SRP007412_liver | 0 .11 RPM | 5 .71 RPM |
| SRP007412_testis | 0 .32 RPM | 7 .41 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2247 was not detected
No EST(s) were mapped for retro_mmus_2247 retrocopy.
No TSS is located nearby retro_mmus_2247 retrocopy 5' end.
retro_mmus_2247 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2247 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000023847 | 1 retrocopy | |
| Cavia porcellus | ENSCPOG00000021914 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000040167 | 1 retrocopy |
retro_mmus_2247 ,
|
| Oryctolagus cuniculus | ENSOCUG00000013340 | 1 retrocopy |