RetrogeneDB ID: retro_ogar_1042

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873534.1:30172882..30173224(+)
• Located in intron of: ENSOGAG00000005320

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL22
• Ensembl ID: ENSOGAG00000016777
• Aliases: None
• Description: mitochondrial ribosomal protein L22 [Source:HGNC Symbol;Acc:14480]

Sequence

>retro_ogar_1042
ATTGACCAGGCTTTGACTCAGTTGGAATTCAGTGACAGAAATAGGGCCCAAATAATTAAAGAGGTTCTCTTAGAAGCACA
AGATATGGCAGTGAGAGACCACAATGTGGAATTCAGATCCAATTTATATATAGCTAAGTCCACCTCAGGGCAAGGCCAGT
GCCTAAAACGTATCCACTATCACGGCAGAGGTCACTTTGGGATCATGGAGAAAGTTTATTGCCATTATTTTGTAAAGTTG
GTGGAAGGACCCCCACCTTCACATGAGGAACCGAAGACAGCAGTTACTTACACCAAAGAGTATGTTCAGGAGCTTCAGAA
CCAGACCATCATTCACACTCTA

Alignment

ORF - retro_ogar_1042 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.47 %
• Parental protein coverage: 55.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IDQALAQLEFSDKKGAQIIKEVLLEAQDMAVRDHNVEFRSNLYIAKSTSGRGQCLKRIRYHGRGYFGIME
          IDQAL.QLEFSD...AQIIKEVLLEAQDMAVRDHNVEFRSNLYIAKSTSG.GQCLKRI.YHGRG.FGIME
Retrocopy IDQALTQLEFSDRNRAQIIKEVLLEAQDMAVRDHNVEFRSNLYIAKSTSGQGQCLKRIHYHGRGHFGIME

Parental  KVYCHYFVKLVEGPPPPHEEPKTAVAYAKEYVQELRNRTIIHTL
          KVYCHYFVKLVEGPPP.HEEPKTAV.Y.KEYVQEL.N.TIIHTL
Retrocopy KVYCHYFVKLVEGPPPSHEEPKTAVTYTKEYVQELQNQTIIHTL

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_1042 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003875	1 retrocopy	retro_acar_88,
Bos taurus	ENSBTAG00000019457	1 retrocopy	retro_btau_1348,
Canis familiaris	ENSCAFG00000017605	2 retrocopies	retro_cfam_1456, retro_cfam_584,
Macaca mulatta	ENSMMUG00000021229	1 retrocopy	retro_mmul_1889,
Otolemur garnettii	ENSOGAG00000016777	1 retrocopy	retro_ogar_1042 ,
Vicugna pacos	ENSVPAG00000001170	1 retrocopy	retro_vpac_294,