RetrogeneDB ID: retro_meug_96

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_2146:16497..17322(-)
• Located in intron of: ENSMEUG00000005654

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000007840
• Aliases: None
• Description: None

Sequence

>retro_meug_96
TTATACTGTCACATTGCTGACCTCCTGCCCGTTTCAGCCTTCAACGTGATCAATGGTGCCTCCCATGCTGGTAACAAGTT
GGCCATGCAGGAGTTCATGATCCTCTCTGTTGGAGCAACAAACTGTAAGGAGGCCATGCGCATTGGAGCTGAGGTCTACC
ACAACCTGAAGAGTGTGATTAAGCAGAAATAAGGACAAGATGCCACCAACGTAAGGGATGAGGGTGGCTTTGCTCCTAAC
ATCCTGGAGAATAAAGAAGCTCTGGACCTGCTAAAGGATGCTATTGGTAAGGCTGGCTATACTGATAAGGTCGTAATTGG
CATGGATGTTGCTGCCTCTGAATTCTTCCGATCTGGGAAATATGATTTAGACTTCAAGTCTCCTGATGATTCCAGCAGTT
ACATCTCCCCTTCTGACCTTGGAGACCTCTACAAGAGCTTCATCAAGGATTATCCAGTGGTGTCTACTGAAGATCCCTTT
GACCAGGATGACCGGGAAGCTTGGAAAAATTTCACTGCTACTGCCAGCATCCAGGTGGTAGGAGATGATCTCACAGTGAC
CAATCCCAAGCGAAACAAAAAGGCTGTGAATGAGAAGGCCTGCAATTGCCTCCTACTCAAAGTGAACCAGACTGGCTCTG
TGACTGAATCTCTCCAGGCGTGCAAGCTGGCCCAATCCAATGGGTGGGGAGTAATGGTTTCCCATCGTTCTGGGGAGACT
GAAGATACTTTCATTGCAGACCTGGTGGTGGGTCTCTGCACTGGGCAGATCAAGACTGGTGCCCCCTGCCGATCTGAGCG
TCTGGCCAAGTATAACCAGCTTCTC

Alignment

ORF - retro_meug_96 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.36 %
• Parental protein coverage: 89.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LACKEEIILPVPAFNVINGGSHAGNKLAMQEFMILPIGAENFREAMRIGSEVYHNLKSVIKQKYGQDATN
          L.C.....LPV.AFNVING.SHAGNKLAMQEFMIL..GA.N..EAMRIG.EVYHNLKSVIKQK.GQDATN
Retrocopy LYCHIADLLPVSAFNVINGASHAGNKLAMQEFMILSVGATNCKEAMRIGAEVYHNLKSVIKQK*GQDATN

Parental  VGDEGGFAPNILENKEALELLKEAIAKAGYTEHVVIGVGVAASEFYRDGKYDLEFKSPDDPSKPITSEDL
          V.DEGGFAPNILENKEAL.LLK.AI.KAGYT..VVIG..VAASEF.R.GKYDL.FKSPDD.S..I...DL
Retrocopy VRDEGGFAPNILENKEALDLLKDAIGKAGYTDKVVIGMDVAASEFFRSGKYDLDFKSPDDSSSYISPSDL

Parental  SSLYKSFIKDYPVVSIEDPFDQDDWESWKDFTASVDIQVVGDDLTVTNRTRIRKAIKEKSCNCLLLKVNQ
          ..LYKSFIKDYPVVS.EDPFDQDD.E.WK.FTA...IQVVGDDLTVTN..R..KA..EK.CNCLLLKVNQ
Retrocopy GDLYKSFIKDYPVVSTEDPFDQDDREAWKNFTATASIQVVGDDLTVTNPKRNKKAVNEKACNCLLLKVNQ

Parental  IGTVTESIQACRLAQSSGWGVMVSHRSGETEDTFIADLAVGLCTGQIKTGAPCRSERLAKYNQLL
          .G.VTES.QAC.LAQS.GWGVMVSHRSGETEDTFIADL.VGLCTGQIKTGAPCRSERLAKYNQLL
Retrocopy TGSVTESLQACKLAQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLL

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_96 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_96 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 58 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003483	2 retrocopies	retro_chof_1289, retro_chof_1811,
Callithrix jacchus	ENSCJAG00000000359	4 retrocopies	retro_cjac_1963, retro_cjac_2238, retro_cjac_3891, retro_cjac_438,
Erinaceus europaeus	ENSEEUG00000008602	2 retrocopies	retro_eeur_23, retro_eeur_243,
Homo sapiens	ENSG00000074800	1 retrocopy	retro_hsap_325,
Macropus eugenii	ENSMEUG00000005942	11 retrocopies	retro_meug_1445, retro_meug_1521, retro_meug_353, retro_meug_472, retro_meug_494, retro_meug_652, retro_meug_664, retro_meug_765, retro_meug_794, retro_meug_874, retro_meug_888,
Macropus eugenii	ENSMEUG00000007840	1 retrocopy	retro_meug_96 ,
Macropus eugenii	ENSMEUG00000007915	25 retrocopies	retro_meug_1019, retro_meug_1341, retro_meug_1483, retro_meug_1540, retro_meug_1566, retro_meug_1605, retro_meug_170, retro_meug_1701, retro_meug_1743, retro_meug_1869, retro_meug_1905, retro_meug_1929, retro_meug_2026, retro_meug_2190, retro_meug_235, retro_meug_269, retro_meug_578, retro_meug_607, retro_meug_637, retro_meug_803, retro_meug_820, retro_meug_906, retro_meug_965, retro_meug_973, retro_meug_976,
Monodelphis domestica	ENSMODG00000009521	1 retrocopy	retro_mdom_1794,
Mustela putorius furo	ENSMPUG00000006382	2 retrocopies	retro_mputfur_1162, retro_mputfur_547,
Mus musculus	ENSMUSG00000063524	1 retrocopy	retro_mmus_109,
Oryctolagus cuniculus	ENSOCUG00000010086	1 retrocopy	retro_ocun_933,
Otolemur garnettii	ENSOGAG00000004001	1 retrocopy	retro_ogar_1059,
Ochotona princeps	ENSOPRG00000009492	1 retrocopy	retro_opri_969,
Pan troglodytes	ENSPTRG00000000109	1 retrocopy	retro_ptro_261,
Pteropus vampyrus	ENSPVAG00000005030	1 retrocopy	retro_pvam_317,
Rattus norvegicus	ENSRNOG00000017895	1 retrocopy	retro_rnor_112,
Sarcophilus harrisii	ENSSHAG00000005522	1 retrocopy	retro_shar_304,
Tarsius syrichta	ENSTSYG00000002509	1 retrocopy	retro_tsyr_2011,