RetrogeneDB ID: retro_ogar_1767

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873564.1:7711986..7712968(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000033901
• Aliases: None
• Description: None

Sequence

>retro_ogar_1767
GATCACCATGGTGTGAGCAGCGAGGGGAACCTGCGAATCCCCTCACCTCTCTTTGGCTAGGCGGCACCTCTACAGTCTTG
CATAGCCACTCTCCACACTGGAGTTACCAAATACCAGCCGCCACCCTACTTTCTACCTTCCTACCGGCAGCTGGCCTACT
CACAGTTGGCTGACCCCTACTTGCACCTTGGGGAGGCGTACACTGCAGCCAATGACCTCCTGTATCAGCCCGTGCCCACT
GGCAGCCAGCAGCAGCCTTGCCCCAGCTGCCAGACCCAGGAGGGAGCAGGCTTGCCTTTGCAGCATGGGCATCTGGTTGG
CCTGCTGTGCTACCTCTCCTGACTGGAGGATGGTGTAGTGAGCACCCACAGGAATGCTACTGTGGCTCCGACCTGATGCT
GCTGCACCAGCACACCCTGGATGCCATGGACCTGGCTGAGAACCTGGGCTTCACAACATGGCCCACCAGATGGAGGAAGT
ACAGAATGCTGACCACCAGCATTTGCTGCTGCATGATCAGACTGTTATTTGCAAAGGTCCTATTTAGATGACCAAGAACC
CTCTGTGCCTCCCTTGTCAGAAGGAGCTGGTGGGAGCAGTGATGAATCCCAGTGAGGTCTTCTGTTCAGTCCCTGGGAGA
TTGTCCCTGTTAAGATCCACATCTAAATATAAAGTGACAGTGGCTGAAGTACAGAGGTGATTGTCCCCTCCTGAATGCTT
AAATGCCTCATTACTGGGAGGTGTCCTCAGATGAGCCAAATCAAAAAATGGAGGCTGGACCTTGCAGGAGAAGTTGGACA
AGATTGGGTTGAATCTTCCAGCTGGCAGAGGGAAAGCTGCTCACGTGACTCTCCTGACATCTTTAGTGGAAGGTGAAGCC
ATTCATTTGGCTCAGGACTTTGCGTATGTCTGTGGAGCTGAATTCCCTAGTAAACTGGTGGCAGAATATTTAACCAGACT
CCATCTTAGAGGTCAAAATGAA

Alignment

ORF - retro_ogar_1767 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.11 %
• Parental protein coverage: 72.89 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  DRHDASSNGNPRIP-HLSSAGQHLYSPAPPLS-HAGVAEYQPPPYFPPPYQQLAYSQSADPYSHLGEAYA
          D.H..SS.GN.RIP.HLS.A..HLYS.A.PLS.H.GV..YQPPPYF.P.Y.QLAYSQ.ADPY.HLGEAY.
Retrocopy DHHGVSSEGNLRIP>HLSLARRHLYSLA*PLS<HTGVTKYQPPPYFLPSYRQLAYSQLADPYLHLGEAYT

Parental  AAINPLHQPAPAGSQQQAWPGRQSQEGAGLPSHHGRPAGLLPHLSGLEGGAVSARRDA-YRRSDLLLPHA
          AA...L.QP.P.GSQQQ..P..Q.QEGAGLP..HG...GLL..LS.LE.G.VS..R.A.Y..SDL.L.H.
Retrocopy AANDLLYQPVPTGSQQQPCPSCQTQEGAGLPLQHGHLVGLLCYLS*LEDGVVSTHRNA<YCGSDLMLLHQ

Parental  HALDAAGLAENLG-LHDMAHQMEEVQNVEDQHLLLHDQTVIRKGPISMTKNPLSLPCQKELVGAVMNPSE
          H.LDA..LAENLG.LH.MAHQMEEVQN...QHLLLHDQTVI.KGPI.MTKNPL.LPCQKELVGAVMNPSE
Retrocopy HTLDAMDLAENLG<LHNMAHQMEEVQNADHQHLLLHDQTVICKGPI*MTKNPLCLPCQKELVGAVMNPSE

Parental  VFCSVPGRLSLLSSTSKYKVTVAEVQRRLSPPECLNASLLGGVLRRAKSKNGGRSLREKLDKIGLNLPAG
          VFCSVPGRLSLL.STSKYKVTVAEVQR.LSPPECLNASLLGGVLR.AKSKNGG..L.EKLDKIGLNLPAG
Retrocopy VFCSVPGRLSLLRSTSKYKVTVAEVQR*LSPPECLNASLLGGVLR*AKSKNGGWTLQEKLDKIGLNLPAG

Parental  RRKAAHVTLLTSLVEGEAVHLARDFAYVCEAEFPSKPVAEYLTRPHLGGRNE
          R.KAAHVTLLTSLVEGEA.HLA.DFAYVC.AEFPSK.VAEYLTR.HL.G.NE
Retrocopy RGKAAHVTLLTSLVEGEAIHLAQDFAYVCGAEFPSKLVAEYLTRLHLRGQNE

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_1767 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
Choloepus hoffmanni	ENSCHOG00000011025	1 retrocopy	retro_chof_1226,
Macropus eugenii	ENSMEUG00000007703	1 retrocopy	retro_meug_166,
Myotis lucifugus	ENSMLUG00000010003	2 retrocopies	retro_mluc_284, retro_mluc_5,
Monodelphis domestica	ENSMODG00000016445	1 retrocopy	retro_mdom_728,
Otolemur garnettii	ENSOGAG00000033901	1 retrocopy	retro_ogar_1767 ,
Pan troglodytes	ENSPTRG00000013654	1 retrocopy	retro_ptro_1933,
Ictidomys tridecemlineatus	ENSSTOG00000014299	3 retrocopies	retro_itri_1741, retro_itri_1801, retro_itri_1813,
Tursiops truncatus	ENSTTRG00000005983	1 retrocopy	retro_ttru_535,