RetrogeneDB ID: retro_ogar_2124

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873592.1:7672068..7673561(-)
• Located in intron of: ENSOGAG00000013910

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000005389
• Aliases: None
• Description: None

Sequence

>retro_ogar_2124
ACAGAGCCAGGCAGAGTACCAAGATGTGAAAGTAAGGATGAAGTGGTAAATATTCCCCTGGCTAAGAAGCATATATATAA
GTTTTTGACCCACAAGCAGCTGAGCCCGGAAGACTCTAGTTACCTACTTAAAAGTGTTTTGGATCATCAAAACAATGAAG
GAGCTTCCAGTGACTGGAAAAAGGATTCCTTTCCAAAGGTCCCTGATATTCCCTTCCATGATACCCCAGAGAGGAGTACA
TCAGATAACAAGGACCCCTATCTTAGATAAACTATGCTATCAACTTCCAATCTACCAGTCTACCTGTCCCGTCCAGAGCA
ACAGCTTGATAGTAGCCAAAACAAATTCTGACACCCTTCCATCTCAGAAGAAAACCAAGCATAGTCAGAAGGTCCAGAGA
AGAGGTTCACAGAGATGCTGGCAGGAGGAACAAGAAGGCCAGAAGGAAAGCACCCTGAGATGAGAAAGAAAGGAGAAAGC
ATCACTGGTTAACAGACTGAAATCCCAGAGACCAGAGGAATGCTTAAAACACATCATCGTGGTGCTGGATCCAGTGCTTT
TACAGATGGAAGGTAGGGGCCAGCTCCTCAGAGCTTTACAGTCCATGGAATGCTGTTGTGTGCTTGAGGCACAGGTCGTG
CCTTGCAGTATCACTTGGAGGAGAAGGACTGGGCCATCTGAGGATGGAGAGGACCCGGTGGAGGAACAAACAATCCTGGT
GTTGCTTCTGGCAGAGGTGTTTCTATCCATGATCTACAACTTGAAACAGGGAAATCTGGGCAACACTAAAAAGGGGAAGG
AAACATTTTGGGTCTTTGTAACTGATATCACAGCAAAGACAGCAGGGAAAGCTCTGTTACTGGTGATTGTGGACCTGGAG
AAATGCTTCAGTCCTCAGAATCCCTCAAGGAGAAACAGGGAGTAGCAAATAAACAGGCCAAGGAGAAGCAGCAGCTGAGA
CAACCAAAGGCCAATGTGGGGTCCACAGTGTCCAGGGTCGACTTGGAAGAGGCACTGGTGGGATCTGCAGCTACACACAG
AAACCCAGGTTAAAACTGTACAGAGCTGGAAAGAACTAGCTGACTTCGCATGCTCATTCACCAAGGCTGTGGCTGAGGCA
CCCTTTAAGAAGCTCCGAGATGAAACTAGCTTCTCCTTCTGTGTAGAGAGTGACTGGGCTGGAGGGGTAAAGGTGGAGTG
TTCTGGCAGGGGACTCACCACTGGTCTAGAGAAGACAGATGCAGCAGCTGAACTGAGTCAGCTTGGAGATGGCCAGTGCC
ATTGTGGATGTCTACCCTTCCCTGCAACTCCTGGTACAGGCTTATCAGCAGTGTCTTTCAGAGCAAGAGTGCCAGAATTT
GCTTGCAAACATACAAGTGTGCCGTGGGGAAGGTGTGACATCTACCTCTCGCCATGTTGGACCAGAACTGTCCAGACATA
TCTACCTTCAAATGACCACTATACAACCATATCTCTGTTTAGACAGTGATGAT

