RetrogeneDB ID: | retro_rnor_1522 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 2:117434870..117437081(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Senp5 | ||
| Ensembl ID: | ENSRNOG00000048136 | ||
| Aliases: | None | ||
| Description: | Protein Senp5 [Source:UniProtKB/TrEMBL;Acc:D4A2S8] |
Retrocopy-Parental alignment summary:
>retro_rnor_1522
ATGAAAAAACAGAAGAAAATTCTATGGAAGAAAGGAATTCACTTAGCCTTTTCTGAGAAATGGAATGCGGGATATGGAGG
CTTTAAGAAACTCTATTTTCCCCAAAACTTGTGCTTTCTGAAAGCTAAGCTGGGAAGGCCAGTTGTTTGGCATCGGCAGT
CGAAGCATTTCCAGTGTAATAAGAGGGGTCTTCACATCCAGAAAACATGGACCCAGAATGTACCACTTTGTTCAAAGACC
AAGTCTGGAGTGGCCACTCAAAATGTTAGTTCTTTGTATGCCAAAGTGAAAAGAAAGGACACTAAGCACTTCATTTCCTC
CTCCAGGAGTCTCCTGAAACTCCAAGCAGATAAATTACTTTCTTCAGCAAAGAACTTGGGCCGTGAATACTGCAGAGAGA
AAAGCCTTCTGAAGGCAGTTACTGGCTTGCCGGCAAATACTGTTTTAGGTAAGGCCAATGGTCACAAACCTAGCATGGAC
CCACAAGCTTCAGACTTTCCCATGAAGTTCAATGGGGAGAGCCAAAGTCCAAGTGACAGTGGCAAGACTGTGGTTTTGAA
CAAACATAGAAAACGAGTTTGTTATGGCTGCTACCAAGGGCTAGAGCACCACAGGAATAGGAGACCCCTGATTCCAAAAA
AGTTCCAACCTAACCAACATCAAAGAGTCAAAGTGTCTCTTATGATGTATGAGAAACTATCCATGATTAGATTTCGGTAT
AGGATTTTCAGATCCCAGCACTTCAGAACGAAAAGCAGAGTTTGCAAGCTAAGAAAAGCCCAGCGAAGCTGGGTGCAGAA
GGTCACTGGGGACCATCAAGAGAACTTTAGGGATAACAACACTGAGGGTGGCGATTGCAGCCCAGCCCCTTCCCTAGAAC
CTAAAGACCTTTGTCGGTGTCAGCCATACTTTCCAGACATGGACAGTAGTGCTGTGGTGAAGGGAAAAAACTGTCACGTG
CCTGATGGCCACACTAAAGAAAGTCCTGCCTTGGACAAGGAGCATGGTTTAGATGCAGCATTCCCTGACCAGCAGAATGG
CAGCACCACATACACTTGGGACCAGCCATCCTCTTCTCCTAAGTGGGAGTGTACAGAGCAAATTCATGAAATCCCTTTGA
TGGGACATCCTTCTAGTGACAACTTCACTCCGGGAACTGAAAGAGCTCTTATGACTCTGGGGCAGGAAAGCCGGACAAGT
GCTGTCAGCGATGACGGAGTGAAGCTGTCAGTGTCTGGAGCAGACGAATCTGTGAGTAGTGTAGATGGGCCTGTGTCTGA
GGAGCCCGCTCAGAACGAGAACTTCCAGATGGAGGAGGATGGGTCTCTCAGGCAGAACATTCTTAGTTCGAAACTGCTGG
ACCACCCTTACTGTAAGAGTCCACTGGATGCTCCCTTGGTGTGCAGTGAGCTCAAAGTAGAAAACCAAGTGGCAGGTGGC
AAGAGTGGCCAGACAGCGTCTCCCGTGGATGATGAGCAGCTCTCGACCTGCCTTTCTGGGTTCCTAGACGAGGTTATGAA
AAAGTATGGAAGTCTGGTCCCACTCAGTGAGAAAGATGTCCTTGGGAGATTAAAAGATGTCTTTAATGAAGACTTTTCTA
ATAGAAAACCATTTATCAATAGGGAAATAACAAACTACCGGGTCAGACATCAAAAGTGTAACTTCTGAATCTTCTACAAC
AAGCACATGCTGGATATGGACGACCTGGCAACTTTGGATGGTCAGAATTGGTTGAATGACCAGGTTATTAATATGTATGG
CGAGCTGATAATGGACGCAGTCCCCGACAAGGTCCACTTCTTCAACAGCTTTTTCCATAGACAGCTGGTAACCAAAGGCT
ATAATGGAGTTAAGAGATGGACTAAGAAGGTGGATTTGTTTAAAAAGAGTCTTCTGTTGATTCCCATCCACCTGGAGGTC
CACTGGTCTCTCATTACTGTGACACTCTCCAGTCGGATTATTTCATTTTATGATTCCCAAGGCATTCATTTTAAATTTTG
TGTAGAGAATATAAGAAAGTATTTGCTGACTGAAGCCAGAGAAAAAAATAGACCTGAATTTCTTCAGGGTTGGCAGACTG
CTGTTACAAAGTGTATTCCACAACAGAAAAATGACAGTGACTGTGGAGTCTTTGTGCTCCAGTACTGCAAGTGCCTCGCC
CTAGAGCAGCCTTTCCAGTTTTCTCAAGAAGACATGCCTCGTGCGGAAGAG
ORF - retro_rnor_1522 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.24 % |
| Parental protein coverage: | 98.27 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MKKQKKILWKKGIHLAFSEKWNAGFGGFKKLYFPQNLCFLKAKLGRPVVWHRQSKHFQCNKRGLHIQKTW |
| MKKQKKILWKKGIHLAFSEKWNAG.GGFKKLYFPQNLCFLKAKLGRPVVWHRQSKHFQCNKRGLHIQKTW | |
| Retrocopy | MKKQKKILWKKGIHLAFSEKWNAGYGGFKKLYFPQNLCFLKAKLGRPVVWHRQSKHFQCNKRGLHIQKTW |
