RetrogeneDB ID: retro_ogar_704

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873526.1:16515021..16516298(+)
• Located in intron of: ENSOGAG00000004847

Retrocopy information

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

Parental gene information

• Parental gene symbol: RCBTB2
• Ensembl ID: ENSOGAG00000007469
• Aliases: None
• Description: regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2 [Source:HGNC Symbol;Acc:1914]

Sequence

>retro_ogar_704
AACAATCAGCCAATACAGGCTACTCTGTCATCTTTGAAGATGTTAGATGTGGGCAAGTGACCAATTTTTTCCCTTTGTTC
TGAGGAAGAACTGCAGTTAATCCGTCAGGCTTGTGTCTTTGGCAGTGCTGGCAATGAAGTTTTATATACTACAGTAAATG
ATGAGATTTTTATGCTTGGCACAAACTGCTGTGGCTGTTTGGGGTTAGGTGACATCCAGAGCGCCATTGAACCTCGGAAA
TTGGATTCTTTAAGTGACAAAAAGATAGCCTGCCTCAGCTATGGGAATGGCCCACATGTTGTCCTTGCAACAACAGAAGG
AGGTCTTTACCTGGGGTCATAATGCTTATAGGCAGCTGGGCAATGAGACAGCTAATCATGGTTTAGTACCCTGTCATAGC
TCTACTAATTTGTCAAACAAACAAGTCATTGCCTGTGGGTCTTACCATTCTTTGGTGCTAACATCTGATGGAGAGGTATT
TGCCTGGGGTTATATAACTCTGGACAGGTGGGATCTTGATCAACAGCTAATCAGCCAATCCTCCACGAGTCACTGGCTGC
TTACAGAATAAAGTCACAGTGACCATAGCATCTGGGCAAATGTGCTCCATGGTAGTAGCAGACACTGGGGAGGTATTTGT
CTGGGGTTATAATGGAAATGGGCAGCTTGGCCTTGGCAGTAGTGGCAACCGCCAACCCCCTGCAGAATAGCAGCATTGCA
AGGCATCCATGTCCAGAGGGTTGCCTTTGGCTACACGCATACATTAGTATTAACAGATGAAGGTCAAGGTCAAGTGTATG
CTTGGGGCACCAATTCTAATGGCCAACTGGGTACTGGCAATAAAAGCAACCAGTCCTATCCAACCCCTATCGCTGTGGAA
AAGGACAGGATTATAGAGATCGCAGCCTGTCGTTCTGCCCACACATCTGCTGCCAAGACCCAGGGTGGGCATGTGTATAT
GTGGGGCCCAGTGCCAGGGCCAGTCAGTGGTCCTCCCTTACCTCACTAACTTCTCCTGCACTGATGGTGTGTTCACCTGC
TTTGCCACTCCTGCGGTCACGTGGTGCATCTTCTCCGTGGAACCCGATGACCACCTCACTGTGGCTGAGTCACTGAAGAG
GGAATTTGACAACCCGGACACTGTAGACCTGACATTTCTGGTTGATGGAAACTATATTTATGCACATAAAGTCCTTCTCA
AAATTAGATGCGAACATTTTCATTCTTCACTGGAAGATAAGGAGGATGATATTGTAGAAGTGAGTGAATTTTCATAT

Alignment

ORF - retro_ogar_704 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.64 %
• Parental protein coverage: 77.5 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SGKPIRATLSSLKMLDVGKWPMFSLCSEEELQLIRQACVFGSAGNEVLYTTVNDEIFVLGTNCCGCLGLG
          ...PI.ATLSSLKMLDVGK.P.FSLCSEEELQLIRQACVFGSAGNEVLYTTVNDEIF.LGTNCCGCLGLG
Retrocopy NNQPIQATLSSLKMLDVGK*PIFSLCSEEELQLIRQACVFGSAGNEVLYTTVNDEIFMLGTNCCGCLGLG

Parental  DIQSTIEPRKLDSLSGKKIACLSYGSGPHVVLATT-EGEVFTWGHNAYSQLGNGTTNHGLVPCHISTNLS
          DIQS.IEPRKLDSLS.KKIACLSYG.GPH.V...T...EVFTWGHNAY.QLGN.T.NHGLVPCH.STNLS
Retrocopy DIQSAIEPRKLDSLSDKKIACLSYGNGPH-VVLAT>QKEVFTWGHNAYRQLGNETANHGLVPCHSSTNLS

Parental  NKQVIEVACGSYHSLVLTSDGEVFAWGY-NNSGQVGSGSTANQPI-PRRVTGCLQNKVIVTIACGQMCSM
          NKQVI..ACGSYHSLVLTSDGEVFAWGY..NSGQVGS.STANQPI.P.RVTGCLQNKV.VTIA.GQMCSM
Retrocopy NKQVI--ACGSYHSLVLTSDGEVFAWGY<YNSGQVGS*STANQPI<PPRVTGCLQNKVTVTIASGQMCSM

Parental  AVVDTGEVFVWGYNGNGQLGLGSSGNQ-PTPCRIAALQGIRVQRVACGYAHTLVLTDEGQ--VYAWGANS
          .V.DTGEVFVWGYNGNGQLGLGSSGN..PTPCRIAALQGI.VQRVA.GY.HTLVLTDEGQ..VYAWG.NS
Retrocopy VVADTGEVFVWGYNGNGQLGLGSSGNR<PTPCRIAALQGIHVQRVAFGYTHTLVLTDEGQGQVYAWGTNS

Parental  YGQLGTGNKSNQSYPTPVVVEKDRVIEIAACHSAHTSAAKTQGGHVYMWG-QCRGQSVVLPYLTHFSCTD
          .GQLGTGNKSNQSYPTP..VEKDR.IEIAAC.SAHTSAAKTQGGHVYMWG.QC.GQSVVLPYLT.FSCTD
Retrocopy NGQLGTGNKSNQSYPTPIAVEKDRIIEIAACRSAHTSAAKTQGGHVYMWG>QCQGQSVVLPYLTNFSCTD

Parental  DVFACFATPAVTWRLLSVEPDDHLTVAESLKREFDNPDTADLTFLVDGNYIYAHKVLLKIRCEHFRSSLE
          .VF.CFATPAVTW...SVEPDDHLTVAESLKREFDNPDT.DLTFLVDGNYIYAHKVLLKIRCEHF.SSLE
Retrocopy GVFTCFATPAVTWCIFSVEPDDHLTVAESLKREFDNPDTVDLTFLVDGNYIYAHKVLLKIRCEHFHSSLE

Parental  ENQDDIVEVSEFSY
          ...DDIVEVSEFSY
Retrocopy DKEDDIVEVSEFSY

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_704 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
Otolemur garnettii	ENSOGAG00000007469	1 retrocopy	retro_ogar_704 ,
Otolemur garnettii	ENSOGAG00000014544	1 retrocopy	retro_ogar_2967,
Tarsius syrichta	ENSTSYG00000007199	1 retrocopy	retro_tsyr_30,