RetrogeneDB ID: retro_ogar_49

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873767.1:290679..292143(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000011845
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000034779
• Aliases: None
• Description: None

Sequence

>retro_ogar_49
ATGTGCAGTACCAACATGTCTGTACCTACTGATGTAACCACCTCACAGGTTCCAGCCTCGGAACAAGAGACCCTGGTTAG
ACCAAAACCTTTGCTTTTGAAGTTGTTAAAGTCTGTTGGTGCACAAAAAGACATTTATACAATGAAAGAGGTTATATATT
ATCTTGGCCAGTATATTATGACTAAACGATTATATGATGAGAAGCAACAACATATTGTATATTGTTCAAATGATCTTCTA
GGAGATTTGTTTGGAGTGCCAAGCTTCTCTGTGAAAGAGCACAGGAAAATATATACAATGATCTACAGAAACTTGGTAGT
AGTCAATCAGCAGGAATCATCAGACTCAGGTACATCTGTGAGAGAGAACAGAGGGCACCTTGAAGGTGGGAGTAATCAAA
AGGATCCTGTGCAGGAGCTACAGGAAGAGAAACCTTCATGTTCAGATTTGGTTTCCAGACCATCTACCTCATCTAGAAGG
AGAACAGTTAGTGAGACAGAATTATATTCAGATGAATTCAATGGTGAACGACAAAGAAAACGTCACAAGTCTGATAGTAT
TTCCTTTTCCTTAGATGAAAACATGGCTATGTGTGTAATAAGGGGGGTATGTTGTGAAAGAAGCAGTAGCAGTGAATCTA
CAGGGTCTCCATCAAATCCAGATCTTGATGCTGGTGTAAGTGAACATTCAGGTGATTGGGTGGAACAGGATTCAGTTTCA
GATCAATTTAGTGTAGAATTTGAAGTTGAATCTCTTGATTCAGAAGATTATAGCCTTAGTGAAGAAAACCAAGAAGTCTC
AGATGAAGATGATGGGTTATATCAAGTTACTGTGTATGAGACAGGAGAGAGTGATACAGATTCATTTGAAGACGACTCTG
CAGTTTCTTTACCTGACTATTGGAAATGTACTTCATGCAATAAAATGAATCCTCCCCTTGTACCACATTGCAACCAATGT
TGGGTCCTGCGTGAGAATTGTCTTCCTAAAGATAAAGATAGAGGGGCTATTTCTGAGAAAGCCAAATTAGAAAACTCAGC
ACAAGCAGAAGAGGGCTTTGATGTTCCAGATTGTAGAAAAACTACAGTGAATGATTCCAAAGAGTCACCTGTGGAGGAAA
ATGATAATAAAATCACTCAAGCCTCCCAATCACAAGAACATGAGGACTACTCTCAGCCATCAACTTCTAATAGCATTATT
TATAGCAAACAAAAAAATGTCAAAGAGTTTAAGAGAGAAGAAACACCAAACAAACAACAAAGTATGGAATATAGCTTTCC
TCTTAGTGCCACTGAACCTTGTGTGATTTGCCAAGGTCGACCTAAAAATGGTTGCATTGTCCATGGCAGAACAGGTCATC
TTATGGCATGCTTTACATGTGCGAAAAAGCTAAAGAAAAGGAATAAGCCCTGCCCAGTATGTAGACAACCAATTCAGATG
ATTGTGCTAACTTACTTCCCCTAG

Alignment

ORF - retro_ogar_49 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.48 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MCNTNMSVSTDVTTSQIPASEQETLVRPKPLLLKLLKSVGAQKDTYTMKEVIFYLGQYIMTKRLYDEKQQ
          MC.TNMSV.TDVTTSQ.PASEQETLVRPKPLLLKLLKSVGAQKD.YTMKEVI.YLGQYIMTKRLYDEKQQ
Retrocopy MCSTNMSVPTDVTTSQVPASEQETLVRPKPLLLKLLKSVGAQKDIYTMKEVIYYLGQYIMTKRLYDEKQQ

