RetrogeneDB ID: retro_ogar_522

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873522.1:36768326..36769233(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025541
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PKLR
• Ensembl ID: ENSOGAG00000028418
• Aliases: None
• Description: pyruvate kinase, liver and RBC [Source:HGNC Symbol;Acc:9020]

Sequence

>retro_ogar_522
GCCACAGAAAGCTTTGCATTTGACCCCATTCTTTACCAGCCAGTTGCTGTGGCTCCGGACACTAAAGGACCTGGGATTCG
AACTGGGCTCACCAAGGGCAGTGGCACCACGGAGATAGAGCTGAAGAAAGGAGCCACTGTCAAGATCATGTTGGATAATG
CCTATATAGAGAAGTGTGACGAGAATCTCCTGTGGCTGGACTACAAGAACATCTGCAAGGTGATAGAGGTGGGCAGCAAG
ATCTACGTGAATGATGGGACTTATTTCCCTGCTGGTGAAGCAGAAAGGTTCTGATTTCCTGGTGACAGAGGTAGAAAATG
GTGGCTCCTTGGGTAGAAAGAAGGGTGTAAACCTTCCCAGGGCTGCTGTGGACCTGTCTACTGTGTCAGAAAAGGACATC
CAGGACCTGAAGTTTGTGGTAGAGCAGGATGTAGATATGGTGTTAGCATCTTTCATCTACAAGGCATCTGATGTCCATGA
AATCAGGAAGATCCTAGGGGAGAAAGGAAAGAACATCCAGATAATCAGCAAAATTGAGAATCATGAGGGAGTTCGAAGGT
TTGATGAAATCTTGGAGGCCAGTGATGGGATCATGGTGGCTTGTGGTCACCTAGTCATTGAGATTCCTGCAGAGAAAGTC
TTCCTTGCTCAGAAGATGATTATCTGGCTATGCAACCGAGCTAGGAAGGCTGTAATCTGTGCCACGCAGATGCTGGAGAG
CATGATCAAGAAGCCCGGCCCCACTCGGGCTGAGGGCAGCCATGTAGCCAATGCAGTCCTGGACAGAGTTGACTGCATCA
TGCTGTCTGGAGAAACAGCCAAAGGGGACTACCCTCTGGAAGCTGTTAGCAGGCAGCTCCTGATTGCCCATGAGGCAGAG
GCAGTCATTTACCACTTGCAATTATTT

Alignment

ORF - retro_ogar_522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.37 %
• Parental protein coverage: 52.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVESFATSAFSYRPVAIALDTKGPEIRTGTLMGGSDSEVELVKGSQVLVTVDPAFQMRGDENTVWVDYPN
          A.ESFA.....Y.PVA.A.DTKGP.IRTG...G....E.EL.KG..V....D.A.....DEN..W.DY.N
Retrocopy ATESFAFDPILYQPVAVAPDTKGPGIRTGLTKGSGTTEIELKKGATVKIMLDNAYIEKCDENLLWLDYKN

Parental  IVQVVPVGGRIYIDDG-LISLV----GPEGLVTQVENGGILGNRKGVNLPRIQVDLPGLSEQDVRDLRFG
          I..V..VG..IY..DG.LISL.....G...LVT.VENGG.LG..KGVNLPR..VDL...SE.D..DL.F.
Retrocopy ICKVIEVGSKIYVNDG>LISLLVKQKGSDFLVTEVENGGSLGRKKGVNLPRAAVDLSTVSEKDIQDLKFV

Parental  VEHGVDIIFASFVRKASDVAAIRAVLGPEGQNIKIISKIENHEGVKSFDEILEVSDGIMVARGDLGIEIP
          VE..VD...ASF..KASDV..IR..LG..G.NI.IISKIENHEGV..FDEILE.SDGIMVA.G.L.IEIP
Retrocopy VEQDVDMVLASFIYKASDVHEIRKILGEKGKNIQIISKIENHEGVRRFDEILEASDGIMVACGHLVIEIP

Parental  EEKVFLAQKMMIGRCNLAGKPVICATQMLESMITKPRPTRAETSDVANAVLDGADCIMLSGETAKGHFPV
          .EKVFLAQKM.I..CN.A.K.VICATQMLESMI.KP.PTRAE.S.VANAVLD..DCIMLSGETAKG..P.
Retrocopy AEKVFLAQKMIIWLCNRARKAVICATQMLESMIKKPGPTRAEGSHVANAVLDRVDCIMLSGETAKGDYPL

Parental  EAVKMQHAIAREAEAAVYHQQLF
          EAV..Q..IA.EAEA..YH.QLF
Retrocopy EAVSRQLLIAHEAEAVIYHLQLF

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_522 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000017053	1 retrocopy	retro_mdom_267,
Otolemur garnettii	ENSOGAG00000028418	3 retrocopies	retro_ogar_1590, retro_ogar_1705, retro_ogar_522 ,