RetrogeneDB ID: retro_ogar_387

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:34079708..34080623(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LARP7
• Ensembl ID: ENSOGAG00000001643
• Aliases: None
• Description: La ribonucleoprotein domain family, member 7 [Source:HGNC Symbol;Acc:24912]

Sequence

>retro_ogar_387
TCTGGAGTTAAACAGGTGCTTGCAGATATTGCAAAGCAAGTAGACTTCTGGTTTGGGGATGCAAATCTTTACAAGGACCC
ATTTCTTCATAAGCAGATAGAAAAATCTAGAAATGGATATGTTGATATACCACTCCTGGTGTCTTTCAACAAAATGAAAA
AATTAACTACTGATGGGAAGTTAATAGCCAGAGCTTTGAAAAATTCAGCTGTTGTAGAGCTGGATTTAGAAGGTACCAAA
ATCAGAAGGAAAACCCCACTGGGTGAAAGACCAAAGGATGAAGATGAGAGGACAGTGTATGTGGAGTTACTTCCTTAAAA
TGTTAATCACAGCTGGATTGAAAGAGTATTTGGGAAATGTGGCAATGTTGTTCACATAAGTATACCTCATTATAAGTCTA
CTAGAGATCCAAAGGGATTTGCCTTTTGTGGAATTTGAAACAAAAGAACAAGCAGCAAAAGCTATTGAGTTTCTTAACAA
CCCACCAGAGGAAGCACCAAGAAAACCTGGCATATTTCCTAAGACAGGAAAGAATAAACCCATTCCTTCCTTAAGAGCAG
TTGAAGAAAAGAAAAAGAAAAAGAAGAAAAAAGGCCGAATGAAGAAAGAGGACAATGTCCAGGTGAAAGAGTTAAATACT
GATTCAAGCAATGTGAGTGTCTGTAAAATAAAAAGATCGAGACTCACATCTAAGAGCTCTGAAGTAGAAACTACTGAGCC
CCAAAAGCCACCCTCCAAGAAAAAGAAAAAAAGGAAAGAGTTGAAGTATCTAGCTTACCTGAAGTCAGAACAGGGAAGAG
GAAGAGAAGCACCTCTGAAGATGCAGAAGCCCTAACTCCCAGATCAAAAGTAAAGAAAATGGCTCAGAAAGACATCATTC
AAAAAGAAGCTTCAAAAGTTTCTAGAGAAAATAGA

Alignment

ORF - retro_ogar_387 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.41 %
• Parental protein coverage: 52.23 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SRVKQVLADIAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIARALKSSA
          S.VKQVLADIAKQVDFWFGDANL.KD.FL..QIEKSR.GYVDI.LLVSFNKMKKLTTDGKLIARALK.SA
Retrocopy SGVKQVLADIAKQVDFWFGDANLYKDPFLHKQIEKSRNGYVDIPLLVSFNKMKKLTTDGKLIARALKNSA

Parental  VVELDLEGTRIRRKKPLGERPKDEDERTVYVELLPKNVNHSWIERVFGKCGNVVYISIPHYKSTGDPKGF
          VVELDLEGT.IRRK.PLGERPKDEDERTVYVELLP.NVNHSWIERVFGKCGNVV.ISIPHYKST.DPKGF
Retrocopy VVELDLEGTKIRRKTPLGERPKDEDERTVYVELLP*NVNHSWIERVFGKCGNVVHISIPHYKSTRDPKGF

Parental  A-FVEFETKEQAAKAIEFLNNPPEEAPRKPGIFPKTVKNKPIPSLRTAEEKKKKKKKKGRMKKEDNVQMK
          A.FVEFETKEQAAKAIEFLNNPPEEAPRKPGIFPKT.KNKPIPSLR..................DNVQ.K
Retrocopy A>FVEFETKEQAAKAIEFLNNPPEEAPRKPGIFPKTGKNKPIPSLRAVXXXXXXXXXXXXXXXXDNVQVK

Parental  ELNIDSSDLSVCKIKRSRTTSESSEVETPEPQKQPSK-KKKKRDKVEVSSLPEVRTGKRKRSSSEEAEAL
          ELN.DSS..SVCKIKRSR.TS.SSEVET.EPQK.PSK........VEVSSLPEVRTGKRKRS.SE.AEAL
Retrocopy ELNTDSSNVSVCKIKRSRLTSKSSEVETTEPQKPPSK<XXXXXERVEVSSLPEVRTGKRKRSTSEDAEAL

Parental  TPRSKVKKMAQKDTLQKEASKVSKENR
          TPRSKVKKMAQKD..QKEASKVS.ENR
Retrocopy TPRSKVKKMAQKDIIQKEASKVSRENR

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_387 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	ENSOGAG00000001643	1 retrocopy	retro_ogar_387 ,
Tupaia belangeri	ENSTBEG00000009188	1 retrocopy	retro_tbel_2773,