RetrogeneDB ID: retro_meug_600

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold144688:857..1925(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BECN1
• Ensembl ID: ENSMEUG00000011700
• Aliases: None
• Description: beclin 1, autophagy related [Source:HGNC Symbol;Acc:1034]

Sequence

>retro_meug_600
ATGGAGTGGTTGAAGTCATCGAGCAGCACCATGCAGGTGAGCTTCGTGTGCCAGCGCTGCAGCCAGCCCCTAAAACTGGA
CACTTCCTTCAGTATCCTAGACCAAGTCACCATGTGGGAGCTCACAGTTCCACTACTTACCACAGTTCAGACAAAGCCTG
AAGAGACTCAGGAGAAAAAGACTAACTCAGGAGAGGAGCCATTTGCTGAAACTCGGCAGGATGGTGTCTCCCGCAGACAC
ATTACCCCAGCCAGGATGATATCTACGGAAAATCCCAACAGCTTCGCTCTGACTGGGAAGGCATCCAATGGAATTACCAT
GGAGAATCTCAGCCAAAGACTGAAGGTCACTGGAGACCTTTTTGATAATCATATCAGGCCAGACAGATGTGAATCATCCT
CTGTGTGATGCTCTGTTGGATCAGCTGGACACCCAGCTCAACATCACAGAAAATGAATGTCAAAACTACAAACACTGTTT
GGAGATCTTGGAGCAAATGAATGAAGATGATGAGGAGAAGTTGAAGATGGAGTTGAAGGAGCAGGCACTTGAGGAAGAGA
GACTGATCCAGGAACTGGAAGATGTAGAAAGAACCACAAAATTGTGGCAGAAAATCTTGAGAGAGTTCAGGCAGAGACTG
AGTGGCTACATCAAGAGGAAACTCAATACCAGAGAGAATTTAGTGAATTTAAATGACAACAGCTGGAGCTAGATGATGAG
CTAAGGAGTGTGGATAACCAGGTGCATAATGCCCAGATTCAACTGGACAAGCTGAAGAAAACAAATGTTTTTAATGCAAC
ATTCCACATCTGGCAGAGTGGACAGTTTGGCACAATTAGTAACTTCAGGCTGGGCCAGCTCCCTAGTGTCCCCGTGGAGT
GGAATGAGATCAATGCTGCATGGGGGCAAACAGTGTTGTTGCTCCATGCCCTAGCCAATAACATGAGCCTGAAATTTCAA
AGGTATCGCCTTGTTTCTTATGGAAATCATTTGTGTCTGGAATCTCTCACAGACAAATCCAAGGAGCTACCATTATACTA
ATTTGGAGGTCTGCTGTTTTTCTGGGAC

Alignment

ORF - retro_meug_600 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.08 %
• Parental protein coverage: 80.36 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MEGSKSSSSTMQVSFVCQRCSQPLKLDTSFKILDQVTIRELTAPLLTTAQTKPGETQEEETNSGEEPFAE
          ME..KSSSSTMQVSFVCQRCSQPLKLDTSF.ILDQVT..ELT.PLLTT.QTKP.ETQE..TNSGEEPFAE
Retrocopy MEWLKSSSSTMQVSFVCQRCSQPLKLDTSFSILDQVTMWELTVPLLTTVQTKPEETQEKKTNSGEEPFAE

Parental  TRQDGVSRRYIPPARMMSTESANSFTLIGEASDGGTMENLSRRLKVTGDLFD-IMSGQTDVDHPLCEECT
          TRQDGVSRR.I.PARM.STE..NSF.L.G.AS.G.TMENLS.RLKVTGDLFD.I.SGQTDV.HPLC....
Retrocopy TRQDGVSRRHITPARMISTENPNSFALTGKASNGITMENLSQRLKVTGDLFD>IISGQTDVNHPLC----

Parental  DTLLDQLDTQLNITENECQNYKHCLKILEQMNEDDEEKLKMELKELALEEERLIQELEDVE-KNRKIVAE
          D.LLDQLDTQLNITENECQNYKHCL.ILEQMNEDDEEKLKMELKE.ALEEERLIQELEDVE.KN.KIVAE
Retrocopy DALLDQLDTQLNITENECQNYKHCLEILEQMNEDDEEKLKMELKEQALEEERLIQELEDVE<KNHKIVAE

Parental  NLEKVQAETERLDQEEAQYQREYSEFKRQQLELDDELKSVDNQMRYAQIQLDKLKKTNVFNATFHIWHSG
          NLE.VQAETE.L.QEE.QYQRE.SEFK.QQLELDDEL.SVDNQ...AQIQLDKLKKTNVFNATFHIW.SG
Retrocopy NLERVQAETEWLHQEETQYQREFSEFK*QQLELDDELRSVDNQVHNAQIQLDKLKKTNVFNATFHIWQSG

Parental  QFGTINNFRLGRLPSVPVEWNEINAAWGQTVLLLHALANKMGLKFQRYRLVPYGNHSYLESLTDKSKELP
          QFGTI.NFRLG.LPSVPVEWNEINAAWGQTVLLLHALAN.M.LKFQRYRLV.YGNH..LESLTDKSKELP
Retrocopy QFGTISNFRLGQLPSVPVEWNEINAAWGQTVLLLHALANNMSLKFQRYRLVSYGNHLCLESLTDKSKELP

Parental  LYCSGGLRFFWD
          LY..GGL.FFWD
Retrocopy LY*FGGLLFFWD

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_600 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_600 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 18 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006867	1 retrocopy	retro_amel_16,
Bos taurus	ENSBTAG00000019914	1 retrocopy	retro_btau_226,
Callithrix jacchus	ENSCJAG00000013144	1 retrocopy	retro_cjac_330,
Dipodomys ordii	ENSDORG00000000956	1 retrocopy	retro_dord_675,
Felis catus	ENSFCAG00000013136	1 retrocopy	retro_fcat_62,
Homo sapiens	ENSG00000126581	1 retrocopy	retro_hsap_335,
Macropus eugenii	ENSMEUG00000011700	1 retrocopy	retro_meug_600 ,
Macaca mulatta	ENSMMUG00000029971	1 retrocopy	retro_mmul_81,
Monodelphis domestica	ENSMODG00000015064	1 retrocopy	retro_mdom_1778,
Mus musculus	ENSMUSG00000035086	1 retrocopy	retro_mmus_390,
Nomascus leucogenys	ENSNLEG00000011840	1 retrocopy	retro_nleu_1776,
Oryctolagus cuniculus	ENSOCUG00000015964	3 retrocopies	retro_ocun_1021, retro_ocun_1732, retro_ocun_218,
Procavia capensis	ENSPCAG00000014049	1 retrocopy	retro_pcap_345,
Pan troglodytes	ENSPTRG00000022819	1 retrocopy	retro_ptro_268,
Sorex araneus	ENSSARG00000000367	1 retrocopy	retro_sara_136,
Sus scrofa	ENSSSCG00000017386	1 retrocopy	retro_sscr_75,
Ictidomys tridecemlineatus	ENSSTOG00000012612	1 retrocopy	retro_itri_25,
Tursiops truncatus	ENSTTRG00000011716	1 retrocopy	retro_ttru_595,