RetrogeneDB ID: retro_ogar_2766

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873662.1:1643888..1644491(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNB2
• Ensembl ID: ENSOGAG00000012885
• Aliases: None
• Description: cyclin B2 [Source:HGNC Symbol;Acc:1580]

Sequence

>retro_ogar_2766
TTGGATGGCTTCCTATAGGCTTGGCCAGTCTCACGTTTTTAAAAAGCTTCAAGTGGGATTACCACTGTGCTCCTGGCTTC
TAAGAATGAGGAGATATTTTCTCCAATTATTGAAGACTTCACTTCCATCACAGACAATTGCTTATACCATTTCCCAAATC
TGAGAAATGGAAACTCTAATATTGAAGGAACTGAAATTTGAGCTGGGTCAGCCCTTGCCAGCAGACTTTTTAGGGTGAGC
CCTGAAGGCCAGTAAGGGTGATGTCCAGCAGCATCTGTTAGCCAAGCATTTCACGGAGCTGACCCTCACTGATGACAATA
TGCTGTGCTGTCACCCTTCCAAGGCGGCAGCAGCTGCTTCTGGTGGGGCTCAGGAGCTTCTAGGTCAAGGAAAGTGGTAC
TTAGAGCAGCCATATTTCATGGGATATTCAGAAAATCAAGTCCTGGAAGTGATGCAGCACATGGCCAAATTTGTGGTGAA
CGTAAATTAAAACTTAACTAAATTCGTCACAGTCAAGAACAAGTATGGAAGCAGCAAACTCCTGAAGACCTGTGCCATCC
CTCAGCTGAATCAGAAGTCCTCAGAGACGTGGCCATCCCTCTG

Alignment

ORF - retro_ogar_2766 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.02 %
• Parental protein coverage: 50.5 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MDRFLQVQPVSRKKLQLVGITALLLASKYEEMFSPNIEDFVYITDN-AYTSSQIREMETLILKELKFELG
          .D.FL...PVSR......GIT..LLASK.EE.FSP.IEDF..ITDN.AYT.SQI.EMETLILKELKFELG
Retrocopy LDGFL*AWPVSRF*KASSGITTVLLASKNEEIFSPIIEDFTSITDN>AYTISQI*EMETLILKELKFELG

Parental  RPLPLHFLRRASKAGEVDVEQHTLAKYLMELTIVDYDMVHYHPSKVAAAASCLSQKVLGQGKWNLKQQYY
          .PLP..FL..A.KA...DV.QH.LAK...ELT..D..M...HPSK.AAAAS...Q..LGQGKW.L.Q.Y.
Retrocopy QPLPADFLG*ALKASKGDVQQHLLAKHFTELTLTDDNMLCCHPSKAAAAASGGAQELLGQGKWYLEQPYF

Parental  TGYTENEVLEVMQHMAKNVVKVNENLTKFTAVKNKYASSKLLKISTIPQLN-SKVIKDLAAVL
          .GY.EN.VLEVMQHMAK.VV.VN.NLTKF..VKNKY.SSKLLK...IPQLN.S.V..D.A..L
Retrocopy MGYSENQVLEVMQHMAKFVVNVN*NLTKFVTVKNKYGSSKLLKTCAIPQLN<SEVLRDVAIPL

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_2766 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005269	1 retrocopy	retro_btau_1584,
Homo sapiens	ENSG00000157456	1 retrocopy	retro_hsap_3816,
Nomascus leucogenys	ENSNLEG00000011543	1 retrocopy	retro_nleu_212,
Otolemur garnettii	ENSOGAG00000005208	1 retrocopy	retro_ogar_977,
Otolemur garnettii	ENSOGAG00000006217	2 retrocopies	retro_ogar_3309, retro_ogar_930,
Otolemur garnettii	ENSOGAG00000012885	2 retrocopies	retro_ogar_1770, retro_ogar_2766 ,
Otolemur garnettii	ENSOGAG00000034667	1 retrocopy	retro_ogar_1793,
Pongo abelii	ENSPPYG00000006517	2 retrocopies	retro_pabe_3073, retro_pabe_3074,
Pan troglodytes	ENSPTRG00000007123	1 retrocopy	retro_ptro_2597,
Ictidomys tridecemlineatus	ENSSTOG00000001275	1 retrocopy	retro_itri_229,
Tarsius syrichta	ENSTSYG00000013818	1 retrocopy	retro_tsyr_1402,