Alignment

ORF - retro_ogar_2124 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.25 %
• Parental protein coverage: 86.74 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  TEPGTVLSSESKDEVVYIPLAERLTYKFLTHKQLSPEDSNYLLKSVSDHQNNEGASSDWKNHSFPKVPDI
          TEPG.V...ESKDEVV.IPLA....YKFLTHKQLSPEDS.YLLKSV.DHQNNEGASSDWK..SFPKVPDI
Retrocopy TEPGRVPRCESKDEVVNIPLAKKHIYKFLTHKQLSPEDSSYLLKSVLDHQNNEGASSDWKKDSFPKVPDI

Parental  PFHDTPERSTSDNKDP-ILDKPCHQFPVYQSTCPVQSNSLIVAKTNSDTLQSQKKTKHSQRVQRRGLQRC
          PFHDTPERSTSDNKDP.ILDK.C.Q.P.YQSTCPVQSNSLIVAKTNSDTL.SQKKTKHSQ.VQRRG.QRC
Retrocopy PFHDTPERSTSDNKDP>ILDKLCYQLPIYQSTCPVQSNSLIVAKTNSDTLPSQKKTKHSQKVQRRGSQRC

Parental  RQQEQASQKESTLRRERKEKASLVNRLKSQRPEECLKHIIVVLDPVLLQMEGGGQLLGALQSMGCCCVIE
          .Q.EQ..QKESTLR.ERKEKASLVNRLKSQRPEECLKHIIVVLDPVLLQMEG.GQLL.ALQSM.CCCV.E
Retrocopy WQEEQEGQKESTLR*ERKEKASLVNRLKSQRPEECLKHIIVVLDPVLLQMEGRGQLLRALQSMECCCVLE

Parental  TQVVPCSITWRR-TGPSEDGEETVEEQMVLVLLLAEVFVSMIYNLKQGNLGNTEKRKETLRGFVTDVTAK
          .QVVPCSITWRR.TGPSEDGE..VEEQ..LVLLLAEVF.SMIYNLKQGNLGNT.K.KET...FVTD.TAK
Retrocopy AQVVPCSITWRRRTGPSEDGEDPVEEQTILVLLLAEVFLSMIYNLKQGNLGNTKKGKETFWVFVTDITAK

Parental  TAGKALSLVIVDLEKCFSPQNPPRRK-KQGVANKQAKEKQQLRQPKASVGSVVSRVDMEEALV-DLQLHT
          TAGKAL.LVIVDLEKCFSPQN.P.R..KQGVANKQAKEKQQLRQPKA.VGS.VSRVD.EEALV.DLQLHT
Retrocopy TAGKALLLVIVDLEKCFSPQN-PSRR<KQGVANKQAKEKQQLRQPKANVGSTVSRVDLEEALV>DLQLHT

Parental  EAQVKIVQSWKELADFTCSFTKAVAEAPFKKLRDETSFSFCVESDWAGGVKVDRSGRGLA-LVWRRQIQQ
          E.QVK.VQSWKELADF.CSFTKAVAEAPFKKLRDETSFSFCVESDWAGGVKV..SGRGL..LV.RRQ.QQ
Retrocopy ETQVKTVQSWKELADFACSFTKAVAEAPFKKLRDETSFSFCVESDWAGGVKVECSGRGLT>LV*RRQMQQ

Parental  LNRVSLEMASAIVDVYPSPQLLVQAYQRCLSEQECQNLLANIQVRRGEGVTSTSRRVGPELSRRIYLQMT
          LN.VSLEMASAIVDVYPS.QLLVQAYQ.CLSEQECQNLLANIQV.RGEGVTSTSR.VGPELSR.IYLQMT
Retrocopy LN*VSLEMASAIVDVYPSLQLLVQAYQQCLSEQECQNLLANIQVCRGEGVTSTSRHVGPELSRHIYLQMT

Parental  TIQPDLCLDSGD
          TIQP.LCLDS.D
Retrocopy TIQPYLCLDSDD

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_2124 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	ENSOGAG00000005389	1 retrocopy	retro_ogar_2124 ,