RetrogeneDB ID: | retro_ogar_2191 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873600.1:5159764..5162262(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PSMD1 | ||
| Ensembl ID: | ENSOGAG00000012201 | ||
| Aliases: | None | ||
| Description: | proteasome (prosome, macropain) 26S subunit, non-ATPase, 1 [Source:HGNC Symbol;Acc:9554] |
Retrocopy-Parental alignment summary:
>retro_ogar_2191
ATGATCATCTCAGCCGCTGGAATTATTTCTCTTCCAGATGAAGAAGAACCACAGCTTAAGGAATTTGCACTACACAAATT
GAATGCAGTTGTCAATGACTCCTGGGCAGAAATTTCTGAGTCTGTAGACAAAATAGAAGTTTTGTACGAAGATGAAGGTT
TCCAGAGTTGGCGGTTTTCAGCCTTAGTGGCATCTAAAGTATTTTATCACCTGGGGGCTTTTGAGGATCTCTGAATTATG
CTCTTGGAGCAGGTGACCTCTTCAATGTCAAAGATAACTCTGAATATGTGGAGACTATTACAGCAAAATGCATTGATCAT
TATACCAAACAGTGTGTGGAAAATGCAGATTTGCCTGAAGGAGAAAAACCAATTAACTAGAGATTGGAAGGCATTGTGAA
TAAAATGTTCCAACGATGTCTAGATGATCACAAGTATAAACAGGCTGTTGGCATCGCTTTGGAGAGACAAAGACTGGATG
TCTTCGAAAAACCCATACTGGAGTCGAATGATGTTCCAGGAATGCTAGCTTATAGCCTTAAGTTATGCATGTCTTTAATG
CAGAATAAACAGTTTCAGAATAAAGTTCTAAGAGTTCTAGTTAAAATCTACATGAACTTGGAGAAACCTAATTTCACCAA
TGTTTATCAGTGCTTAATTTTCTTAGATGATTCTCAAGCTGTGAGTGATATCTTAGAAAAACTGGTAAAGGAAGACAACC
TCCTGATGGCTTATCAGATTTGTTTTGACTTGTATGAAAGTGTTAGCCAGCAATTTTTGTCATCTGTAATTCAGAATCTT
CGAACTGTTGGCACCCCCTATTGCTTCTGTGCCTGGATCCACCAATACGGGTACTGTTCTGGAATCAGAGAAAGACAGTG
ATTAAATGGAAACAGAAGAAAAGACAGGCAGTGTACTTGTAGGAAAAACACCAGAAGCAAGTCCAGAGCCCAAGGACCAG
ACTTTGAAAATGATTAAAATTTTAAGTGGTGAAATGGCTATTGAGTTACACCTGCAGTTCTTAATACGAAACAATAACAC
AGACCTCATGATTCTAAAAAACACAAAGGAGGCAGTACGGAATTCTGTATGTCATACAGCAACTGTTATAGCAAACTCTT
TATGCACTGTGGGACTACCAGTGACCAGTTTCTTAGAGATAACTTGGAATGGTTGGCCAGAGCCACTAACTGGGCAAAAT
TTACTGCTACAGTCAGTTTGGGTGTAATTCATAAGGGTCATGAGAAGGAAGCTTTACAATTAATGGCAACATACCTTCCC
AAGGATACTTCTCCAGGATCGGCCTATCAGGAAGGTGGTGGTCTCTATGCATTGGGTCTTATTCATGCCAATCATGGTAG
TGATATCATTGACTATCTGCTTAATCAGCTTAAGAATGCCAGCAAGGATATTGTTGGGCATGGTGGCAGTTTGGGCCTTG
GTTTGGCTGCCATGGGAATCGCACATCAGAATGTGTGTGATTTGCTGAAAACAAACCTTTATCAGGATGATGCTGTCACA
GGGGAAGCAGCTGGCCTCACCCTAGGACTGGTTATGTTGGGCTCTAAAAATGCCCAGGCAATTGAGGACATGGTTGGCTA
CGCACAAGAAACTCAACATGAGAAGATTCTATGTGGTCTTGCAGTTGGCATCGCATTAGTAATGTATGGGAGGATGGAAG
