RetrogeneDB ID: retro_ogar_1393

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873545.1:11950809..11951902(+)
• Located in intron of: ENSOGAG00000014881

Retrocopy information

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

Parental gene information

• Parental gene symbol: CTBP2
• Ensembl ID: ENSOGAG00000024152
• Aliases: None
• Description: C-terminal binding protein 2 [Source:HGNC Symbol;Acc:2495]

Sequence

>retro_ogar_1393
ATGGCCCTTGTGGATAATCACAAAGTCAAGAGACAGCACTTGGACAGCATTTGCGAAGGTAGCTGCCTCCAGATCATGCA
CGGCCCCCTGTACCCCCGTCCCCTGTTGGTGCTGCTGGACGGCCACGACTGCACAGTGGAGACGTCAATCCTGAAGGACA
TGGCCACCGTGGCCTTCTGTGATGCCCAGTCTACTCAGGAGAGCCACAAGAAGGTGTTAAATGAGGCTGTGGGCACCATG
ATGTACCACATCATCACCCTCACCAGGGTGGACCTGGAGAAGTTCAAGGCCCTGCAAGTGATCGTGCGGATAGGCAGTGG
CTATGACAACATGGACATCAAGGGTGCCGGTGAACTCAGGATCCCTGTGTGCAACATCCTGTCTGTAGCAGTGGAAGAGA
CAGCCAATTCCACCATCTGCCACATTCTCAACCTATACTGGAGAAACACGGGGCTGTACCAGGTACTGCGGGAGGGTATG
CAGGTATGGAGTGTAGAGCAGATCTGAGAGGTGGCCTTGGGAGCAGCACGCATCCGCGGGGAGACACTGGGCCTCATTGG
CTTTGGTCGTACTGGGCAAGTGGTGGCTGTTTGAGCCAAGGCCTTTGGATTCAGCGTCATATTTTATGACCCCTACTTGC
AAGATGGGATAGAGCAGTCCTGGGCACGCAGAGGGTCTACACTCTACAGGACTTGCTGTATGAGAGCGACTGTGTCTCCT
TGCACTGCAATCTCAATGAATATAACCACCACCTCATCAATGACTTTACCATAAAGCAAATGAGGCAAGGAGCATTCCTT
GTGAACGTGCCCGTGGTGGCCTGCTGGATGAGAAAGCCTTAGCTCAGGCCCTCAAGGAGGGCAGGATACGAGGGGTGGCC
CTGGACATGCGTGAATTGGAGCCCCTTTAGCTTTGCTCAGGGTCCATTGAAGGATGCATCAAACCTCATCTGTACTCCCC
ACATGGCCTGGTAGTGAGCAGGCCTCAGTTGGAGATCAGGGAGGCTGCTGCCATGGAGATCCAGCGGGCAATCATAGGTC
GCACCCCAGAAAGCTTACGAAACTATGTAAACAAGAAATTCGTTGTCAGCTCC

Alignment

ORF - retro_ogar_1393 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.57 %
• Parental protein coverage: 82.02 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MALVDKHKVKRQRLDRICEGIRPQIMNGPLHPRPLVALLDGRDCTVEMPILKDLATVAFCDAQSTQEIHE
          MALVD.HKVKRQ.LD.ICEG...QIM.GPL.PRPL..LLDG.DCTVE..ILKD.ATVAFCDAQSTQE.H.
Retrocopy MALVDNHKVKRQHLDSICEGSCLQIMHGPLYPRPLLVLLDGHDCTVETSILKDMATVAFCDAQSTQESHK

Parental  KVLNEAVGAMMYHTITLTREDLEKFKALRVIVRIGSGYDNVDIKAAGELGIAVCNIPSAAVEETADSTIC
          KVLNEAVG.MMYH.ITLTR.DLEKFKAL.VIVRIGSGYDN.DIK.AGEL.I.VCNI.S.AVEETA.STIC
Retrocopy KVLNEAVGTMMYHIITLTRVDLEKFKALQVIVRIGSGYDNMDIKGAGELRIPVCNILSVAVEETANSTIC

Parental  HILNLYRRNTWLYQALREGTRVQSVEQIREVASGAARIRGETLGLIGFGRTGQAVAVRAKAFGFSVIFYD
          HILNLY.RNT.LYQ.LREG..V.SVEQI.EVA.GAARIRGETLGLIGFGRTGQ.VAV.AKAFGFSVIFYD
Retrocopy HILNLYWRNTGLYQVLREGMQVWSVEQI*EVALGAARIRGETLGLIGFGRTGQVVAV*AKAFGFSVIFYD

Parental  PYLQDGIERS-LGVQRVYTLQDLLYQSDCVSLHCNLNEHNHHLINDFTIKQMRQGAFLVNA-ARGGLVDE
          PYLQDGIE.S.LG.QRVYTLQDLLY.SDCVSLHCNLNE.NHHLINDFTIKQMRQGAFLVN..ARGGL.DE
Retrocopy PYLQDGIEQS<LGTQRVYTLQDLLYESDCVSLHCNLNEYNHHLINDFTIKQMRQGAFLVNV<ARGGLLDE

Parental  KALAQALKEGRIRGAALDVHESE-PFSFAQGPLKDAPNLICTPHTAW-YSEQASLEMREAAATEIRRAIT
          KALAQALKEGRIRG.ALD..E.E.PFSFAQGPLKDA.NLICTPH.AW.......LE.REAAA.EI.RAI.
Retrocopy KALAQALKEGRIRGVALDMRELE>PFSFAQGPLKDASNLICTPHMAW<VVSRPQLEIREAAAMEIQRAII

Parental  GRIPESLRNCVNKEFFVTS
          GR.PESLRN.VNK.F.V.S
Retrocopy GRTPESLRNYVNKKFVVSS

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_1393 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012775	1 retrocopy	retro_cfam_1868,
Callithrix jacchus	ENSCJAG00000012539	2 retrocopies	retro_cjac_1866, retro_cjac_2528,
Cavia porcellus	ENSCPOG00000008397	1 retrocopy	retro_cpor_1525,
Oryctolagus cuniculus	ENSOCUG00000007076	1 retrocopy	retro_ocun_378,
Otolemur garnettii	ENSOGAG00000024152	2 retrocopies	retro_ogar_1393 , retro_ogar_45,