RetrogeneDB ID: retro_ogar_2546

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873633.1:598710..600267(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NR5A2
• Ensembl ID: ENSOGAG00000025622
• Aliases: None
• Description: nuclear receptor subfamily 5, group A, member 2 [Source:HGNC Symbol;Acc:7984]

Sequence

>retro_ogar_2546
GCTGGGCTTCCGGACCCACACAGACCCCTTATTCCCGCCCGCAGCCACCTTGTCATGCTGCCCAAAGTGGAAACGGAAGC
CCTGGGACTGGCTCGATCGCATGGGGAACAGGGCCAGATGCCGGAAAACATGCAAGTGTCTCAATTTAAAATGGTGAATT
ACTCCTATGATGAAGATCTTGAAGAGCTTTGTCCTGTGTGTGGAGATAAAGTGTCTAGGCACCATTATGGGCTCCTCACC
TGTGAGAGCTGCAAGGGATTTTTTAAGCGAACAGTCCAAAATAATAAAAGGTACACATGTATAGAAAACCAGAACTGCCA
AATTGACAAAACCCAGAGAAAACGTTGTCCTTACTGTCGATTTCAGAAACGTCTAAGTGTTGGAATGAAGCTAGAAGCGG
TAAGGGCTGACTGAATGCGTGGAGGAAGAAATAAGTTTGGGCCCATGTACAAGAGAGACAGAGCCCTGAAGCAACAGAAA
AAAGCCCTCATCCGAGTCAATGGACTTAAGCTAGAAGCCATGTCTCAGGTGATCCAAGCTATGCCCTCCGACCTGACCAT
CTCCTCGGCAATTCAGAACATCCATTCTGCCTCCAAAGGCCTACCTCTGAACCATGCTGCCTTGCCTCTTACAGACTATG
ACAGAAGTCCCTTTGTAACATCCCCTATTAGCATGACAATGCCCCCTCATGGCAGCCTGCAAGGTTACCAAACATATGGC
CACTTTCCTAGCTGGGCCATCAAGTCTGAGTACCCAGACCCCTACACCAGCTCGCCTGAGTCAATAATGGGCTATTCCTA
TATGGATAGTTACCAGACAAGCTCTCCAGCAAGCATCCCACATCTGATCCTGGAACTTTTGAAGTGTGAGCCAGATGAGC
CTCAAGTCCAGGCCAAAATCATGGCCTATTTGCAGCAAGAGCAGGCGAATCGAAGCAAGCACGAAAAGCTGAGCACATTT
GGGCTTATGTGCAAAATGGCAGATCAGACCCTCTTCTCCATTGTTGAGTGGGCCAGGAGTAGTATCTTCTTCAGAGAACT
TAAGGTTGATGACCAAATGAAGCTGCTTCAGAACTGCTGGAGTGAGCTCCTAATCCTCGACCACATTTACTGACAAGTGG
TACACGGAAAGGAAGGATCAATCTTCCTGGTTACTGGGCAACAAGTGGACTACTCTATCATAGCATCACAAGCTGGGGCC
ACCCTCAACAACCTCATGAGTCACGCACAGGAGTTAGTGGCAAAACTTCGTTCTCTCCAGTTTGATCAACGAGAGTTTGT
GTGTTTGAAATTCTTGGTGCTTTTTAGTTTAGATGTCAAAAACCTTGAGAACTTCCAGCTGGTAGAAGGTGTCCAGGAGC
AAGTCAACACCGCACTGTTGGACTACACAATGTGCAACTACCCACAGCAAACAGAGAAATTTGGGCAGCTACTTCTTCGA
TTACCCGAAATCCGGGCCATCAGCATGCAGGCTGAAGAATACCTCTACTACAAGCACCTGAATGGGGATGTGCCCTATAA
TAACCTTCTCATTGAAATGTTGCATGCAAAAAGAGCC

Alignment

ORF - retro_ogar_2546 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.07 %
• Parental protein coverage: 95.93 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AGLPDPHGPLIPARSHLVMLPKVETEALGLARSHGEQGQMPENMQVSQFKMVNYSYDEDLEELCPVCGDK
          AGLPDPH.PLIPARSHLVMLPKVETEALGLARSHGEQGQMPENMQVSQFKMVNYSYDEDLEELCPVCGDK
Retrocopy AGLPDPHRPLIPARSHLVMLPKVETEALGLARSHGEQGQMPENMQVSQFKMVNYSYDEDLEELCPVCGDK

Parental  VSGYHYGLLTCESCKGFFKRTVQNNKRYTCIENQNCQIDKTQRKRCPYCRFQKCLSVGMKLEAVRADRMR
          VS..HYGLLTCESCKGFFKRTVQNNKRYTCIENQNCQIDKTQRKRCPYCRFQK.LSVGMKLEAVRAD.MR
Retrocopy VSRHHYGLLTCESCKGFFKRTVQNNKRYTCIENQNCQIDKTQRKRCPYCRFQKRLSVGMKLEAVRAD*MR

Parental  GGRNKFGPMYKRDRALKQQKKALIRANGLKLEAMSQVIQAMPSDLTISSAIQNIHSASKGLPLNHAALPP
          GGRNKFGPMYKRDRALKQQKKALIR.NGLKLEAMSQVIQAMPSDLTISSAIQNIHSASKGLPLNHAALP.
Retrocopy GGRNKFGPMYKRDRALKQQKKALIRVNGLKLEAMSQVIQAMPSDLTISSAIQNIHSASKGLPLNHAALPL

Parental  TDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYMDSYQTSSPASIP
          TDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPS.AIKSEYPDPYTSSPESIMGYSYMDSYQTSSPASIP
Retrocopy TDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPSWAIKSEYPDPYTSSPESIMGYSYMDSYQTSSPASIP

Parental  HLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFRELKVD
          HLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFRELKVD
Retrocopy HLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFRELKVD

Parental  DQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQ
          DQMKLLQNCWSELLILDHIY.QVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQ
Retrocopy DQMKLLQNCWSELLILDHIY*QVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQ

Parental  FDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQ
          FDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVN.ALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQ
Retrocopy FDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNTALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQ

Parental  AEEYLYYKHLNGDVPYNNLLIEMLHAKRA
          AEEYLYYKHLNGDVPYNNLLIEMLHAKRA
Retrocopy AEEYLYYKHLNGDVPYNNLLIEMLHAKRA

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_2546 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
Mus musculus	ENSMUSG00000026398	1 retrocopy	retro_mmus_2208,
Oryctolagus cuniculus	ENSOCUG00000006240	1 retrocopy	retro_ocun_811,
Otolemur garnettii	ENSOGAG00000025622	1 retrocopy	retro_ogar_2546 ,