RetrogeneDB ID: retro_ogar_3363

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873803.1:847184..847679(-)
• Located in intron of: ENSOGAG00000005068

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000031713
• Aliases: None
• Description: None

Sequence

>retro_ogar_3363
ATGAAGAGCGTATTTGTTACTGTGGGGACCACCAGCTTTGACGACCTGATTGCGTGTGTGTCATCACACGACTGTCTGCA
AATAATCCAGAGCCTCGGTTACAGCCGACTTATCCTCCAAATTGAGAGAGGAACAGTGGCACCTGAACCATTCCATACTG
AGTCATTTACTCTGGATGTTTATAGGTACAAGGATTCAGTAAAAGAAGACCTTCGGAAGGCAGATCTTGTCATTAGTCAC
ACAGGGCCAGGAATCTGTTTGGAGTGTCTGGAAAAAGGAAAGCCACTTGTGGTGGTTGTAAACTAAAAGTTGATGAACAA
TCATCAACTGGAATTGGCAAAGCAGCTACACAAAGAAGGTCATCTCTTCTACTGTACCTGCAGCACGCTTCCTGGGCTGT
TACAGTCAATGGACTTATCAACACTGAAATGTTATCCTTCTGGCCAGCCAGAAAAATTTTCTGCATTTTTGGATAAAGTT
GTTGGATTACAAAAA

Alignment

ORF - retro_ogar_3363 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.94 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKSVFVTVGTTSFDDLIACVSSHDCLQIIESLGYSRLILQIGRGTVAPEPFRTESFALDVYRYKDSVKED
          MKSVFVTVGTTSFDDLIACVSSHDCLQII.SLGYSRLILQI.RGTVAPEPF.TESF.LDVYRYKDSVKED
Retrocopy MKSVFVTVGTTSFDDLIACVSSHDCLQIIQSLGYSRLILQIERGTVAPEPFHTESFTLDVYRYKDSVKED

Parental  LRKADLVISHAGAGTCLECLEKGKPLVVVVNEQLMNNHQLELAKQLHKEGHLFYCTCSTLPGLLQSMDLS
          LRKADLVISH.G.G.CLECLEKGKPLVVVVN..LMNNHQLELAKQLHKEGHLFYCTCSTLPGLLQSMDLS
Retrocopy LRKADLVISHTGPGICLECLEKGKPLVVVVN*KLMNNHQLELAKQLHKEGHLFYCTCSTLPGLLQSMDLS

Parental  TLKCYPPGQPEKFSAFLDKVVGLQK
          TLKCYP.GQPEKFSAFLDKVVGLQK
Retrocopy TLKCYPSGQPEKFSAFLDKVVGLQK

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_3363 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000005175	1 retrocopy	retro_mdom_1156,
Mus musculus	ENSMUSG00000041718	1 retrocopy	retro_mmus_256,
Oryctolagus cuniculus	ENSOCUG00000000232	2 retrocopies	retro_ocun_1459, retro_ocun_477,
Otolemur garnettii	ENSOGAG00000031713	2 retrocopies	retro_ogar_2864, retro_ogar_3363 ,
Tupaia belangeri	ENSTBEG00000010726	2 retrocopies	retro_tbel_117, retro_tbel_6,