RetrogeneDB ID: retro_ogar_3034

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873700.1:1117432..1118014(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025680
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BNIP1
• Ensembl ID: ENSOGAG00000007537
• Aliases: None
• Description: BCL2/adenovirus E1B 19kDa interacting protein 1 [Source:HGNC Symbol;Acc:1082]

Sequence

>retro_ogar_3034
ATGGCGGCTCCCCAAGATGTCCACATCCGGATACCTAACCAAGAGATTGTCAAATTTGACCTGGAGGTGAAGGCGCTTAT
TCAGGATATTCGTGATTGTTCAGGACCCTTAGGCGCACTTACTGAACTGAATACTAAAGTGAAGGAGAAATTCCAACAGT
TACGTTACAGAATACAGGAGCTTGAGCAGCTGGCTGAAGAGCAAGACAAAGAGTCAGAGAAGCAACTTCTGCTCCAGGAA
GTGGAGAATCACAAAAAGCGGATGCTCAGCAATCAGACCTCATGGAGGAAAGAAAGCCCATCTAACTTGCAAAATTGCAA
TCAACAATCTAGAGAGAGCAGAACTTCTCCGGGGAGGAGAGCTCTTAAGGCAAAGGAAAACCACCAAGGAGAGCCTGGCC
CAGACATCCGGCACCATCAGCGGGATGGTGTCCCAGCAGGTCCAGCAGAGCGAGGAGGCCATGCAGACTCTAGTCAATTC
TTCACAAACAATCCTGGATGCAAATGAAGAATTTAAGTCCATGTCGGGACCATTCAGCTGGGCGGGAAGCTCATTACAAA
GTACAATCACTGGGAGCTGAGC

Alignment

ORF - retro_ogar_3034 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.92 %
• Parental protein coverage: 87.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAPQDVHVRICNQEIVKFDLEVKALIQDIRDCSGPLGALTELNTKVKEKFQQLRHRIQELEQLAKEQDK
          MAAPQDVH.RI.NQEIVKFDLEVKALIQDIRDCSGPLGALTELNTKVKEKFQQLR.RIQELEQLA.EQDK
Retrocopy MAAPQDVHIRIPNQEIVKFDLEVKALIQDIRDCSGPLGALTELNTKVKEKFQQLRYRIQELEQLAEEQDK

Parental  ESEKQ-LLLQEVENHKKQMLSNQT-SWRKANLTCKIAIDNLEKAELLRGGDLLRQRKTTKESLAQTSSTI
          ESEKQ.LL.......K............KA.LTCKIAI.NLE.AELLRGG.LLRQRKTTKESLAQTS.TI
Retrocopy ESEKQLLLQEVENHKKRMLSNQTS>GGKKAHLTCKIAINNLERAELLRGGELLRQRKTTKESLAQTSGTI

Parental  TESLMGISRMMSQQVQQSEEAMQTLVNSSRTILDANEEFKSMS-GTIQLGRKLITKYNRRELT
          .....G......QQ...........VNSS.TILDANEEFKSMS.GTIQLG.KLITKYN..EL.
Retrocopy S----GMVSQQVQQSEEAMQTL---VNSSQTILDANEEFKSMS<GTIQLGGKLITKYNHWELS

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_3034 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000007537	1 retrocopy	retro_ogar_3034 ,