RetrogeneDB ID: retro_ogar_3041

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873701.1:614863..615801(+)
• Located in intron of: ENSOGAG00000029384

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003220
• Aliases: None
• Description: None

Sequence

>retro_ogar_3041
GCGCCAACACCAGCTCCAGCGGCTGCGGCTCTGGCCTCATTTTCAGACCCAGTGGCGGGGGAAGCGGCTACAACTACAGC
TCCGGGCCAGACCCCAGCATCAGCGCAAGCCCCAGCGTAGAACCCTGCACTCTCATTGACTGGTCCAGCCTACCCAGGGC
CCTTCCCTGGTGGTCGCGGGATCAAACTTCACCCAGTCATTTTGGCCTCCATCATGTACGACTACAGGCAACGAAATGAG
GGAGCTGCCTGTGTTACCGGAACCCCCTGGGAACTGCTGACAAGCACTCAGTGGAGGTCACCAATTGCTTTTCAGTGCCG
CACAATGAGTCAGAAGATGAAGTGGCTGTTGACATGGAATTTGCTAAGAACATGTATGAACTGCACAGAAAAGTCTCTCC
AAATGAGCTCATCCTGGGCTGGTATGCTATAGGCCATGATATCACAGAACACTCTCTGCTAATCCTTGAGTACTCCAGCC
CGGAGGCCCCCAACCCCATTCACCTCACTGTGGAAACAAGTCTCCAGAATGGCCCCGTGAGCATCAAAGCCTATGTCAGC
ACTTTAATGGCTGTTCCTCTGAGGACCATGGGAGTGATGTTCACACCTCTGACAGTGAAATACACATATTAGGACAGTGA
ATGCACTGGAGTTGACCTGATCATGAAGACCTGTTTTAGCCCCAACTGAGTGATTGGACTCTCAAGAGACTTGCAGCAAG
TAGGAGGGGCATCAGCTCCTATCCAGGACGCCCTAAGCACCGTGTTGCAGTACACAGAGGATGTACTGTCTAGAGAGGTG
TCAGCTGACAGGACTGTGGGTCGCTTCTTGATGAGCCTGGTTAACCGAGTACCCCAAATTGCTCCTGACAACTTTGAGAC
CATGCTCAACAACAACATCGATGACCTGCTGATGGTGACCTATCTGGCCAATCTCAGT

Alignment

ORF - retro_ogar_3041 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.86 %
• Parental protein coverage: 83.91 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  APTPAPAPAAAPASSSDPAAA-AATATAPGQTPASAQAPSQTPAPALTGPALPGPFPGGRVVKLHPVILA
          APTPAPA.AAA.AS.SDP.A..AAT.TAPGQTPASAQAP...PA..LTGPA.PGPFPGGR..KLHPVILA
Retrocopy APTPAPA-AAALASFSDPVAGEAATTTAPGQTPASAQAPA*NPALSLTGPAYPGPFPGGRGIKLHPVILA

Parental  SIVDSYERRNEGAARVIGT-LLGTVDKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELHKKVSPNELI
          SI...Y..RNEGAA.V.GT..LGT.DKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELH.KVSPNELI
Retrocopy SIMYDYRQRNEGAACVTGT<PLGTADKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELHRKVSPNELI

Parental  LGWYATGHDITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRMSIKAYVSTLMGVPGRTMGVMFTPLTVKY
          LGWYA.GHDITEHS.LI.EY.S.EAPNPIHLTV.TSLQNG..SIKAYVSTLM.VP.RTMGVMFTPLTVKY
Retrocopy LGWYAIGHDITEHSLLILEYSSPEAPNPIHLTVETSLQNGPVSIKAYVSTLMAVPLRTMGVMFTPLTVKY

Parental  AYYDTERIGVDLIMKTCFSPNRVIGLSSDLQQVGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLM
          .Y.D.E..GVDLIMKTCFSPN.VIGLS.DLQQVGGASA.IQDALSTVLQY.EDVLS..VSAD.TVGRFLM
Retrocopy TY*DSECTGVDLIMKTCFSPN*VIGLSRDLQQVGGASAPIQDALSTVLQYTEDVLSREVSADRTVGRFLM

Parental  SLVNQVPKIAPDDFETMLNSNINDLLMVTYLANLT
          SLVN.VP.IAPD.FETMLN.NI.DLLMVTYLANL.
Retrocopy SLVNRVPQIAPDNFETMLNNNIDDLLMVTYLANLS

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_3041 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 16 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004861	1 retrocopy	retro_btau_527,
Canis familiaris	ENSCAFG00000006884	1 retrocopy	retro_cfam_1339,
Callithrix jacchus	ENSCJAG00000011903	1 retrocopy	retro_cjac_1416,
Erinaceus europaeus	ENSEEUG00000001226	1 retrocopy	retro_eeur_130,
Echinops telfairi	ENSETEG00000002717	2 retrocopies	retro_etel_1583, retro_etel_35,
Homo sapiens	ENSG00000175390	3 retrocopies	retro_hsap_2106, retro_hsap_2512, retro_hsap_4321,
Gorilla gorilla	ENSGGOG00000011702	5 retrocopies	retro_ggor_1566, retro_ggor_1567, retro_ggor_1568, retro_ggor_1589, retro_ggor_1590,
Myotis lucifugus	ENSMLUG00000000825	1 retrocopy	retro_mluc_2356,
Macaca mulatta	ENSMMUG00000015010	1 retrocopy	retro_mmul_412,
Oryctolagus cuniculus	ENSOCUG00000004225	1 retrocopy	retro_ocun_1488,
Otolemur garnettii	ENSOGAG00000003220	3 retrocopies	retro_ogar_3041 , retro_ogar_859, retro_ogar_863,
Otolemur garnettii	ENSOGAG00000014868	1 retrocopy	retro_ogar_388,
Otolemur garnettii	ENSOGAG00000016843	1 retrocopy	retro_ogar_1236,
Pongo abelii	ENSPPYG00000003512	1 retrocopy	retro_pabe_175,
Pan troglodytes	ENSPTRG00000003326	1 retrocopy	retro_ptro_197,
Pteropus vampyrus	ENSPVAG00000015764	1 retrocopy	retro_pvam_371,