RetrogeneDB ID: retro_ogar_515

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873522.1:23440535..23441243(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDRG3
• Ensembl ID: ENSOGAG00000000895
• Aliases: None
• Description: NDRG family member 3 [Source:HGNC Symbol;Acc:14462]

Sequence

>retro_ogar_515
CATGTGGATGTGCCAGGCCAGCAGAAAGGTACATTGCCTTTCCCAGCAGGGTACCAGCATCTAATGATGAGCTGGCTGAA
ATGCTGCCTCTGGCTCTTACCTACTGAAGTCTGAGAAGCATCCTAGGGATTAGAGTGGGAACTGGAGCTGACATCCTCAG
CAGATTTGCACTCCATCATCCAGAGCTTGTGGAAAGCCTTGTGCTTATTAATGTTGACCCTTGTGCTAAAGGCCAGATTG
ACTGGACAGCTTCCGTACTCAAAGGCTTGACAACCAATGTTGTAGACACTATTTTGGCTCATCAGTTTGGGCAGGAATAG
TTGCAGGCCAACCTGGACCTGATTCAAGCCTACAGATTGCATATTACCCAAAGATGTCAACTAAGAAAGCTTGCAGCTCT
TAATGAGTTCCTATAGTGGGTACAGAGACCTGGAAATGGAAAGACCCATTCTGGGTCAAAATGATAACAATTTAGAAACA
TTAAAGCATTTAACTTTGCTGGTGATAGGGGACAATTCATTTGCAGTTGAGGCTGTAGTTGAATGCAGTTCCTGCCTGAG
CTCTGTAAATACAACTTTGCTAGAGATGGCAAACAGTGGGGGATTGCCTCACGTAGTGCAGCCTGGGAAGCTCACCAATG
CCTTCAAATTCTTTTTACAGGGAATGGACAACATACCATCTGCCAGCATGACCTGGCCCAGTGATGAA

Alignment

ORF - retro_ogar_515 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.87 %
• Parental protein coverage: 66.39 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HVDAPGQQEGAPP-FPTGYQYPTMDELAEMLPSVLTHLSLKSIIGIGVGAGAYILSRFALSHPELVEGLV
          HVD.PGQQ.G..P.FP........DELAEMLP..LT..SL.SI.GI.VG.GA.ILSRFAL.HPELVE.LV
Retrocopy HVDVPGQQKGTLP<FPSRVP-ASNDELAEMLPLALTY*SLRSILGIRVGTGADILSRFALHHPELVESLV

Parental  LINVDPCAKGWIDWAASKISGLTTNVVDIILAHHFGQEELQANLDLIQTYRLHIAQ-DINQENLQHFLSS
          LINVDPCAKG.IDW.AS...GLTTNVVD.ILAH.FGQE.LQANLDLIQ.YRLHI.Q.D.N.E.LQ...SS
Retrocopy LINVDPCAKGQIDWTASVLKGLTTNVVDTILAHQFGQE*LQANLDLIQAYRLHITQ>DVN*ESLQLLMSS

Parental  YNGRRDLEIERPILGQNDNKLKTLKCSTLLVVGDSSPAVEAVVECNSRLNPINTTLLKMADCGGLPQVVQ
          Y.G.RDLE.ERPILGQNDN.L.TLK..TLLV.GD.S.AVEAVVEC.S.L...NTTLL.MA..GGLP.VVQ
Retrocopy YSGYRDLEMERPILGQNDNNLETLKHLTLLVIGDNSFAVEAVVECSSCLSSVNTTLLEMANSGGLPHVVQ

Parental  PGKLTEAFKYFLQGMGYIPYVQLSHLSTE
          PGKLT.AFK.FLQGM..IP.......S.E
Retrocopy PGKLTNAFKFFLQGMDNIPSASMTWPSDE

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_515 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 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012562	1 retrocopy	retro_amel_378,
Echinops telfairi	ENSETEG00000002250	1 retrocopy	retro_etel_2102,
Myotis lucifugus	ENSMLUG00000009735	1 retrocopy	retro_mluc_1054,
Otolemur garnettii	ENSOGAG00000000895	1 retrocopy	retro_ogar_515 ,
Sus scrofa	ENSSSCG00000007322	5 retrocopies	retro_sscr_1116, retro_sscr_144, retro_sscr_519, retro_sscr_539, retro_sscr_937,
Ictidomys tridecemlineatus	ENSSTOG00000022531	1 retrocopy	retro_itri_1284,