RetrogeneDB ID: retro_ogar_1061

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873534.1:29834138..29835074(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NARS
• Ensembl ID: ENSOGAG00000016302
• Aliases: None
• Description: asparaginyl-tRNA synthetase [Source:HGNC Symbol;Acc:7643]

Sequence

>retro_ogar_1061
AAGGAAGAAATGAAGAGTGAATCGCAGGAAAAGAAAGAGGCAGAAGATAATTTGCAGAGAGAAAAGAACTTAGAAGAAGC
AAAAAAGATTACCATTAAAAATGATCCAAGTCTTCCAGAGGCAAAATGTGTGAAGATTGACTCATTAGAAGGATATAGAG
GCCAAAGAGTGAAAATGTTTAGCTGCATCCATAGGCTGCATAGGCAAGGGAAGAATTTAATGTTTCTGGTGTTGCAGGAT
AGTACAGTTTTCTTCAGTGTGTCTTGTCTCGTGAGTTGTGTCAGTGTTAACAATGGCATAGTCTTGTCTACTGAAAATAG
TGTTGCCATGTACGGAATGCTAAATCTTACCCCAAAGGGCAAGCAGGCTACAGGGGGCCACGAGCTGAGTTGTGCCTTCT
GGGAACTGCTTGGGTTCCCCGCTGGAGGAGCTGATAACTTGATCAATGAAGAATCTGACGTTGACGGCCAGCTCAATAAC
AGACACATGATAATCCAAGGAGAAAACATGTCCAAAATCCTGAAAGCATGCTCCATGGTCACCAGGTGTCTGAGAGATCA
CTTCTTTGATAGGGGGTACTATGAAGTTACGCCTCCAACAGTAGTGCAAACTCAAGTAGAAGGTGGTGCTATACTCTCCA
AGCTTGACTTTTGAGGGGAGGAGGCATTTTTGACTCAGTCCTCTTAGTTGTATCTGGAGATCTGCATGCTAGCCCTGGGA
GATGTTTTTTGTGTTGCACAGTCTTACAGGGCAGAATAATCCAGAACTCAAAGGCACCTGGCTGAATACACTCATGTGGA
AGAGGAGTGCCCTTTCCTGACCTTTGAGGACCTCCTGAACCAACTGAAAGACTTGGTCTGTGATGTGGTAGATAGAATCT
TCAAGTCACCTGCAGCAAGTATAGTGCACAAATGCAACCCAAACTTTAAGCCCCCC

Alignment

ORF - retro_ogar_1061 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.14 %
• Parental protein coverage: 55.89 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  REQMKSESREKKEAEDNFRREKNLEEAKKITIKNDPSLPEAKCVKISSLKGYRGQRVKVFGWVHRLRRQG
          .E.MKSES.....................ITIKNDPSLPEAKCVKI.SL.GYRGQRVK.F...HRL.RQG
Retrocopy KEEMKSESQXXXXXXXXXXXXXXXXXXXXITIKNDPSLPEAKCVKIDSLEGYRGQRVKMFSCIHRLHRQG

Parental  KNLMFLVLRDGT-GYLQCVLSDELCQC-YNGVVLSTESSVAVYGMLNLTPKGKQAPGDHELSCDFWELVG
          KNLMFLVL.D.T...LQCVLS.ELCQC..NG.VLSTE.SVA.YGMLNLTPKGKQA.G.HELSC.FWEL.G
Retrocopy KNLMFLVLQDST<SFLQCVLSRELCQC>NNGIVLSTENSVAMYGMLNLTPKGKQATGGHELSCAFWELLG

Parental  LAPAGGADNLINEESDVDVQLNNRHMMIRGENMSKILKARSTVTRCLRDHFFDRGYYEVTPPTLVQTQVE
          ..PAGGADNLINEESDVD.QLNNRHM.I.GENMSKILKA.S.VTRCLRDHFFDRGYYEVTPPT.VQTQVE
Retrocopy F-PAGGADNLINEESDVDGQLNNRHMIIQGENMSKILKACSMVTRCLRDHFFDRGYYEVTPPTVVQTQVE

Parental  GGATLFKLDFFGEEAFLTQSSQLYLETCMPALGDVFCIAQSYRAEQSRTRRHLAEYTHVEAECPFLTFEE
          GGA.L.KLDF.GEEAFLTQSS.LYLE.CM.ALGDVFC.AQSYRAE.SRT.RHLAEYTHVE.ECPFLTFE.
Retrocopy GGAILSKLDF*GEEAFLTQSS*LYLEICMLALGDVFCVAQSYRAE*SRTQRHLAEYTHVEEECPFLTFED

Parental  LLNRVEDLVCDVVDRVLKSPAASVVHELNPNFKPP
          LLN...DLVCDVVDR..KSPAAS.VH..NPNFKPP
Retrocopy LLNQLKDLVCDVVDRIFKSPAASIVHKCNPNFKPP

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_1061 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003837	2 retrocopies	retro_cjac_2194, retro_cjac_3091,
Cavia porcellus	ENSCPOG00000013227	3 retrocopies	retro_cpor_1441, retro_cpor_429, retro_cpor_736,
Loxodonta africana	ENSLAFG00000000559	1 retrocopy	retro_lafr_955,
Macropus eugenii	ENSMEUG00000000774	1 retrocopy	retro_meug_2019,
Otolemur garnettii	ENSOGAG00000016302	1 retrocopy	retro_ogar_1061 ,
Ictidomys tridecemlineatus	ENSSTOG00000002118	1 retrocopy	retro_itri_591,