RetrogeneDB ID: retro_ogar_2771

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873663.1:2012464..2013130(+)
• Located in intron of: ENSOGAG00000015403

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000028408
• Aliases: None
• Description: None

Sequence

>retro_ogar_2771
ATGGCGTTTGTGAAGAGTGGATGGTTGCTGCAACAGAGTACCATTTTGAAACGCTGGAAGAAGAATTGGTTTGATCTGTG
GTTGGATGGTCACCTGATCTATTATGATGACCAGACCCGTCAGAGTATCGAGGACAAGGTCCACATGCCAGTGGATTGCA
TCAACATCTGCATGGGGCACGAATGTCAGTATATTCAGCCTCCAGAAGGAAAGTCAAAAGACTATATGCTGCAGATTGTT
TGCGAAGATGGGAAAACTATCAGTCTTTGTGCAGAAAGTACAGATGATTGTTTGGCATGGAAATTTACACTCCAGGATTC
CAGGACAAACACAGTGTATGTGGGCTCTGAGGTCATGACTGATGAGACAGCTGTGGTTTCTTCCCCTCTTCTATATACAG
TGTATGCCACACCAACACCTGAGCAGGCATATGGCTATGGTCCATATGGTGGTGCATACCCACCAGGAACTCAAGTTGTC
TATGCTACAACTGGGCAAGCATATGCTGTGCCCTACCAGTACCTATATGCAGGACTTTACGGACAGCACCCTACCAACCA
AGTCATGATCTGGGAGCGGTATTGAGACAACGACAGTGATTTGGCACTGGGCATGCTGGCTGGGGCAGCCACGGGCCTGG
CCTTAGGCTCTCTCTTCTGGGTCTTC

Alignment

ORF - retro_ogar_2771 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.89 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAFVKSGWLLRQSTILKRWKKNWFDLWSDGHLIYYDDQTRQSIEDKVHMPVDCINIRMGHECRDIQPPEG
          MAFVKSGWLL.QSTILKRWKKNWFDLW.DGHLIYYDDQTRQSIEDKVHMPVDCINI.MGHEC..IQPPEG
Retrocopy MAFVKSGWLLQQSTILKRWKKNWFDLWLDGHLIYYDDQTRQSIEDKVHMPVDCINICMGHECQYIQPPEG

Parental  KSKDYMLQIVCRDGKTISLCAESTDDCLAWKFTLQDSRTNTAYVGSAVMTDETAVVSSPPPYTAYATPTP
          KSKDYMLQIVC.DGKTISLCAESTDDCLAWKFTLQDSRTNT.YVGS.VMTDETAVVSSP..YT.YATPTP
Retrocopy KSKDYMLQIVCEDGKTISLCAESTDDCLAWKFTLQDSRTNTVYVGSEVMTDETAVVSSPLLYTVYATPTP

Parental  EQAYGYGPYGGAYPPGTQVVYAANGQAYAVPYQYPYAGLYGQHPTNQVIIRERYRDNDSDLALGMLAGAA
          EQAYGYGPYGGAYPPGTQVVYA..GQAYAVPYQY.YAGLYGQHPTNQV.I.ERY.DNDSDLALGMLAGAA
Retrocopy EQAYGYGPYGGAYPPGTQVVYATTGQAYAVPYQYLYAGLYGQHPTNQVMIWERY*DNDSDLALGMLAGAA

Parental  TGMALGSLFWVF
          TG.ALGSLFWVF
Retrocopy TGLALGSLFWVF

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_2771 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 13 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000000941	2 retrocopies	retro_btau_1134, retro_btau_1635,
Cavia porcellus	ENSCPOG00000026329	1 retrocopy	retro_cpor_985,
Equus caballus	ENSECAG00000017331	1 retrocopy	retro_ecab_1069,
Felis catus	ENSFCAG00000027063	1 retrocopy	retro_fcat_213,
Homo sapiens	ENSG00000115762	1 retrocopy	retro_hsap_1890,
Meleagris gallopavo	ENSMGAG00000001052	1 retrocopy	retro_mgal_17,
Monodelphis domestica	ENSMODG00000018634	1 retrocopy	retro_mdom_720,
Nomascus leucogenys	ENSNLEG00000010698	2 retrocopies	retro_nleu_1471, retro_nleu_2016,
Oryctolagus cuniculus	ENSOCUG00000024282	1 retrocopy	retro_ocun_654,
Otolemur garnettii	ENSOGAG00000007287	1 retrocopy	retro_ogar_920,
Otolemur garnettii	ENSOGAG00000028408	2 retrocopies	retro_ogar_2771 , retro_ogar_703,
Pongo abelii	ENSPPYG00000012740	1 retrocopy	retro_pabe_1570,
Ictidomys tridecemlineatus	ENSSTOG00000020509	1 retrocopy	retro_itri_56,