RetrogeneDB ID: | retro_ogar_2100 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873591.1:546662..547851(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOGAG00000026400 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TFDP2 | ||
| Ensembl ID: | ENSOGAG00000000168 | ||
| Aliases: | None | ||
| Description: | transcription factor Dp-2 (E2F dimerization partner 2) [Source:HGNC Symbol;Acc:11751] |
Retrocopy-Parental alignment summary:
>retro_ogar_2100
TTAGAAGCAATGAATGTAAATTTTGGATCCCAAATGATCATGAGCACACCACAGGGACTAACAAGTACAGGAGGTGTTCT
GATTGGGAGTCCATACATCCTTGCACCAGCAGTGATTAAGCAGACACACATAGTAGAAGCTGCTGGCTTGGTCCCTAGTG
ATGATAGCAAACAGGCTAGAGAATTTACAAAGTCTGGTTTTTCAGGAAGTAAACGAAGCAAAAAAGATAGAAATGGAAAA
GGCTTGAGGCATTTTTCAATGAAAGTGTGTGAGAAACTACAGCAAAAAGGCACAACATCATATAATGAAGTAGCAGATGA
GCTGGTGTCAGAGCTCACCAATCCAAATAACCGTTCGGCAGCTGATCCGCAGGCTTACGATGAGAAGAACATTAGGCGAA
GAGTTTATGATGCTTTAAATGTGCTGATGGCAATGAACATAATTTCAAAGGATAGAAAAGAAATCAAGTGGATTGGCCTA
CCTATCACCTGTGTTCAGGAATATCAAAACCTGGAGATAGAGAAGCAGAAGCTGATAGAACGGATCAAGGAGAAGCGGGC
CGAGCTGCAAGAGCTTCTTCTATACCAAATTTCTTTCAAAAACCTGGTACAGAGAAATCGTCAAAAAGAACAGCAGAATA
AGAGACCTCCACCTCTGAACACCACTGTCCAGCTGCCTTTTAAACTCATCACTGCAAACAAAAAGACAGTCATAGATTGC
AGCATCTCCAGTGATAAGTATAAATATATCTTCAATTTCGACAACACCTTTCAGATCCATGATGACACAGAATTACTGAA
GCGTATGGGAATGTCCTTGGGCCTGGAGTCAGGCAACTGCTCTCCAGAAAACCTGAAACGTGCTAAGTCCCTGGTGCCAA
GGGCTTTGCAAAGTTATATCACAGCCATCTCCACCGGACCATCTTGGCTAAATCAGGGACTACTTCCAAAACCTACTCAA
TCAGGTTCAAATTTCAAGTGGACCACTGATGCCACCCTACCCCAATCAAGTTTAAAGCGAGGGTTCTGCTTGGATACTGA
AGTAGCCTTAGCAACCGGGCAGTTCCGGGCCCCAAAGCGTCACCAGTTCAGCAGTGCCACCTCTCACTGCTCTGAGTCCC
GAGATGAAACCTCCCTGTTGTTTCAACGACAAAGACAAGGAAAATGATGAGGAGGATTCCTCTTCCCCA
ORF - retro_ogar_2100 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.13 % |
| Parental protein coverage: | 92.96 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LGPINVNVGPQMIISTPQRLTSSGSVLIGSPYTPAPAMVTQTHITEAAGWVPGD-RKRAREFIDSDFSES |
| L...NVN.G.QMI.STPQ.LTS.G.VLIGSPY..APA...QTHI.EAAG.VP.D..K.AREF..S.FS.S | |
| Retrocopy | LEAMNVNFGSQMIMSTPQGLTSTGGVLIGSPYILAPAVIKQTHIVEAAGLVPSDDSKQAREFTKSGFSGS |
| Parental | KRSKKGDKNGKGLRHFSMKVCEKVQRKGTTSYNEVADELVSEFTNSNNHLAADSQAYDQKNIRRRVYDAL |
| KRSKK.D.NGKGLRHFSMKVCEK.Q.KGTTSYNEVADELVSE.TN.NN..AAD.QAYD.KNIRRRVYDAL | |
| Retrocopy | KRSKK-DRNGKGLRHFSMKVCEKLQQKGTTSYNEVADELVSELTNPNNRSAADPQAYDEKNIRRRVYDAL |
| Parental | NVLMAMNIISKEKKEIKWIGLPTNSAQECQNLEIEKQRRIERIKQKRAQLQELLLQQIAFKNLVQRNRQN |
| NVLMAMNIISK..KEIKWIGLP....QE.QNLEIEKQ..IERIK.KRA.LQELLL.QI.FKNLVQRNRQ. | |
| Retrocopy | NVLMAMNIISKDRKEIKWIGLPITCVQEYQNLEIEKQKLIERIKEKRAELQELLLYQISFKNLVQRNRQK |
| Parental | EQQNQGPPALNSTIQLPFIIINTSRKTVIDCSISSDKFEYLFNFDNTFEIHDDIEVLKRMGMSFGLESGK |
| EQQN..PP.LN.T.QLPF..I....KTVIDCSISSDK..Y.FNFDNTF.IHDD.E.LKRMGMS.GLESG. | |
| Retrocopy | EQQNKRPPPLNTTVQLPFKLITANKKTVIDCSISSDKYKYIFNFDNTFQIHDDTELLKRMGMSLGLESGN |
| Parental | CSLEDLKLAKSLVPKALEGYITDISTGPSWLNQGLLLNSTQSVSNLDLTTGATLPQSSVNQGLCLDAEVA |
| CS.E.LK.AKSLVP.AL..YIT.ISTGPSWLNQGLL...TQS.SN...TT.ATLPQSS...G.CLD.EVA | |
| Retrocopy | CSPENLKRAKSLVPRALQSYITAISTGPSWLNQGLLPKPTQSGSNFKWTTDATLPQSSLKRGFCLDTEVA |
| Parental | LATGQFLAPNSHQSSSAASHCSESRGET-PCSFNDEDEEDDDEDSSSP |
| LATGQF.AP..HQ.SSA.SHCSESR.ET.PC.FND.D.E.D.EDSSSP | |
| Retrocopy | LATGQFRAPKRHQFSSATSHCSESRDET>PCCFNDKDKENDEEDSSSP |
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_2100 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000001950 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000000168 | 1 retrocopy |
retro_ogar_2100 ,
|
| Otolemur garnettii | ENSOGAG00000003532 | 1 retrocopy |