RetrogeneDB ID: | retro_ogar_3343 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873786.1:20742..22388(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOGAG00000034569 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PDPK1 | ||
| Ensembl ID: | ENSOGAG00000005147 | ||
| Aliases: | None | ||
| Description: | 3-phosphoinositide dependent protein kinase-1 [Source:HGNC Symbol;Acc:8816] |
Retrocopy-Parental alignment summary:
>retro_ogar_3343
ACGGTTCCTCTCCAGTCCAGTGTGGTGTGATGTCCCTGCCCCAGTCTCCATCAGCGGTGAGCACTGAGTCCCGCGCGGTT
CCTGGCGTTCCCGGTGGTGAGACAAGACAGGACCCCACCATGGACGGCGCCACCACCGAGGGCCTGGCGGGCGCTTGCTC
CCTGCAGCAGGCTTCCCAGCCACTGCCGCCACCACTGCCCGAGAAGAAACGGCCCCAAGACTTCCAGTTTGGGAAAATTC
TTGGCGAAGGTTCTTTTTCGACAGTTGTCCTGGCTCGAGAACTGGCAACCTCCAGGGAATATGCTATTAAAATTCTAGAG
AAAAAGCATATTATCAAAGAGAACAAGGTACCGTATGTAACCACAGAGCGAGATGTGATGTCGCGCCTGGATCATCCCTT
CTTTGTGAAGCTTTACTTCACGTTTCAGGATGAAAAAAGGCTGTATTTTGGCCTTAGTTATGCTCAAAACGGAGCACTTC
TTAAATACCTTCGCAGAATTGGTTCACTCGATGAGACCTGCGCTCGATTCTACACTGCTGAGATCGTGTCCGCCCTAGAG
TACTTGCACAGCAAGGGCATTATTCATAGGGACTTGAAGCCAGAAAACATTCTGTTAAATGCAGATATGCACATCCAGAT
CACAGATTTTGGAACAGCGAAAGTCTTGTCTCCAGAGAGCAAAGAAGTCAGGGCCTACTCGTTCGTAGGAACAGCACAAT
TCGTCTCTCCTGAGCTGCTCACAGAGAAATCAGCCTGTAAAAGTTCAGATCTTTGGGCTCTTGGATGCATCCTATACCAG
TTTGTGGCAGGCTTCCCACCGTTCCGAGCCGGAAATGAATATCTTGTATTTCAGAAGATCATGAAACTGGACTATGACTT
TCCAGAAAAATTCTTCCCAAAGGCAAGAGATCTCGTGGAAAAACTTCTGGTTTTAGATGCCACGAAGCGGTTAGGCTGTG
AAGAAATGGAAGGGTACGGACCGCTTAAAGCTCATCCGTTCTTTGAGTCCATTACGTGGGAGACTCTGCACCTGCAGACA
CCCCCGAAGCTCACCACTTCCTTACCAGGCGCGTTGGAAGACATCGAGGAGGACTACGGCAACTATGACAATGTCCTGAG
CCAGTTTGCCGGCATACAGGTGTCATCATCTTCCTCCTCCCGCACCTTGTCTCGTCAGGATGCCAAAAGACCCCAGAAGT
CCCGCTGCAGCATAGAACGGTACATCCACATTTTGGACCCTAATTCTCTAGAACTGGACCTACGGTTTTCTGAAGAAGAG
AAGAGGTTACTATTGGAGAAGCAGGCTGGTGGAAACCCTTGGCATCGGTTTGTAGAAAATAATTTAATACTAAAAATGGG
TCCAGTGGATAAGCGAAGGGGGCTGTTTGCACGACGACGACAGTTATTGCTCACAGAAGGGCCACATTTATATTATGTGG
ATCCTGTCAACAAAGTCCTGAAAGGTGAAATTCCGTGGTCGCAAGAACTCCGACCAGAGGCCAAAAATTTTAAAACTTTC
TTTGTTCATACGCCTAACAGGACATATTACCTGATGGATCCGTGTGGGAATGCTCACAAGTGGTGCCAAAAGATCCAGGA
GGTTTGGACAAAGCTATACCAGAGCCACCCGGCTGCTGGCATGCAG
ORF - retro_ogar_3343 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.64 % |
