RetrogeneDB ID: retro_ogar_78

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873605.1:2010128..2011022(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034206
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000002538
• Aliases: None
• Description: None

Sequence

>retro_ogar_78
CTCGTCCGAGCTCACCCGCCTCTGGAGGAAAGAGCCAGACTTCTCAGCGGTCGGTCTGTTCAACAAGTGGGACCCCAGGG
CCTTCTGTATGTTCAGCAGAGAGAGCCTGCAGTGACCTCCCCAAAGGATGGCTCCATCTCCATTCTGGGTTCTGATGATG
CCACCACTTGTCACATTGTGGTCCTGAGGCACACAGGTAATGGGGCAGCCTGCCTGACACATTGTGATGGAAGCAACACC
AAAGCTGAGGTCCCCTTGATCATGAACCCCATAAAATCCTTTTCCGACCACACTCAATGTGGAAGGCTAGAAGGGCACCT
CCTGGGAGGCTTCAGTGACGATAGGAGGCAGTTGTCACAAAAACTTACCCATCAACTTCTCAGTGAATTTGACAGTCGAG
AAGATGATAGTCACTTAGTGACATCATGCGTGACAGAATTAAATGGCCGAGAAGAAAATGAAAACCACTTCCCAGTCATT
TATGGCATTGCTGTTAACGCTAAAACTGCAGAGATTTACAGAGCCTCTTTTCAAGATCGGGGTCCAGAGGAAGAACTACG
CACTGCGTGGGTTTTAACAGGGGGACCAATGATTAGCATTTACGATGCAAAGACAGAACAACTTCGGATAGGACCTTATT
CCTGGATGCCATTTCCTCATGTGGATTTCTGGTTGCAGCACGATGATAAAGAAATACTAGAGAACTTTTCCACGTCACCT
TTGGCTGAGCCGCCCCACTTTGTGGAACATATTAGATCTACCTTGATGTTTTTTTTTAAAAAAAAAAACCCATCTCCAAC
TAACAAGCTGTTTCCCGGAAATAAAGCTCTACTCTACAAAAAAAAAAAAAGAAGATCTTTCTTATGGGAAAAGATCTCTT
CTCCAGGAAGCTAA

Alignment

ORF - retro_ogar_78 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.33 %
• Parental protein coverage: 94.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVRAHPPLEERARLLRGQSVQQVGPQGLLYVQQRELAVTSPKDGSISILGSDDATTCHIVVLRHTGNGAT
          LVRAHPPLEERARLL.G.SVQQVGPQGLLYVQQRE.AVTSPKDGSISILGSDDATTCHIVVLRHTGNGA.
Retrocopy LVRAHPPLEERARLLSGRSVQQVGPQGLLYVQQREPAVTSPKDGSISILGSDDATTCHIVVLRHTGNGAA

Parental  CLTHCDGSNTKAEVPLIMNSIKSFSDHTQCGRLEVHLVGGFSDD-RQLSQKLTHQLLSEFDSQEDDIHLV
          CLTHCDGSNTKAEVPLIMN.IKSFSDHTQCGRLE.HL.GGFSDD.RQLSQKLTHQLLSEFDS.EDD.HLV
Retrocopy CLTHCDGSNTKAEVPLIMNPIKSFSDHTQCGRLEGHLLGGFSDDRRQLSQKLTHQLLSEFDSREDDSHLV

Parental  TLCVTGPRTSHDRTYDTSHEPTVGGRAVNVKTAEIYRASFQDRGPEEELRAARALTGGPMISIYDAKTEQ
          T.CVT.......R.....H.P...G.AVN.KTAEIYRASFQDRGPEEELR.A..LTGGPMISIYDAKTEQ
Retrocopy TSCVT---ELNGREENENHFPVIYGIAVNAKTAEIYRASFQDRGPEEELRTAWVLTGGPMISIYDAKTEQ

Parental  LQIGPYSWMPFPHVDFWLQQDDKEILENFSTSPLAEPPHFVEHIRSTLMFL--KKHPSPTNKLFPGNKAL
          L.IGPYSWMPFPHVDFWLQ.DDKEILENFSTSPLAEPPHFVEHIRSTLMF...KK.PSPTNKLFPGNKAL
Retrocopy LRIGPYSWMPFPHVDFWLQHDDKEILENFSTSPLAEPPHFVEHIRSTLMFFFKKKNPSPTNKLFPGNKAL

Parental  LYKKNEDGG-LWEKISSPGS
          LYKK......LWEKISSPGS
Retrocopy LYKKKKRRSFLWEKISSPGS

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_78 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 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003857	1 retrocopy	retro_acar_62,
Choloepus hoffmanni	ENSCHOG00000011818	3 retrocopies	retro_chof_1148, retro_chof_1591, retro_chof_2046,
Dasypus novemcinctus	ENSDNOG00000016017	5 retrocopies	retro_dnov_1068, retro_dnov_1159, retro_dnov_129, retro_dnov_874, retro_dnov_97,
Echinops telfairi	ENSETEG00000014054	1 retrocopy	retro_etel_1914,
Microcebus murinus	ENSMICG00000014995	2 retrocopies	retro_mmur_1479, retro_mmur_959,
Myotis lucifugus	ENSMLUG00000003455	1 retrocopy	retro_mluc_1398,
Mustela putorius furo	ENSMPUG00000014327	1 retrocopy	retro_mputfur_762,
Otolemur garnettii	ENSOGAG00000002538	2 retrocopies	retro_ogar_706, retro_ogar_78 ,
Pteropus vampyrus	ENSPVAG00000002982	1 retrocopy	retro_pvam_626,
Tupaia belangeri	ENSTBEG00000014096	2 retrocopies	retro_tbel_3921, retro_tbel_905,