RetrogeneDB ID: retro_ogar_2895

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873677.1:3873496..3874117(+)
• Located in intron of: ENSOGAG00000027364

Retrocopy information

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

Parental gene information

• Parental gene symbol: ABT1
• Ensembl ID: ENSOGAG00000026316
• Aliases: None
• Description: activator of basal transcription 1 [Source:HGNC Symbol;Acc:17369]

Sequence

>retro_ogar_2895
ATAGAGGTGGAGGGAGGAGCAGGAGGAATCTGAAGAAGCAGTTCGTGGCAGCAAGAAACAGATAATTCTGGGTATTGTGT
ACTTAGGCACATCTTGTGGCACTTCTAGCCCCTGTGGGTCTGTAACCTCCTCAGCAACTACAGTGACGGTGAGGTTGGAT
GAGTTTTCTTTCAGACAGAGGACCAATTACCAGTTCATGAGATTTCAAAAGGAGGTAGCAGTGGCCACAGAGGAGGAAAA
CAGTCCTACAGCAAGGACTATACTGAGGGCCGTGTGGAGTTCTGTGACAAGTACATAGCTGATTGCATAGCAGCCAGTCT
ATATAACATGCTTACAGGTGCCCATAGGCACAGCCCCTTCTCTTATGACTTAAGGAATCTCAAATATTTGCACTGTTTCA
CCCGGTCCCACCTCAGTGAGCGTCTTGCTTTTGAGCACCAGGTGTGCCACTAGCACCTTAGAGCAGAGCTTGCTCAGGCC
AGGCGTGAGACTGACTTCTGTCTTCAAAGTGTGGAGGAAGGACAATTCCTTGCTAACAGGGATCCTGCCTGCTTGAATGG
CTCCTGGGCATTTGCTAAGCATCCTACTGAGCAGGAGCTGAGGGTCTAGAAAGCAATCCGT

Alignment

ORF - retro_ogar_2895 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.09 %
• Parental protein coverage: 75.37 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LEVE-EEQEESEETARGGKRRVVPGIVYLG-HIPPRFRPLHVRNLLSSY--GEVGRVFFQAEDRFVKRKK
          .EVE.EEQEESEE..RG.K.....GIVYLG.HI...F.PL.V.NLLS.Y..GEVG.VFFQ.ED.......
Retrocopy IEVE>EEQEESEEAVRGSKKQIILGIVYLG<HILWHF*PLWVCNLLSNYSDGEVG*VFFQTEDQLPVHEI

Parental  KAAAATG--GKKGSYSKDYTEGWVEFRDKRVAKRVAASLHNTPMGARRRSPFRYDLWNLKYLHRFTWSHL
          ......G..G.K.SYSKDYTEG.VEF.DK..A...AASL.N...GA.R.SPF.YDL.NLKYLH.FT.SHL
Retrocopy SKGGSSGHRGGKQSYSKDYTEGRVEFCDKYIADCIAASLYNMLTGAHRHSPFSYDLRNLKYLHCFTRSHL

Parental  SEHLAFERQVRRQRLRAEVAQAKRETDFYLRSVEKGQRFLASDGDPGRPDGSWAFAQRPTEQELRARKAA
          SE.LAFE.QV....LRAE.AQA.RETDF.L.SVE.GQ.FLA...DP....GSWAFA..PTEQELR..KA.
Retrocopy SERLAFEHQVCH*HLRAELAQARRETDFCLQSVEEGQ-FLA-NRDPACLNGSWAFAKHPTEQELRV*KAI

Parental  R
          R
Retrocopy R

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_2895 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005188	1 retrocopy	retro_chof_1748,
Cavia porcellus	ENSCPOG00000008937	1 retrocopy	retro_cpor_1386,
Gorilla gorilla	ENSGGOG00000024149	1 retrocopy	retro_ggor_2106,
Macaca mulatta	ENSMMUG00000006914	1 retrocopy	retro_mmul_1959,
Otolemur garnettii	ENSOGAG00000026316	1 retrocopy	retro_ogar_2895 ,
Pongo abelii	ENSPPYG00000016335	1 retrocopy	retro_pabe_2541,
Rattus norvegicus	ENSRNOG00000017585	1 retrocopy	retro_rnor_841,
Sarcophilus harrisii	ENSSHAG00000003493	1 retrocopy	retro_shar_97,