RetrogeneDB ID: retro_ogar_258

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873582.1:10032125..10033544(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034535
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NRF1
• Ensembl ID: ENSOGAG00000012755
• Aliases: None
• Description: nuclear respiratory factor 1 [Source:HGNC Symbol;Acc:7996]

Sequence

>retro_ogar_258
ATCCGGGAACACGGAGTGACACAAACTGAACACATGGCTACCATAGACGCCCATGCAGTGGCCCAACAAGAACAGCAGGT
CCACGTGGCCACTTACACCCAGCACAGTATCCTGAGTGCTGATGAAGACTCACCGTCTTCCCCCGAGGGCGCCTCTGATG
ATGATTCAGATAACCTCAACTCCACAGCAGCTGATGAAGTGACGGCTCATCTGGCTGCCGCAGGTCCTGTGGGAATGGCT
GCTGCTGCTGCTGTGGCAACAGGAAAGAAACGGAAACGGCCTCATGTGTTTGAGTCTAATCCTTCTATCCGGAAAAGGCA
GCAAACGCGTTTGCTTCGGAAACTTCGCGCCACATTAGATGAATATACCACTCGAGTTGGACAGCAAGCTATTGTCCTCT
GTATCTCACCCTCTAAACCCGACCCTGTCTTTAAAGTGTTTGGTGCAGCACCTTTGGAGAATGTGGTGGGTAAGTACAAG
AGTATGATTTTGGAAGACCTGGACTGTGCTCTGGCAAAACACGCCCCTGCGCCACAGGAGGTTAACTCAGAACTGCCACC
TCTTACCATCGATGGGATTCCAGTCTCAGTGGACAAGATGACCCAGGCCCAGCTGCGGGCATTTATCCCAGAGATGCTCA
AGTACTCCACAGGTCGGGGGAAACCAGGCTGGGGGAAAGAAAGTTGCAAGCCTGTTTGGTGGCCTGAAGATATCCCGTGG
GCAAATGTCCGGAGTGATGTTCGCACAGAAGAGCAAAAGCAGAGAGTTCCATGGACCCAGGCACTACGGACCATAGTTAA
AAACTGTTATAAACAGCATGGGCGAGAAGATCTTTTGTATTCTTTCGAAGATCAGCAAACACAGGCCACAACTACACACA
GTATAGCCCATCTTGTACCATCACATACTGTAGTGCAGACCTTTAGTAACCCTGATGGCACTGTCTCACTTATCCAGGTT
GGTACAGGTGCGACAGTAGCCACATTGGCTGATGCTTCACAATTACCAACCACAGTCACTGTTGCCCAAGAGAATTCTGC
TGTGGCTGACAGAGAGGTGGAACAAAATTGGGCTATGTTACAGGGAGGTGAGATGACCATCCAGACAACGCAAGCATCAG
AGGTCACCCAGACAGTGGCATCATTGGCAGAGACCACAGTGGCAGCTTCTCAGGAGATGCAACAGGGAGCTACAGTCACC
ATGGCACTTAACAGCAAAGCTGCTGACCATGCTGTCACCACCCTGGCTGAAACCACCTTACAAGGTAGGGGACAGATCAT
CTGGTCTGGGGAAACCACAGCAGCCATTGGAGCACTTACTGGAGTCCAAGATGCTAATAGCCTGGTCCAGATCCCTTCAA
GCATGTACCAGACTATGGTAACCAGCCTCACCCAGGGCAATGGGCCAGTGCATATGGCA

Alignment

ORF - retro_ogar_258 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.34 %
• Parental protein coverage: 94.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEEHGVAQTEHMATIEAHAVAQQVQQVHVATYTEHSMLSADEDSPSSPEDTSYDDSDILNSTAADEVTAH
          ..EHGV.QTEHMATI.AHAVAQQ.QQVHVATYT.HS.LSADEDSPSSPE..S.DDSD.LNSTAADEVTAH
Retrocopy IREHGVTQTEHMATIDAHAVAQQEQQVHVATYTQHSILSADEDSPSSPEGASDDDSDNLNSTAADEVTAH

Parental  LAAAGPVGMAAAAAVATGKKRKRPHVFESNPSIRKRQQTRLLRKLRATLDEYTTRVGQQAIVLCISPSKP
          LAAAGPVGMAAAAAVATGKKRKRPHVFESNPSIRKRQQTRLLRKLRATLDEYTTRVGQQAIVLCISPSKP
Retrocopy LAAAGPVGMAAAAAVATGKKRKRPHVFESNPSIRKRQQTRLLRKLRATLDEYTTRVGQQAIVLCISPSKP

Parental  NPVFKVFGAAPLENVVRKYKSMILEDLESALAEHAPAPQEVNSELPPLTIDGIPVSVDKMTQAQLRAFIP
          .PVFKVFGAAPLENVV.KYKSMILEDL..ALA.HAPAPQEVNSELPPLTIDGIPVSVDKMTQAQLRAFIP
Retrocopy DPVFKVFGAAPLENVVGKYKSMILEDLDCALAKHAPAPQEVNSELPPLTIDGIPVSVDKMTQAQLRAFIP

Parental  EMLKYSTGRGKPGWGKESCKPIWWPEDIPWANVRSDVRTEEQKQRVSWTQALRTIVKNCYKQHGREDLLY
          EMLKYSTGRGKPGWGKESCKP.WWPEDIPWANVRSDVRTEEQKQRV.WTQALRTIVKNCYKQHGREDLLY
Retrocopy EMLKYSTGRGKPGWGKESCKPVWWPEDIPWANVRSDVRTEEQKQRVPWTQALRTIVKNCYKQHGREDLLY

Parental  AFEDQQTQTQATTTHSIAHLVPSQTVVQTFSNPDGTVSLIQVGTGATVATLADASELPTTVTVAQVNYSA
          .FEDQ..QTQATTTHSIAHLVPS.TVVQTFSNPDGTVSLIQVGTGATVATLADAS.LPTTVTVAQ.N.SA
Retrocopy SFEDQ--QTQATTTHSIAHLVPSHTVVQTFSNPDGTVSLIQVGTGATVATLADASQLPTTVTVAQEN-SA

Parental  VADGEVEQNWATLQGGEMTIQTTQASEATQAVASLAEAAVAASQEMQQGATVTMALNSEAAAHAVATLAE
          VAD.EVEQNWA.LQGGEMTIQTTQASE.TQ.VASLAE..VAASQEMQQGATVTMALNS.AA.HAV.TLAE
Retrocopy VADREVEQNWAMLQGGEMTIQTTQASEVTQTVASLAETTVAASQEMQQGATVTMALNSKAADHAVTTLAE

Parental  ATLQGGGQIVLSGETAAAVGALTGVQDANGLVQIPVSMYQTVVTSLAQGNGPVQVA
          .TLQG.GQI..SGET.AA.GALTGVQDAN.LVQIP.SMYQT.VTSL.QGNGPV..A
Retrocopy TTLQGRGQIIWSGETTAAIGALTGVQDANSLVQIPSSMYQTMVTSLTQGNGPVHMA

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_258 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000012755	2 retrocopies	retro_ogar_258 , retro_ogar_2952,