RetrogeneDB ID: retro_ogar_2113

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873591.1:9882648..9884092(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000029469
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000011349
• Aliases: None
• Description: None

Sequence

>retro_ogar_2113
CATGTACAGGGCAGTGAGGCCAACCATGAACAACAGATTTTATTAGATGAGGATCAGGCCCTGGAGGAATGGTTATCATC
AGAGACATTGGCCCTGCCCCTACCTCGCTGGCAAGTTGTTACTGCTCTTCGGGAGCGGCAGCTGGGTTCAAGCTCCCGCT
TTGTATATGAGGCCTGTGGGGCAAGAGCTTTTGTGCAGCGTTTCCACCTGCAGCATGGTCTTGAAGGTCATGTGGGTTGT
GTGAATACTGTGCACTTTAACCAGCGTGGCACCTGGCTAGTCAGTAGCAGTGATGATCTGAGGGTGATAATGTGGGACTG
GGTGTGCCAGTGGCCAATATTGGACTTTGAGAGTGGACACAGAAATAATGTCTTGCATGCAAAGTTCCTTCCAAACAGTG
GTGATTCCACCCTAGCCATGTGTGCCCGTGATGGACAAGTACGAGTAGCAGAACTATCTGCTGTCCCATACTGCAGGAAT
ACTAAGCGTGTAGCCCAGCATAGGGGAGCCTCCCACAAATTGGCTCTAGAGCCAGACTCCCCTTTTAAGTTCTTAACATC
AGGTGAAGATGCAGTTGTCTTTACCATTGACCTCAGACAAGGCAAGCCAGCTTCAAAAGTGGTGGTAACGAAAGAGAAGG
AGAAGAAAGTGGGACTGTATGCAATCTATATGAATCCTGCCAATACCTATCAATTTGCAGTGGGTGGACGAGATCAGTTT
GTAAGAATTTATGACCAGAGGAAAATTAATGAGAGTGAGAATAATGGAGTCTTCAAGAAATTCTGTCCTCATCACCTGAT
TGACTGTGACTCCAAAGCAATCACTTGTGTTGTGTACAGCCATGATGGCACAGAGCTTCTGGCCAGCTATAATGATGATG
ATATTTACCTCTTCAATTCCTCTCATGATGATGGTGCTCAATATATTAAGAGATACAAGGGGCATAGAAATAATGCCACA
GTCAAAGGTGTCAATTTCTATGGCCCTAGGAGTGAGTTTATAATGAGCGGTAGTGATTGTGGGCACATTTTTCTCTGGGA
AAAAATCATCCTCTCAGGTCATTCAGTTCCTGGAGGGGGACAAGGGAGGTGCAGTAACCTGTCTTGAACCTCACCCTTAC
CTACCTGTGATGGCAACTAGTGGCCTAGACCATGATGTCAAGATCTGGGCACCCATAGCAAAAGATTCCACTGAGCTTAT
TGGGTTAAAGAATGTGATTAAGAAGAACAAGCAGGAACGAGATCAAGATAGCTTGCACCACACCAATCTGTTTGACAGTC
ACATGCTGTGGTTCCTTATGCATCACCTGACACAAAGAAGTCGTCAGCAGCACTGGGGAGATCCTGAAGTTGAAGAGTCA
GATGAAGACCTGTCTGAGTCTTCCAGTACCTCAGATACATCCGAGGAGGAGGAGAGCCAAGATCGAGTGCAGTGCTTGCC
GTCC

Alignment

ORF - retro_ogar_2113 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.26 %
• Parental protein coverage: 80.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HVQRKRANRDQDSS-DDERALEDWVSSETSALPRPRWQALPALRERELGSSARFVYEACGARVFVQRFRL
          HVQ...AN..Q....D...ALE.W.SSET.ALP.PRWQ...ALRER.LGSS.RFVYEACGAR.FVQRF.L
Retrocopy HVQGSEANHEQQILLDEDQALEEWLSSETLALPLPRWQVVTALRERQLGSSSRFVYEACGARAFVQRFHL