AGGCTGATGCTCTCATTGAATCTCTCTGTCATGATAAGGACCCAATTCTTGGTTGGTCTAAAATGTATATTGCAGCCATG
GCCTATTGTGGCTCTGGTAACAACAAAGTTATTCGACACCTGCTACATGTTGCAGTAAGTGATGTTAATGATGATGTCAG
GAGGGCAGTAGTAGAATCACTTGGGTTTATTCTATTCACGACCCCTGAACAGTGCCCCACTGTTGTTTCTTTGTTGTCAG
AGAGCTACAACCCTCACGTGTGCTATGGAGCTGCAATGGCCTTGGGGATCTGCTGTGCTGGTACAGGAAACAAGGAAGCT
ATTAATTTGCTAGAACCCATGACAAATGACTCTGTGAACTACGTGAGGCAAGGGGCACTCATAGCTTCAGCTCTCATTAT
GATCCAGCAGACTGAAATCACTTGTCCCAAGGTGAATCAGTTCAGACAGCTATATTCCAAAGTTATCAACGATAAACATG
ATGATGTCATGGCCAAGTTTGGTGCTATCCTGGCCCAGGGCATACTGGATGCAGGTGGTCATAATGTCACAATCTCCTTA
CAGTCCAGGACTGGGCACACTCATACGCCTTCTGTGGTTGGCATTCTTGTCTTTACCCAGTTCTGGTTCTGGTTTCCTCT
TTCATACTTCCTGTCATTGGCTTATACCCCTACCTGTGTCATTGGCCTTAACAAGGACTTAAAGATGCTGAAAGTTCAGT
ATAAATCAAACTGTAAACCATCTACATTTGCATATCTTGACCCTCTGGAAGTACCAAAGGAAAAGGAAAAGGTTTCTACT
GCTGTGTTATCTATAACT
ORF - retro_ogar_2191 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.85 % |
| Parental protein coverage: | 87.72 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | MITSAAGIISLLDEEEPQLKEFALHKLNAVVNDFWAEISESVDKIEVLYEDEGFRSRQFAALVASKVFYH |
| MI.SAAGIISL.DEEEPQLKEFALHKLNAVVND.WAEISESVDKIEVLYEDEGF.S..F.ALVASKVFYH | |
| Retrocopy | MIISAAGIISLPDEEEPQLKEFALHKLNAVVNDSWAEISESVDKIEVLYEDEGFQSWRFSALVASKVFYH |
| Parental | LGAFEE-SLNYALGAGDLFNVNDNSEYVETIIAKCIDHYTKQCVENADLPEGEKKPIDQRLEGIVNKMFQ |
| LGAFE..SLNYALGAGDLFNV.DNSEYVETI.AKCIDHYTKQCVENADLPEGEK.PI..RLEGIVNKMFQ | |
| Retrocopy | LGAFED<SLNYALGAGDLFNVKDNSEYVETITAKCIDHYTKQCVENADLPEGEK-PIN*RLEGIVNKMFQ |
| Parental | RCLDDHKYKQAVGIALETRRLDVFEKTILESNDVPGMLAYSLKLCMSLMQNKQFRNKVLRVLVKIYMNLE |
| RCLDDHKYKQAVGIALE..RLDVFEK.ILESNDVPGMLAYSLKLCMSLMQNKQF.NKVLRVLVKIYMNLE | |
| Retrocopy | RCLDDHKYKQAVGIALERQRLDVFEKPILESNDVPGMLAYSLKLCMSLMQNKQFQNKVLRVLVKIYMNLE |
| Parental | KPDFINVCQCLIFLDDPQAVSDILEKLVKEDNLLMAYQICFDLYESASQQFLSSVIQNLRTVGTP-IASV |
| KP.F.NV.QCLIFLDD.QAVSDILEKLVKEDNLLMAYQICFDLYES.SQQFLSSVIQNLRTVGTP.IASV | |
| Retrocopy | KPNFTNVYQCLIFLDDSQAVSDILEKLVKEDNLLMAYQICFDLYESVSQQFLSSVIQNLRTVGTP>IASV |
| Parental | PGSTNTGTVPGSEKDSDSMETEEKTGSVLVGKTPEASPEPKDQTLKMIKILSGEMAIELHLQFLIRNNNT |