| Parental | TQDVPLCSKTKSGVATQNVSSLYAKVKRKDTKHFISSSRSLLKLQADKLLSSAKNLGREYCREKSLLKAV |
| TQ.VPLCSKTKSGVATQNVSSLYAKVKRKDTKHFISSSRSLLKLQADKLLSSAKNLGREYCREKSLLKAV | |
| Retrocopy | TQNVPLCSKTKSGVATQNVSSLYAKVKRKDTKHFISSSRSLLKLQADKLLSSAKNLGREYCREKSLLKAV |
| Parental | TGLSANTVLGKANGHKPSTDPQASDFPMKFNGESQSPSDSGKTVVLNKHRKRVCYGCYQGLEHHRNRRPL |
| TGL.ANTVLGKANGHKPS.DPQASDFPMKFNGESQSPSDSGKTVVLNKHRKRVCYGCYQGLEHHRNRRPL | |
| Retrocopy | TGLPANTVLGKANGHKPSMDPQASDFPMKFNGESQSPSDSGKTVVLNKHRKRVCYGCYQGLEHHRNRRPL |
| Parental | IPKKFQPNQHRRVKVSLMMYEKLSMIRFRYRIFRSQHFRTKSRVCKLRKAQRSWVQKVTGDHQENFRDNN |
| IPKKFQPNQH.RVKVSLMMYEKLSMIRFRYRIFRSQHFRTKSRVCKLRKAQRSWVQKVTGDHQENFRDNN | |
| Retrocopy | IPKKFQPNQHQRVKVSLMMYEKLSMIRFRYRIFRSQHFRTKSRVCKLRKAQRSWVQKVTGDHQENFRDNN |
| Parental | TEGGDCSPVPSLEPKDPCRCQPYFPDMDSSAVVKGKNCHVPDGHTKESPALDKEHGLDAAFPDQQNGSTT |
| TEGGDCSP.PSLEPKD.CRCQPYFPDMDSSAVVKGKNCHVPDGHTKESPALDKEHGLDAAFPDQQNGSTT | |
| Retrocopy | TEGGDCSPAPSLEPKDLCRCQPYFPDMDSSAVVKGKNCHVPDGHTKESPALDKEHGLDAAFPDQQNGSTT |
| Parental | YTWDQPSSSPKWECTEQIHEIPLMGHPSSDNFTPGTERALMTLGQESGTSAVSDDGVKLSVSGADESVSS |
| YTWDQPSSSPKWECTEQIHEIPLMGHPSSDNFTPGTERALMTLGQES.TSAVSDDGVKLSVSGADESVSS | |
| Retrocopy | YTWDQPSSSPKWECTEQIHEIPLMGHPSSDNFTPGTERALMTLGQESRTSAVSDDGVKLSVSGADESVSS |
| Parental | VDGPVSEEPAQNENFQMEEDGSLRQNILSSKLLDHPYCKSPLDAPLVCSELKVENQVAGGKSGQTASPVD |
| VDGPVSEEPAQNENFQMEEDGSLRQNILSSKLLDHPYCKSPLDAPLVCSELKVENQVAGGKSGQTASPVD | |
| Retrocopy | VDGPVSEEPAQNENFQMEEDGSLRQNILSSKLLDHPYCKSPLDAPLVCSELKVENQVAGGKSGQTASPVD |
| Parental | DEQLSTCLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYRARHQKCNFRIFYN |
| DEQLSTCLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYR.RHQKCNF.IFYN | |
| Retrocopy | DEQLSTCLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYRVRHQKCNF*IFYN |
| Parental | KHMLDMDDLATLDGQNWLNDQVINMYGELIMDAVPDKVHFFNSFFHRQLVTKGYNGVKRWTKKVDLFKKS |
| KHMLDMDDLATLDGQNWLNDQVINMYGELIMDAVPDKVHFFNSFFHRQLVTKGYNGVKRWTKKVDLFKKS | |
| Retrocopy | KHMLDMDDLATLDGQNWLNDQVINMYGELIMDAVPDKVHFFNSFFHRQLVTKGYNGVKRWTKKVDLFKKS |
| Parental | LLLIPIHLEVHWSLITVTLSSRIISFYDSQGIHFKFCVENIRKYLLTEAREKNRPEFLQGWQTAVTKCIP |
| LLLIPIHLEVHWSLITVTLSSRIISFYDSQGIHFKFCVENIRKYLLTEAREKNRPEFLQGWQTAVTKCIP | |
| Retrocopy | LLLIPIHLEVHWSLITVTLSSRIISFYDSQGIHFKFCVENIRKYLLTEAREKNRPEFLQGWQTAVTKCIP |
| Parental | QQKNDSDCGVFVLQYCKCLALEQPFQFSQEDMPRVRK |
| QQKNDSDCGVFVLQYCKCLALEQPFQFSQEDMPR... | |
| Retrocopy | QQKNDSDCGVFVLQYCKCLALEQPFQFSQEDMPRAEE |
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 | 1 .29 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .35 RPM |
| SRP017611_liver | 0 .07 RPM | 0 .47 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1522 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1522 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1522 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000001773 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000048136 | 2 retrocopies |
retro_rnor_1522 , retro_rnor_531,
|
| Tursiops truncatus | ENSTTRG00000013899 | 1 retrocopy |