RetrogeneDB ID: retro_ogar_953

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873531.1:32228659..32229802(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000010377
• Aliases: None
• Description: None

Sequence

>retro_ogar_953
ATGTCAGAACACCAGAGATATTTTCCCAATTGTCCATTTTTGGAAAATTCTCTAGAAACTCTGAGGTTTAGCATTTCAAA
TCTGAGCATGCAGATATATGCAGCTCAAATGAGAACAGTTATGTATTGACCATCTAGTGTTCCAGTTTGGCCTGAGAAGC
TTGCAAGTGCTGGTTTTTATTATGTGGGTTGCAATGATGACGTCAAATGCTTTTGTTGTGATGGTGGCTTGAAGTGTTGG
GGATTTGGAGATGATCCATGGGTAGAACATGCCAAGTGGTTTCCAAGGTATGAGTTCTTGATACACACGAAAGGGCAAGG
GTTTGTTGATGAGATTCAAGGTCAATATCCTTATCTTCTTGAACAGCTACTGTCAACTTCAGATACTCCTAGAGATAAAA
ATGCTGATCCGCCAATTGTTCATTTTAGATCTGGAGAAAGTGCTTCAGAAGATGCAGTCATGATGAATATACCTGTGCTG
AAATCTGCCTTGGAAATGGGCTTTAGTAGAAGCCTGGTAAGACAGACAGTTCAGAGCAAAATCCTAACTACTGGAGAGAA
CTGCAAAATAGTCAATGATATTGTATCAGCTCTTCGGAAAGCTGAAGATGAAAAAAGAGAAGAGGAAAAGGAAAGATAAG
CTGAAGAAATGGCATCAGATGACTTGTCATTAATTCGGAAGAATAGAACGGCTCTCTTTCAGGGGTTGACGTGTGTGCTT
CCTATCCTGGATAATCTTTTAAAGGCCAATGTAATTAACAAACAGGAACATGATATTATTAAACAAAACACACAGATGTC
TTTACAAGCAAGAGAACTGATTGATACCATTTTAGTGAAAGGAAATGCTGCAGCCAACATCTTCAAAAACTGTCTAAAAG
AAATTGATTCTACGTTATATATGGACTTATTTGTGGATAAGAATATGAGGTATATTCCAACAGAAGATGTTTCAGGTCTG
TCACTAGAATAGTTGAGGACGTTACGAGAAGAAAGAACTTGTAAAGTGTGTGTGGACACAGAGGTTTCCACTGTATTTAT
TCCTGGTGGTCACCTGGTAGTGTGCCAGGAATGTGCCCCTTCTCTAAGAAAGTGCCCCATTGGCAGGGGTATAATCAAGG
GTACTGTTCGTACATTTCTCTCA

Alignment

ORF - retro_ogar_953 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.01 %
• Parental protein coverage: 61.81 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSEHRRHFPNCPFLENSLETLRFSISNLSMQTYAARMRTFMYWPSSVPVRPEQLASAGFYYVGRNDDVKC
          MSEH.R.FPNCPFLENSLETLRFSISNLSMQ.YAA.MRT.MY.PSSVPV.PE.LASAGFYYVG.NDDVKC
Retrocopy MSEHQRYFPNCPFLENSLETLRFSISNLSMQIYAAQMRTVMY*PSSVPVWPEKLASAGFYYVGCNDDVKC

Parental  FCCDGGLRCWEFGDDPWVEHAKWFPRCEFLIRMKGQGFVDEIQGRYPHLLEQLLSTSDTPGDENADPPIV
          FCCDGGL.CW.FGDDPWVEHAKWFPR.EFLI..KGQGFVDEIQG.YP.LLEQLLSTSDTP.D.NADPPIV
Retrocopy FCCDGGLKCWGFGDDPWVEHAKWFPRYEFLIHTKGQGFVDEIQGQYPYLLEQLLSTSDTPRDKNADPPIV

Parental  HFGSGESASEDAVMMNTPVVKSALEMGFSRSLVRQTVQSKILTTGENYKTVNDIVSALLNAEDEKREEEK
          HF.SGESASEDAVMMN.PV.KSALEMGFSRSLVRQTVQSKILTTGEN.K.VNDIVSAL..AEDEKREEEK
Retrocopy HFRSGESASEDAVMMNIPVLKSALEMGFSRSLVRQTVQSKILTTGENCKIVNDIVSALRKAEDEKREEEK

Parental  ERQAEEMASDDLSLIRKNRMALFQRLTCVLPILDNLLKANVINKQEHDIIKQKTQIPLQARELIDTILVK
          ER.AEEMASDDLSLIRKNR.ALFQ.LTCVLPILDNLLKANVINKQEHDIIKQ.TQ..LQARELIDTILVK
Retrocopy ER*AEEMASDDLSLIRKNRTALFQGLTCVLPILDNLLKANVINKQEHDIIKQNTQMSLQARELIDTILVK

Parental  GNAAANIFKNCLKEIDSTLYKDLFVDKNMKYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSIVFIPC
          GNAAANIFKNCLKEIDSTLY.DLFVDKNM.YIPTEDVSGLSL.E.LR.L.EERTCKVC.D.EVS.VFIP.
Retrocopy GNAAANIFKNCLKEIDSTLYMDLFVDKNMRYIPTEDVSGLSL-E*LRTLREERTCKVCVDTEVSTVFIPG

Parental  GHLVVCQECAPSLRKCPICRGIIKGTVRTFLS
          GHLVVCQECAPSLRKCPI.RGIIKGTVRTFLS
Retrocopy GHLVVCQECAPSLRKCPIGRGIIKGTVRTFLS

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_953 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000035735	1 retrocopy	retro_btau_1262,
Monodelphis domestica	ENSMODG00000000608	3 retrocopies	retro_mdom_1857, retro_mdom_585, retro_mdom_683,
Otolemur garnettii	ENSOGAG00000010377	2 retrocopies	retro_ogar_2542, retro_ogar_953 ,
Otolemur garnettii	ENSOGAG00000025670	1 retrocopy	retro_ogar_2859,
Otolemur garnettii	ENSOGAG00000030385	1 retrocopy	retro_ogar_3331,