Parental  HIVYCSNDLLGDLFGVPSFSVKEHSPTRKIYTMIYRNLVVVNQQELSDSGTSVSENKCHLEDGSDQKDPV
          HIVYCSNDLLGDLFGVPSFSVKEH...RKIYTMIYRNLVVVNQQE.SDSGTSV.EN..HLE.GS.QKDPV
Retrocopy HIVYCSNDLLGDLFGVPSFSVKEH---RKIYTMIYRNLVVVNQQESSDSGTSVRENRGHLEGGSNQKDPV

Parental  PELQEEKPSSSNWVSRPSTSSRRRAISETAQIPRDAFSRMAFRKHSDFLISIEIIQSFAARLRRELQLCS
          .ELQEEKPS.S..VSRPSTSSRRR..SET...............H....IS.......A....R....C.
Retrocopy QELQEEKPSCSDLVSRPSTSSRRRTVSETELYSDEFNGERQRKRHKSDSISFSLDENMAMCVIRGV-CCE

Parental  ESVCPRSSERPGQPDLDAGVSEHSGDWLDQDSVSDQFSVEFEVESLDSEDYSLSEEGQELSDEDDEVYRV
          .S....S...P..PDLDAGVSEHSGDW..QDSVSDQFSVEFEVESLDSEDYSLSEE.QE.SDEDD..Y.V
Retrocopy RSSSSESTGSPSNPDLDAGVSEHSGDWVEQDSVSDQFSVEFEVESLDSEDYSLSEENQEVSDEDDGLYQV

Parental  TVYQAEESDTDSFEEDPEISLADYWKCTSCNEMNPPLPSHCNRCWTLRENWLPEDKGKDRRDISEKAKLE
          TVY...ESDTDSFE.D...SL.DYWKCTSCN.MNPPL..HCN.CW.LREN.LP.DK..DR..ISEKAKLE
Retrocopy TVYETGESDTDSFEDDSAVSLPDYWKCTSCNKMNPPLVPHCNQCWVLRENCLPKDK--DRGAISEKAKLE

Parental  NSAQAEEGFDVPDCKKTTGSDSKESSVEVNDDKITQASQSQDSEDYSQPSTSNSIIYSSQEDVKEFEREE
          NSAQAEEGFDVPDC.KTT..DSKES.VE.ND.KITQASQSQ..EDYSQPSTSNSIIYS.Q..VKEF.REE
Retrocopy NSAQAEEGFDVPDCRKTTVNDSKESPVEENDNKITQASQSQEHEDYSQPSTSNSIIYSKQKNVKEFKREE

Parental  TQDKEESLESSFPLSAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLT
          T..K..S.E.SFPLSA.EPCVICQGRPKNGCIVHG.TGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLT
Retrocopy TPNKQQSMEYSFPLSATEPCVICQGRPKNGCIVHGRTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLT

Parental  YFP
          YFP
Retrocopy YFP

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_49 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000004323	1 retrocopy	retro_cpor_1234,
Loxodonta africana	ENSLAFG00000005885	1 retrocopy	retro_lafr_715,
Otolemur garnettii	ENSOGAG00000011679	1 retrocopy	retro_ogar_1852,
Otolemur garnettii	ENSOGAG00000034779	2 retrocopies	retro_ogar_1210, retro_ogar_49 ,
Ochotona princeps	ENSOPRG00000009677	1 retrocopy	retro_opri_891,
Ictidomys tridecemlineatus	ENSSTOG00000014702	1 retrocopy	retro_itri_1731,
Tupaia belangeri	ENSTBEG00000013758	2 retrocopies	retro_tbel_3216, retro_tbel_915,
Tarsius syrichta	ENSTSYG00000002908	2 retrocopies	retro_tsyr_1343, retro_tsyr_984,