Parental  QHGLEGHTGCVNTLHFNQRGTWLASGSDDLKVVVWDWVRRQPVLDFESGHKSNVFQAKFLPNSGDSTLAM
          QHGLEGH.GCVNT.HFNQRGTWL.S.SDDL.V..WDWV...P.LDFESGH..NV..AKFLPNSGDSTLAM
Retrocopy QHGLEGHVGCVNTVHFNQRGTWLVSSSDDLRVIMWDWVCQWPILDFESGHRNNVLHAKFLPNSGDSTLAM

Parental  CARDGQVRVAELSATQCCKNTKRVAQHKGASHKLALEPDSPCTFLSAGEDAVVFTIDLRQDRPASKLVVT
          CARDGQVRVAELSA...C.NTKRVAQH.GASHKLALEPDSP..FL..GEDAVVFTIDLRQ..PASK.VVT
Retrocopy CARDGQVRVAELSAVPYCRNTKRVAQHRGASHKLALEPDSPFKFLTSGEDAVVFTIDLRQGKPASKVVVT

Parental  KEKEKKVGLYTIYVNPANTHQFAVGGRDQFVRIYDQRKIDENENNGVLKKFCPHHLVNSESKANITCLVY
          KEKEKKVGLY.IY.NPANT.QFAVGGRDQFVRIYDQRKI.E.ENNGV.KKFCPHHL....SKA.ITC.VY
Retrocopy KEKEKKVGLYAIYMNPANTYQFAVGGRDQFVRIYDQRKINESENNGVFKKFCPHHLIDCDSKA-ITCVVY

Parental  SHDGTELLASYNDEDIYLFNSSHSDGAQYVKRYKGHRNNATVKGVNFYGPKSEFVVSGSDCGHIFLWE-K
          SHDGTELLASYND.DIYLFNSSH.DGAQY.KRYKGHRNNATVKGVNFYGP.SEF..SGSDCGHIFLWE.K
Retrocopy SHDGTELLASYNDDDIYLFNSSHDDGAQYIKRYKGHRNNATVKGVNFYGPRSEFIMSGSDCGHIFLWE>K

Parental  SSCQIIQFMEGDKGGVVNCLEPHPHLPVLATSGLDHDVKIWAPTAEASTELTGLKDVIKKNKRERDEDSL
          SS.Q.IQF.EGDKGG.V.CLEPHP.LPV.ATSGLDHDVKIWAP.A..STEL.GLK.VIKKNK.ERD.DSL
Retrocopy SSSQVIQFLEGDKGGAVTCLEPHPYLPVMATSGLDHDVKIWAPIAKDSTELIGLKNVIKKNKQERDQDSL

Parental  HHTDLFDSHMLWFLMHHLRQRRHHRRWREPGVGATDADSDESPSSSDTSDEEEGPDRVQCMPS
          HHT.LFDSHMLWFLMHHL.QR.....W..P.V...D.D..ES.S.SDTS.EEE..DRVQC.PS
Retrocopy HHTNLFDSHMLWFLMHHLTQRSRQQHWGDPEVEESDEDLSESSSTSDTSEEEESQDRVQCLPS

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_2113 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.

---

Parental genes homology:

Parental genes homology involve 12 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014293	1 retrocopy	retro_amel_47,
Bos taurus	ENSBTAG00000005796	1 retrocopy	retro_btau_1853,
Canis familiaris	ENSCAFG00000031010	1 retrocopy	retro_cfam_223,
Callithrix jacchus	ENSCJAG00000005913	1 retrocopy	retro_cjac_1322,
Echinops telfairi	ENSETEG00000012876	1 retrocopy	retro_etel_654,
Felis catus	ENSFCAG00000003925	1 retrocopy	retro_fcat_14,
Mustela putorius furo	ENSMPUG00000013949	1 retrocopy	retro_mputfur_173,
Mus musculus	ENSMUSG00000026554	1 retrocopy	retro_mmus_111,
Otolemur garnettii	ENSOGAG00000011349	1 retrocopy	retro_ogar_2113 ,
Pteropus vampyrus	ENSPVAG00000007982	1 retrocopy	retro_pvam_1356,
Sus scrofa	ENSSSCG00000006388	1 retrocopy	retro_sscr_88,
Tupaia belangeri	ENSTBEG00000001566	1 retrocopy	retro_tbel_3644,