| Parental protein coverage: | 98.21 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TVPIQSSVVLC-SCP-SPSMVRTQTESGTVPGIPGGGSSRQGPTMDGTTAESRPSASSLQHAAQPALQP- |
| TVP.QSSVV.C.S.P.SPS.V...TES..VPG.PGG...RQ.PTMDG.T.E....A.SLQ.A.QP...P. | |
| Retrocopy | TVPLQSSVV*C<SLPQSPSAV--STESRAVPGVPGG-ETRQDPTMDGATTEGLAGACSLQQASQPLPPPL |
| Parental | -RKKRPEDFKFGKILGEGSFSTVVLARELATSREYAIKILEKRHIIKENKVPYVTRERDVMSRLDHPFFV |
| ..KKRP.DF.FGKILGEGSFSTVVLARELATSREYAIKILEK.HIIKENKVPYVT.ERDVMSRLDHPFFV | |
| Retrocopy | PEKKRPQDFQFGKILGEGSFSTVVLARELATSREYAIKILEKKHIIKENKVPYVTTERDVMSRLDHPFFV |
| Parental | KLYFTFQDDEKLYFGLSYAKNGELLKYIRKIGSFDETCTRFYTAEIVSALEYLHGKGIIHRDLKPENILL |
| KLYFTFQD...LYFGLSYA.NG.LLKY.R.IGS.DETC.RFYTAEIVSALEYLH.KGIIHRDLKPENILL | |
| Retrocopy | KLYFTFQDEKRLYFGLSYAQNGALLKYLRRIGSLDETCARFYTAEIVSALEYLHSKGIIHRDLKPENILL |
| Parental | NEDMHIQITDFGTAKVLSPESKQARANSFVGTAQYVSPELLTEKSACKSSDLWALGCIIYQLVAGLPPFR |
| N.DMHIQITDFGTAKVLSPESK..RA.SFVGTAQ.VSPELLTEKSACKSSDLWALGCI.YQ.VAG.PPFR | |
| Retrocopy | NADMHIQITDFGTAKVLSPESKEVRAYSFVGTAQFVSPELLTEKSACKSSDLWALGCILYQFVAGFPPFR |
| Parental | AGNEYLIFQKIIKLEYDFPEKFFPKARDLVEKLLVLDATKRLGCEEMEGYAPLKAHPFFESITWENLHQQ |
| AGNEYL.FQKI.KL.YDFPEKFFPKARDLVEKLLVLDATKRLGCEEMEGY.PLKAHPFFESITWE.LH.Q | |
| Retrocopy | AGNEYLVFQKIMKLDYDFPEKFFPKARDLVEKLLVLDATKRLGCEEMEGYGPLKAHPFFESITWETLHLQ |
| Parental | TPPKLTAYLPAMSEDDEDCYGNYDNLLSQFGCMQVSSSSSSHSLSALDASLPQRSGSNIEQYIHDLDTNS |
| TPPKLT..LP...ED.E..YGNYDN.LSQF...QVSSSSSS..LS..DA..PQ.S...IE.YIH.LD.NS | |
| Retrocopy | TPPKLTTSLPGALEDIEEDYGNYDNVLSQFAGIQVSSSSSSRTLSRQDAKRPQKSRCSIERYIHILDPNS |
| Parental | FELDLQFSEEEKRLLLEKQAGGNPWHQFVENNLILKMGPVDKRKGLFARRRQLLLTEGPHLYYVDPVNKV |
| .ELDL.FSEEEKRLLLEKQAGGNPWH.FVENNLILKMGPVDKR.GLFARRRQLLLTEGPHLYYVDPVNKV | |
| Retrocopy | LELDLRFSEEEKRLLLEKQAGGNPWHRFVENNLILKMGPVDKRRGLFARRRQLLLTEGPHLYYVDPVNKV |
| Parental | LKGEIPWSQELRPEAKNFKTFFVHTPNRTYYLMDPSGNAHKWCRKIQEVWRQRYQSHPDAAVQ |
| LKGEIPWSQELRPEAKNFKTFFVHTPNRTYYLMDP.GNAHKWC.KIQEVW...YQSHP.A..Q | |
| Retrocopy | LKGEIPWSQELRPEAKNFKTFFVHTPNRTYYLMDPCGNAHKWCQKIQEVWTKLYQSHPAAGMQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_3343 was not experimentally validated.
Retrocopy orthology:
Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Otolemur garnettii | ENSOGAG00000005147 | 1 retrocopy |
retro_ogar_3343 ,
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