| PGSTNTGTV..SEKDSD.METEEKTGSVLVGKTPEASPEPKDQTLKMIKILSGEMAIELHLQFLIRNNNT | |
| Retrocopy | PGSTNTGTVLESEKDSD*METEEKTGSVLVGKTPEASPEPKDQTLKMIKILSGEMAIELHLQFLIRNNNT |
| Parental | DLMILKNTKDAVRNSVCHTATVIANS-FMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEK |
| DLMILKNTK.AVRNSVCHTATVIANS.FMHCGTTSDQFLRDNLEWLARATNWAKFTAT.SLGVIHKGHEK | |
| Retrocopy | DLMILKNTKEAVRNSVCHTATVIANS<FMHCGTTSDQFLRDNLEWLARATNWAKFTATVSLGVIHKGHEK |
| Parental | EALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMG |
| EALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHG.DIIDYLLNQLKNAS.DIV.HGGSLGLGLAAMG | |
| Retrocopy | EALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGSDIIDYLLNQLKNASKDIVGHGGSLGLGLAAMG |
| Parental | TARQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLAVGIALVMY |
| .A.Q.V.DLLKTNLYQDDAVTGEAAGL.LGLVMLGSKNAQAIEDMVGYAQETQHEKIL.GLAVGIALVMY | |
| Retrocopy | IAHQNVCDLLKTNLYQDDAVTGEAAGLTLGLVMLGSKNAQAIEDMVGYAQETQHEKILCGLAVGIALVMY |
| Parental | GRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAVSDVNDDVRRAAVESLGFILF |
| GRMEEADALIESLC.DKDPIL..S.MY..AMAYCGSGNNK.IR.LLHVAVSDVNDDVRRA.VESLGFILF | |
| Retrocopy | GRMEEADALIESLCHDKDPILGWSKMYIAAMAYCGSGNNKVIRHLLHVAVSDVNDDVRRAVVESLGFILF |
| Parental | RTPEQCPSVVSLLSESYNPHVRYGAAMALGICCAGTGNKEAINLLEPMTNDPVNYVRQGALIASALIMIQ |
| .TPEQCP.VVSLLSESYNPHV.YGAAMALGICCAGTGNKEAINLLEPMTND.VNYVRQGALIASALIMIQ | |
| Retrocopy | TTPEQCPTVVSLLSESYNPHVCYGAAMALGICCAGTGNKEAINLLEPMTNDSVNYVRQGALIASALIMIQ |
| Parental | QTEITCPKVNQFRQLYSKVINDKHDDVMAKFGAILAQGILDAGGHNVTISLQSRTGHTHMPSVVGVLVFT |
| QTEITCPKVNQFRQLYSKVINDKHDDVMAKFGAILAQGILDAGGHNVTISLQSRTGHTH.PSVVG.LVFT | |
| Retrocopy | QTEITCPKVNQFRQLYSKVINDKHDDVMAKFGAILAQGILDAGGHNVTISLQSRTGHTHTPSVVGILVFT |
| Parental | QFWFWFPLSHFLSLAYTPTCVIGLNKDLKMPKVQYKSNCKPSTFAYPAPLEVPKEKEKEKVSTAVLSIT |
| QFWFWFPLS.FLSLAYTPTCVIGLNKDLKM.KVQYKSNCKPSTFAY..PLEVP..KEKEKVSTAVLSIT | |
| Retrocopy | QFWFWFPLSYFLSLAYTPTCVIGLNKDLKMLKVQYKSNCKPSTFAYLDPLEVP--KEKEKVSTAVLSIT |
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_2191 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 | ENSOGAG00000012201 | 1 retrocopy |
retro_ogar_2191 ,
|