RetrogeneDB ID: retro_meug_1424

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold398995:2..1011(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000008703
• Aliases: None
• Description: None

Sequence

>retro_meug_1424
ATGAGCAAAGGTGGGCGGGGAGAAGGAGGAGGATGGGGTGGAATGGGTGCTGGAGAGTAAGGTGGTTTCAATAAGCCTGG
TGGACTTATGGAAGAAGGACCAGACCTTGACTTAGGCCCACTTGTAGATCCAAATGAAGACTCAGAAAACAGTGCAATTT
ATGTACAGAGACTGAATGAAAATGTGACTGTGGACGAGCTGGCAGACTTTTTCAAACAGTGTGAGGTTGTCAAGATTAAC
AAAAGGACTGGGTAGCCAATGATAAACATTTACTTAGACAAGGAAACTGGAAAATCAAAAGGAGATGCCACCGTATCCTA
GATGACCCACCTACTGCAAAGGCTGCAGTAGAATGGTTTGATGGGAAAGACTCCCAAGGAAGCAAACTCAAAGTGTCTCT
TGCTTGGAAGAAACCTCCAATGAACAGCGTGAGAGGTGGCGTGCCACCCTGTGAAGGCAGAGGAATGCCTCTGCCTCTCC
AAGGAGGTCCTGGAGGGCCAGGGGGGCCAGGAAGTCCCATGGGTGAAATGGGAGGCAGAGGAAGAGACAGGGAAGGTTTT
CCACCAAGAGGACCCAGGGTTTCCTGAGAAAACTCTCCAGGAGGCAGAAATGTCCAGCACAGAGCAGGAGACTGGCAGTG
CCCTAATCCAGGCTGTGGAAACTAGAATTTTGCCTGGCAAACAGAATGTAATCAGTGTAAGGCCCCTAAACCGGAAGGAT
TTCTTCCACCACCCTTTCCACTCCAGGTGGCAATTGTGGCAGAGGTTGCCCTGGTAGCACGAGGGGTGGCAGAGGTGGCC
TCAAGGACAGTGGAGAGCCTGCCAGCATGTTCAGAGGAGGCTGAGGTGGAGACAAAGGCAGCTTCCAGGGAAGCCAAGGA
ATGGACCAAGGAGGCTTTGGTGGTGGAAGAGGAGGACCTAGAGGTCCTCCCAGGCCTCTCATGGAGCAGATGGGAGGCAG
TAAAGGTGAGCATGGAGAACTGGGAAAAATGGATAAAGGTGAGTACCGA

Alignment

ORF - retro_meug_1424 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.99 %
• Parental protein coverage: 58.32 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSRGGRGGGGGGRGGMGSAGERGGFNKPGGPMEEGPDLDLGPPVDPDEDSENSAIYVQGLNDNVTVDELA
          MS.GGRG.GGG..GGMG.AGE.GGFNKPGG.MEEGPDLDLGP.VDP.EDSENSAIYVQ.LN.NVTVDELA
Retrocopy MSKGGRGEGGGW-GGMG-AGE*GGFNKPGGLMEEGPDLDLGPLVDPNEDSENSAIYVQRLNENVTVDELA

Parental  DFFKQCGVVKMNKRTGQPMINIYLDKETGKPKGDATVS-YDDPPTAKAAVEWFDGKDFQGSKLKVSLARK
          DFFKQC.VVK.NKRTG.PMINIYLDKETGK.KGDATVS..DDPPTAKAAVEWFDGKD.QGSKLKVSLA.K
Retrocopy DFFKQCEVVKINKRTG*PMINIYLDKETGKSKGDATVS<LDDPPTAKAAVEWFDGKDSQGSKLKVSLAWK

Parental  KPPMNSMRGGMPPREGRGMPPPLRGGPGGPGGPGGPMGRMGGRGGDRGGFPPRGPRGSRGNPSGGGNVQH
          KPPMNS.RGG.PP.EGRGMP.PL.GGPGGPGGPG.PMG.MGGRG.DR.GFPPRGPR.S..N..GG.NVQH
Retrocopy KPPMNSVRGGVPPCEGRGMPLPLQGGPGGPGGPGSPMGEMGGRGRDREGFPPRGPRVS*ENSPGGRNVQH

Parental  RAGDWQCPNPGCGNQNFAWRTECNQCKAPKPEGFLPPPFP-PPGGDRGRGGPGGMRGGRGGLMDRGGPGG
          RAGDWQCPNPGCGN.NFAW.TECNQCKAPKPEGFLPPPFP..PGG..GRG.PG..RGGRGGL.D.G.P..
Retrocopy RAGDWQCPNPGCGN*NFAWQTECNQCKAPKPEGFLPPPFP<TPGGNCGRGCPGSTRGGRGGLKDSGEPAS

Parental  MFRGGRGGDRGGFRGGRGMDRGGFGGGRRGGPGGPPGPLMEQMGGRRGGRGGPGKMDKGEHR
          MFRGG.GGD.G.F.G..GMD.GGFGGG.RGGP.GPP.PLMEQMGG..G..G..GKMDKGE.R
Retrocopy MFRGG*GGDKGSFQGSQGMDQGGFGGG-RGGPRGPPRPLMEQMGGSKGEHGELGKMDKGEYR

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_1424 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1424 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 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008298	2 retrocopies	retro_amel_191, retro_amel_959,
Canis familiaris	ENSCAFG00000012160	8 retrocopies	retro_cfam_1142, retro_cfam_1183, retro_cfam_1225, retro_cfam_133, retro_cfam_1397, retro_cfam_1736, retro_cfam_1889, retro_cfam_560,
Callithrix jacchus	ENSCJAG00000019987	4 retrocopies	retro_cjac_1716, retro_cjac_2022, retro_cjac_2813, retro_cjac_2911,
Cavia porcellus	ENSCPOG00000009502	1 retrocopy	retro_cpor_1353,
Felis catus	ENSFCAG00000004243	1 retrocopy	retro_fcat_519,
Homo sapiens	ENSG00000182944	1 retrocopy	retro_hsap_463,
Gorilla gorilla	ENSGGOG00000012212	1 retrocopy	retro_ggor_444,
Macropus eugenii	ENSMEUG00000000968	1 retrocopy	retro_meug_1986,
Macropus eugenii	ENSMEUG00000008703	1 retrocopy	retro_meug_1424 ,
Myotis lucifugus	ENSMLUG00000012058	1 retrocopy	retro_mluc_328,
Monodelphis domestica	ENSMODG00000008679	1 retrocopy	retro_mdom_279,
Mustela putorius furo	ENSMPUG00000013432	2 retrocopies	retro_mputfur_56, retro_mputfur_572,
Mus musculus	ENSMUSG00000009079	1 retrocopy	retro_mmus_1379,
Oryctolagus cuniculus	ENSOCUG00000004432	2 retrocopies	retro_ocun_1346, retro_ocun_242,
Pongo abelii	ENSPPYG00000011684	1 retrocopy	retro_pabe_1769,
Pan troglodytes	ENSPTRG00000014218	1 retrocopy	retro_ptro_350,
Ictidomys tridecemlineatus	ENSSTOG00000023177	1 retrocopy	retro_itri_1892,
Tursiops truncatus	ENSTTRG00000011881	1 retrocopy	retro_ttru_1366,