RetrogeneDB ID: retro_ogar_3134

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873725.1:1494813..1497103(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: TAX1BP1
• Ensembl ID: ENSOGAG00000000427
• Aliases: None
• Description: Tax1 (human T-cell leukemia virus type I) binding protein 1 [Source:HGNC Symbol;Acc:11575]

Sequence

>retro_ogar_3134
ATGACATCCTTTCAAGAAGTCCCATTGCAGACTTCCAACTTTGCCCATGTCAACTTTCAAAATGTGGCCAAGAGTTACCT
TCCTAATGCTCACCTGGAATGTCATTACCCCTTAACTCTGTATATACATCTACATCCAAAATACTGAGTTGGTATATTCA
AGGTTGAGTAGAGTACTGCTTGTGATTATTACATATTTTTATGGTCCCCTATGTTTGAACATCATGTAGAAGGATCAATA
GTCAATTGTGTATTAGAATTTCAAGAATATTACCTTCCAAATGATGATGGAGAATTTTTCCAGTTCTGTTATGTTACCCA
CAAGGGCGAAATTTGTGGAGCAAATATACCTTTCTAGTTTTGAGCTACTTCTTTGGTTGAAGAGTTGCTTAGGATAGAAG
ATGAAAGAAATTCTGACATGTTGGTGATGACCACAAAAGATGGCCTTTTTCAGTTGAAAATTGAGAAAACCATAAAAAAA
AAAGAAGAGTTGTTAAAGCTAATTGCCATTCTGAAAAAATAAACAGTCCAACTTTGAGAACAAGTAGAAAGACTGGAAGG
AGAACTTAACCATGAGAAAGAAAGATGTGACCAACTGCAAGCAGAGCAAAAGGGTCTTACTGAAGCATCATAGTACTTAA
AAGTGGAAAACGAAGAGTGTAAGAAGAGATACAGTGATGCTACATCCAAAGCTCTATAGCTTGAGGAAGATACTACATCA
GTGACACATAAAGCAATTGAAAAGGAGACTGAATTAGACAGTATAAAAAACAAACACAGGAAGGCACAATATGAAAGAGA
ACAACTTGAATGTCAGTTGAAGACAGAAAAGGATGAGAATGAACTTTATAAGGTACATTTGAAGAATACAGAAATAGAAA
ATACCAAGCTTATGTCAGAGGTCCAGACTTTAAAGAATTTAGATGAAAACAAAGAAAGCATGATCATTCATTTCAAGGAA
GAGATTGGCAGACTACAGTTCTGTATGACCAAAAAGGAAAATCTGCAAAGGACTTTAAAGATTACAACCCTCAGTAAAGA
AGATACATTTTTTCTAAAGGAGCAACCTTGCAAAGCAGAGGAATAGGCTCAGGCAACTGGCAAAAAGTTATCTTTCTGAC
TAAAGAACTACGTGATGCTGTAAATGTGTGGGACAGAATGATAGCAGATCTACACAGTGCATGCTTGGAAAATGAGAAAG
TGAAAAAGGAGATAGCTGATGCAGTTACAGAACTTAAACCAAATTCTGTGAAAAAAGATCAGGAAAAGACTGATACACTG
GAACATGAATTGAGAAGAGAAGTTGAAGAGCTGAGACTACATCTTCAGATAGCTGCAGATCATTACAAGGAAAAATTTAA
AGAATGCCAGTGACCCCCAAAATAAATAAATAAATAAACTTTAACACCATTCAACCACTAATAATAGTGTCTTCACAAAG
AAAACTGAGAATCAGCAGAAAGTGAATAATGCTTTAGTAAACACAGATCCAGCCACGTCTGCCTCTGTGGCAGATGGAAA
GCCATCACCTTCTTCAGCAGAAGCAGAATTTGATGTGATAACAAAGGGGCGAGTCTGTGAAATGACCAAAATAATTGCTA
ACGAAACAGAAAAGTATAATAAGTGCAAAGAACTCTTGCAGGATGAGAAAACAAATGCAATAAATATGGTGGCGAACTTG
CAAAAATGGACCTGAAATGGAAAGAACAGGTGAAAATGCTGAAAATGTAAAATTTTAACTAGCTGAAGTAGAAGACAATT
ATAAACTTCAAGTGGCAGGAAAGACAAATAAATAAGTGGTCTGACTTCACATTTGGAAAACCTTTCGAGAGAGAAGGAAC
TAAAAGGGAGTGTAGAAAATCAAGCTGAAAGGAAAATGGAAGGTCATATTCCCAAAGTCCTCAGCAGGTCTTACAGTGTC
TCAGCACATGCTCAGAGCAAAATGGTTACATTCCTGCACTACCAAATGCACAGCCAATTCTGCAATATAGTAATCCTTAC
ATGACACAGGAAACAAGAGATGGAGCAGATGGTGCTTTTTACCCATATGAAATCCAAAGGACTCCTCTGACAGTCCCCTC
CTGGGGACTAGAAGACAATGTTGTCTGCAGCCAGCCTGCTTGAAACCTCAGTCAGTCGGATGGCTTAGAAGACCCTGAGG
ATAGAAAGAAGGTGAGAATGTGCCTACTGCTTCTGATCTTCCAAGTCAGCATTTATGTAGGCATGGGACAGGCTTTTGTT
TTGATTCGAGCTTTGATGTTCACAAGAAAGGCTCCATTTTTTCCTTGCTG

