RetrogeneDB ID: retro_ogar_3165

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873733.1:2073838..2074638(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003605
• Aliases: None
• Description: None

Sequence

>retro_ogar_3165
TTTGAGCTCATCATCTTTGAAATCTTAGGAGTATTAAATAGCCGCTCCCATTATTTTCACTGGACAATGAACCTGTGTAT
AATTCTGCTGACCCTGGTTTTCATGGTGCCTTTCTACATTGGGTATTTTGTTGTAAGCAACATCCAAGTATTGCACAAAA
AACGATTAGTTCTTCCTCTCTCTTATGGTTGAGCTTTATGTATTTCTTCTGGAAACTAGGAGATCCATTTCCCATTCCCA
GCCCCAAACATGGGATCTTATCCGCAGAACAGGTCATCAGCCAAGAGGGTGTGATTGGGGTGACTCTGAAGTCTCTCCTT
TCTGGATTTGGTGCTGTCAACTGTCCATACGCATCCTGCTTCCTCAGGAATATACAGATATTCTAGCCCTGGAATGGTGA
CTGCTTCAAACCACTGATATGATCTAAGCAAAAAGAAAAGGATGACAGTGGCACAAAGACCTATGTTCCAGAAAGGGGAA
GTGCACAACAAACCATCAGCATTCCCGGGAATGATAAGAAGCACTACTACATCAGCACCAGGGAGTGAAAATCTTGCTCT
TATTCAATAGGAAGTGGATGCTTTGGAAGAACTAAGGAGGCAGCTTTTTCTGGAAACTGCTGACCTATATGCTTCCAAGG
AGAGAATAGAATACTCCAAAACTTTCAAGGTGAAATATTTTAATTTGGGGATCACTTTTTCTCCATATACTGTGTTTGAA
AAATTTTCACAGCAACCATCAATATCGTTTTTGATAAAGTTGGGAAAACTGACCCTGTCACAAGAGGCATTGAGATCACT

Alignment

ORF - retro_ogar_3165 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.16 %
• Parental protein coverage: 59.78 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  FELIIFEILGVLNSSSRYFHWKMNLCIILLILVFMVPFYIGYFVVSNIRLLHKQRLVF-SCLLWLTFMYF
          FELIIFEILGVLNS.S.YFHW.MNLCIILL.LVFMVPFYIGYFVVSNI..LHK.RLV..S.LLWL.FMYF
Retrocopy FELIIFEILGVLNSRSHYFHWTMNLCIILLTLVFMVPFYIGYFVVSNIQVLHKKRLVL<SSLLWLSFMYF

Parental  FWKLGDPFPILSPKHGILSIEQLISRVGVIGVTLMALLSGFGAVNCPYTYMSYFLRNV-TDTDILGLERR
          FWKLGDPFPI.SPKHGILS.EQ.IS..GVIGVTL..LLSGFGAVNCPY...S.FLRN..TD..IL.LE..
Retrocopy FWKLGDPFPIPSPKHGILSAEQVISQEGVIGVTLKSLLSGFGAVNCPYA--SCFLRNI<TD--ILALEW*

Parental  LLQTMDMI-ISKKKRMAMARRTMFQKGEVHNKPSGFWGMIKSVTTSAPGSENLTLIQQEVDALEELSRQL
          LLQT.DMI..SKKKRM..A.R.MFQKGEVHNKPS.F.GMI.S.TTSAPGSENL.LIQ.EVDALEEL.RQL
Retrocopy LLQTTDMI<LSKKKRMTVAQRPMFQKGEVHNKPSAFPGMIRSTTTSAPGSENLALIQ*EVDALEELRRQL

Parental  FLETADLYATKERIEYSKTFKGKYFN-FLGYFFSIYCVWKIFMATINIVFDRVGKTDPVTRGIEIT
          FLETADLYA.KERIEYSKTFK.KYFN.F...FFSIYCV.KIF.ATINIVFD.VGKTDPVTRGIEIT
Retrocopy FLETADLYASKERIEYSKTFKVKYFN<FGDHFFSIYCV*KIFTATINIVFDKVGKTDPVTRGIEIT

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_3165 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011552	1 retrocopy	retro_chof_2405,
Otolemur garnettii	ENSOGAG00000003605	1 retrocopy	retro_ogar_3165 ,
Tursiops truncatus	ENSTTRG00000009225	1 retrocopy	retro_ttru_1737,