RetrogeneDB ID: retro_ogar_1872

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873570.1:9540319..9540705(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RER1
• Ensembl ID: ENSOGAG00000001472
• Aliases: None
• Description: RER1 retention in endoplasmic reticulum 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:30309]

Sequence

>retro_ogar_1872
ATGTCCGAAGGGGACAGTGTTGGAGATTGTGTCCATGGAAAACCCTCAGTGGTGTACAGATTTTTCACAAGGCTTGGACA
GATTTATCAGTCCTGAGCGGACAAGTTACACCATACATAGCCGTGAGATGGGCGGTGACTATGGCTCTGAGCTTTGTCTA
CACGATTAGAGTTTACGTGTTGCAGGGTTGGAACATTGTGACCTATGCCTTGGGAATCGACCATCTAAATCTTTTCCTAG
CTTTTCTTTCTCCCAAAGTGGATTCTTCCTTAATGGAAGACTCAGATGATGGTCCATCATTACCAACCCAACAGAACAAG
GAATTTCGTCCCTTTATTCAAAGGCTTCTAGAGTTTAAATTTTGGCACACAGCTACCAAGGGCATC

Alignment

ORF - retro_ogar_1872 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.62 %
• Parental protein coverage: 65.82 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSEGDSVGDSVHGKPSVVYRFFTRLGQIYQSWLDKS-TPYTAVRWVVTLGLSFVYMIRVYLLQGWYIVTY
          MSEGDSVGD.VHGKPSVVYRFFTRLGQIYQS..DK..TPY.AVRW.VT..LSFVY.IRVY.LQGW.IVTY
Retrocopy MSEGDSVGDCVHGKPSVVYRFFTRLGQIYQS*ADKL<TPYIAVRWAVTMALSFVYTIRVYVLQGWNIVTY

Parental  ALGIYHLNLFIAFLSPKVDPSLMEDSDDGPSLPTKQNEEFRPFIRRLPEFKFWHAATKGI
          ALGI.HLNLF.AFLSPKVD.SLMEDSDDGPSLPT.QN.EFRPFI.RL.EFKFWH.ATKGI
Retrocopy ALGIDHLNLFLAFLSPKVDSSLMEDSDDGPSLPTQQNKEFRPFIQRLLEFKFWHTATKGI

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_1872 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009307	1 retrocopy	retro_btau_841,
Canis familiaris	ENSCAFG00000019395	1 retrocopy	retro_cfam_1164,
Macropus eugenii	ENSMEUG00000006273	1 retrocopy	retro_meug_667,
Otolemur garnettii	ENSOGAG00000001472	1 retrocopy	retro_ogar_1872 ,