Alignment

ORF - retro_ogar_3134 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.15 %
• Parental protein coverage: 93.51 %
• Number of stop codons detected: 14
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  MTSFQEVPLQTSNFAHVIFQNVAKSYLPNAYLEFHYTLTPYIHPHPKDWVGIFKVGWSTARDYYTFLWSP
          MTSFQEVPLQTSNFAHV.FQNVAKSYLPNA.LE.HY.LT.YIH.HPK..VGIFKV..STA.DYY.FLWSP
Retrocopy MTSFQEVPLQTSNFAHVNFQNVAKSYLPNAHLECHYPLTLYIHLHPKY*VGIFKVE*STACDYYIFLWSP

Parental  MPEHYVEGSTVNCVLAFQGYYLPNDDGEFYQFCYVTHKGEIRGASTPFQFRAASPVEELLTMEDEGNSDM
          M.EH.VEGS.VNCVL.FQ.YYLPNDDGEF.QFCYVTHKGEI.GA..PF.F.A.S.VEELL..EDE.NSDM
Retrocopy MFEHHVEGSIVNCVLEFQEYYLPNDDGEFFQFCYVTHKGEICGANIPF*F*ATSLVEELLRIEDERNSDM

Parental  LVVTTKAGLLELKIEKTMKEKEELLKLVAVLEKETAQLREQVGRLEGELNNEKERCDQLQAEQKGLIEAS
          LV.TTK.GL..LKIEKT....EELLKL.A.L.K.T.QL.EQV.RLEGELN.EKERCDQLQAEQKGL.EAS
Retrocopy LVMTTKDGLFQLKIEKTXXXXEELLKLIAILKK*TVQL*EQVERLEGELNHEKERCDQLQAEQKGLTEAS

Parental  QSLKVENEECKKRYSDATSKALQLEEDIVSVTHKAIEKETELDSLKDKLRKVQHEREQLECQLKMEKDEK
          ..LKVENEECKKRYSDATSKAL.LEED..SVTHKAIEKETELDS.K.K.RK.Q.EREQLECQLK.EKDE.
Retrocopy *YLKVENEECKKRYSDATSKAL*LEEDTTSVTHKAIEKETELDSIKNKHRKAQYEREQLECQLKTEKDEN

Parental  ELYKVHLKNTEIENTKLMSEVQTLKNLDGNKESMIVHFKEEIGRLQFCLAEKENLQRTLMLTTPSKEDTF
          ELYKVHLKNTEIENTKLMSEVQTLKNLD.NKESMI.HFKEEIGRLQFC...KENLQRTL..TT.SKEDTF
Retrocopy ELYKVHLKNTEIENTKLMSEVQTLKNLDENKESMIIHFKEEIGRLQFCMTKKENLQRTLKITTLSKEDTF

Parental  FLKEQLRKAEEQVQATR-QKVIFLTKELSDAVNVRDRTMADLHTARLENEKVKKQLADAVAELKLNSVKK
          FLKEQ..KAEE..QAT..QKVIFLTKEL.DAVNV.DR..ADLH.A.LENEKVKK..ADAV.ELK.NSVKK
Retrocopy FLKEQPCKAEE*AQATG<QKVIFLTKELRDAVNVWDRMIADLHSACLENEKVKKEIADAVTELKPNSVKK

Parental  DQEKTDTLEHELRREVEDLRLRLQMAADHY-KEKFKECQRLQKQ-INKLSDPTINNNSVFTKKIGTQQKV
          DQEKTDTLEHELRREVE.LRL.LQ.AADHY.....K.....Q...INKL......NNSVFTKK...QQKV
Retrocopy DQEKTDTLEHELRREVEELRLHLQIAADHY>RKNLKNASDPQNK*INKL*HHSTTNNSVFTKKTENQQKV

Parental  NDASVNTDPATSASVTDRKPSPSGAEAEFDVVTKGQVCEMTKEIADKTEKYNKCKQLLQDETT-KCNKYA
          N.A.VNTDPATSASV.D.KPSPS.AEAEFDV.TKG.VCEMTK.IA..TEKYNKCK.LLQDE.T.KCNKY.
Retrocopy NNALVNTDPATSASVADGKPSPSSAEAEFDVITKGRVCEMTKIIANETEKYNKCKELLQDEKT<KCNKYG

Parental  DELAKMELKWKEQVKI-AENVKLELVKVEDNYKLQLA-EKDKEISGLTSHLESLSREKEIKGSVENQAER
          .ELAKM.LKWKEQVK..AENVK..L..VEDNYKLQ.A..KDK.ISGLTSHLE.LSREKE.KGSVENQAER
Retrocopy GELAKMDLKWKEQVKM<AENVKF*LAEVEDNYKLQVA<RKDK*ISGLTSHLENLSREKELKGSVENQAER

Parental  KMEGQ-HSQSPQQVLQCLSTCPEQNGHIPALPNAQPVLQYGNPYVTQETRDGADGAFYPDEIQRPPVRVP
          KMEG...SQSPQQVLQCLSTC.EQNG.IPALPNAQP.LQY.NPY.TQETRDGADGAFYP.EIQR.P..VP
Retrocopy KMEGH<YSQSPQQVLQCLSTCSEQNGYIPALPNAQPILQYSNPYMTQETRDGADGAFYPYEIQRTPLTVP

Parental  SWGLEDNVVCSQPARNLSRPDGLEDPEDS-KEDENVPTAPDLPSQHLRGHGTGFCFDSSFDVHKKCPLCE
          SWGLEDNVVCSQPA.NLS..DGLEDPED..KE.ENVPTA.DLPSQHL..HGTGFCFDSSFDVHKK.....
Retrocopy SWGLEDNVVCSQPA*NLSQSDGLEDPEDR<KEGENVPTASDLPSQHLCRHGTGFCFDSSFDVHKKGSIFS

Parental  LM
          L.
Retrocopy LL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_3134 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000000427	1 retrocopy	retro_ogar_3134 ,
Otolemur garnettii	ENSOGAG00000011709	1 retrocopy	retro_ogar_3090,