RetrogeneDB ID: retro_ogar_3218

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873743.1:511903..512942(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERAL1
• Ensembl ID: ENSOGAG00000011082
• Aliases: None
• Description: Era-like 12S mitochondrial rRNA chaperone 1 [Source:HGNC Symbol;Acc:3424]

Sequence

>retro_ogar_3218
ACTGTCAATGGAGATGAGCAGGAATTCCTCTTGGTTCATCACCCTGACATGCCTGAGAATCCCCGGGTGCTACGAGTGGT
CCTCCTGAGAGCTCCGAATGCAAGGAAGTCAATTCTCTCCAATTGACTACTGGGCCAAAAGGTATTTCCTGTCCCCAAGA
AGGTGCACACCACTCACTGTCAAGCTCTGGGTGTCATCACAGAGAAGGAAGCACAGGTGATTCTGTTGGACACTCCTGGC
ATTATCAATCCTGTTAATTGGAAGTGGCACCACCTAGAGCTCTCTTTGTTGGAAGATGTACAGAAGAGTATGGAATCTGC
TGATCTCGTTATTGTTCTTGTGGATATCTTAGACAAGTGGACTCAGAACCAGCTCAACCCCCGGGGGCTCCAGTGCTTGA
CTCAGTTCTCCCAGGTCCCTAGCATCCTTATCATGGCTAAGGTAGATTGCTTAAAGAAAAAAGTCACTTCTGGAGCTTAC
AGCAGCCCTCACTGAAGGAGTAGTCAATGGCAAAAAGCTAAAGCTAAAGCAAGCCTTCCGCTCAAACCCTGGCACAGATG
GTCCCAGCCCCACAGCTAAGGGCCAAAACACACAGTCTGTGGGAAGCCCTCAGAGAACTGGCTGGCCACACTTCCAGGCA
ATCTTCATATTGTCAGCCCTAAGCCAGGAGGATGTGAAAATACTAAAGAATTACCTCCTGGCCCAGGCGAAGCCCGGGCC
CTGGGAGTTCCACAGTGGAGTCCTCACAAGCCAGACACCCGAAGAGCTCTGTGCCAACATCATCCGAACGAAGATCCTAG
AAGATCTGCCCCAGGAAGTGCCCTACAATGTGCAGCAGAAGACAGTGTTGTGGGAAGAGAGACCAAGTGGGGAGCTGGTG
ATTGAACAGAAGCTCCTGGTACCCAAAGAATCTCATGTGAGGCTCCTGATTGGTCCAAAGGGCCACCTGATCTCCCAGAT
TGCACAGGAGGTGGGCTGTGACCTTATGGACATCTTCCTCTGTGATGTTAAGATCCGTCGCTCTGTGAAGCTCATCAAG

Alignment

ORF - retro_ogar_3218 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.79 %
• Parental protein coverage: 79.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SIHGDEQELLLVHCPDMPENPRVLRVVLLGAPNAGKSTLSNQLLGRKVFPVSKKVHTTRCQALGVITEKE
          ...GDEQE.LLVH.PDMPENPRVLRVVLL.APNA.KS.LSN.LLG.KVFPV.KKVHTT.CQALGVITEKE
Retrocopy TVNGDEQEFLLVHHPDMPENPRVLRVVLLRAPNARKSILSN*LLGQKVFPVPKKVHTTHCQALGVITEKE

Parental  AQVILLDTPGIINPVKRKRHHLELSLLEDPWKSMESADLVIVLVDISDKWTRNQLNPQVLQCLTQFSQVP
          AQVILLDTPGIINPV..K.HHLELSLLED..KSMESADLVIVLVDI.DKWT.NQLNP..LQCLTQFSQVP
Retrocopy AQVILLDTPGIINPVNWKWHHLELSLLEDVQKSMESADLVIVLVDILDKWTQNQLNPRGLQCLTQFSQVP

Parental  SILVMNKVDCLKK-KSLLLELTAALTEGVVNGKKLKIKQAFHSNPGTDDPSPTAKGQNTQSVESPQRIGW
          SIL.M.KVDCLKK.KSLL.ELTAALTEGVVNGKKLK.KQAF.SNPGTD.PSPTAKGQNTQSV.SPQR.GW
Retrocopy SILIMAKVDCLKK>KSLL-ELTAALTEGVVNGKKLKLKQAFRSNPGTDGPSPTAKGQNTQSVGSPQRTGW

Parental  PHFQEIFMLSALSQEDVKILKNYLLAQAKPGPWEFHSGVLTSQTPEEICANIIRAKLLEYLPQEVPYNVQ
          PHFQ.IF.LSALSQEDVKILKNYLLAQAKPGPWEFHSGVLTSQTPEE.CANIIR.K.LE.LPQEVPYNVQ
Retrocopy PHFQAIFILSALSQEDVKILKNYLLAQAKPGPWEFHSGVLTSQTPEELCANIIRTKILEDLPQEVPYNVQ

Parental  QKTVLWEEGPSGELVIEQKLLVPKESHVKLLIGPKGHLISQIAQEVGCDLMDIFLCDVKIRLSVKLIK
          QKTVLWEE.PSGELVIEQKLLVPKESHV.LLIGPKGHLISQIAQEVGCDLMDIFLCDVKIR.SVKLIK
Retrocopy QKTVLWEERPSGELVIEQKLLVPKESHVRLLIGPKGHLISQIAQEVGCDLMDIFLCDVKIRRSVKLIK

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_3218 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011551	1 retrocopy	retro_etel_1933,
Microcebus murinus	ENSMICG00000005345	1 retrocopy	retro_mmur_1619,
Otolemur garnettii	ENSOGAG00000011082	1 retrocopy	retro_ogar_3218 ,