RetrogeneDB ID: retro_ogar_691

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873525.1:34718658..34718988(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SSR4
• Ensembl ID: ENSOGAG00000006738
• Aliases: None
• Description: signal sequence receptor, delta [Source:HGNC Symbol;Acc:11326]

Sequence

>retro_ogar_691
TCCCTGACATGCAAGAACAGGGTCCAGAACATGGCTCTTTATGCTGATGTTGGGGTAAAACAATTCCCTGTCACCCGCGG
CTAGGACGTGGGGTGTTATCAGGTGTCCTGGAGTCTGGAACACAAGAATGCTCACACGGGTACATATGAAGTCAGGTTCT
TTGAAGAGGAGTCCTACAGCCTCCTAAGGAAGGCTCAGAGAAATAATGAGGACATTTCGATCATCCCACCCCTTTTCACA
GTCAGTGTGGACCACTGGGGTACCTGGAACAGACCGTGGGTCTCCACTGAGGTGCCAGCCACAGCAATTGGACTTGTGAT
CTACTTACTA

Alignment

ORF - retro_ogar_691 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90. %
• Parental protein coverage: 63.95 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SLTCKNRVQNMALYADVGGKQFPVTRGQDVGRYQVSWSLEHKNAHAGTYEVRFFDEESYSLLRKAQRNNE
          SLTCKNRVQNMALYADVG.KQFPVTRG.DVG.YQVSWSLEHKNAH.GTYEVRFF.EESYSLLRKAQRNNE
Retrocopy SLTCKNRVQNMALYADVGVKQFPVTRG*DVGCYQVSWSLEHKNAHTGTYEVRFFEEESYSLLRKAQRNNE

Parental  DISIISPLFTVSVDHRGTWNGPWVSTEVLAAAIGLVIYYL
          DISII.PLFTVSVDH.GTWN.PWVSTEV.A.AIGLVIY.L
Retrocopy DISIIPPLFTVSVDHWGTWNRPWVSTEVPATAIGLVIYLL

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_691 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 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000011328	1 retrocopy	retro_acar_97,
Callithrix jacchus	ENSCJAG00000011167	1 retrocopy	retro_cjac_2056,
Dasypus novemcinctus	ENSDNOG00000025714	2 retrocopies	retro_dnov_1204, retro_dnov_922,
Homo sapiens	ENSG00000180879	1 retrocopy	retro_hsap_2536,
Gorilla gorilla	ENSGGOG00000024329	1 retrocopy	retro_ggor_1585,
Loxodonta africana	ENSLAFG00000006908	1 retrocopy	retro_lafr_337,
Mustela putorius furo	ENSMPUG00000008803	1 retrocopy	retro_mputfur_148,
Nomascus leucogenys	ENSNLEG00000013602	1 retrocopy	retro_nleu_2738,
Otolemur garnettii	ENSOGAG00000006738	1 retrocopy	retro_ogar_691 ,
Procavia capensis	ENSPCAG00000009037	1 retrocopy	retro_pcap_139,
Sus scrofa	ENSSSCG00000012784	1 retrocopy	retro_sscr_866,