RetrogeneDB ID: retro_meug_961

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold24531:11507..11767(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPS12
• Ensembl ID: ENSMEUG00000004285
• Aliases: None
• Description: ribosomal protein S12 [Source:HGNC Symbol;Acc:10385]

Sequence

>retro_meug_961
CAAGCCCATCTTTGTGTTCTTGCTTCCAGCTGTGACAAACCTATGTATGTAAAGTTGGTTGAGGCCCTGTGTGCTGAGCA
CCAAATCAACTTGATCAAGGTTGAAGACAACAAGAAACTGGGCGAATGGGTAGGCCTCTGTAAAATTGACAGAGAGGGAA
AGCCCAGTAAAGTGGTTGGCTATAGTTGCGTTGTTATTAAGGACTATGGCAAGGAATCTCAGGTCAAAGATGTCATCAAA
AATATTTTAAATGCAAGAAA

Alignment

ORF - retro_meug_961 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.64 %
• Parental protein coverage: 65.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QAHLCVLASNCDEPMYVKLVEALCAEHQINLIKVDDNKKLGEWVGLCKIDREGKPRKVVGCSCVVVKDYG
          QAHLCVLAS.CD.PMYVKLVEALCAEHQINLIKV.DNKKLGEWVGLCKIDREGKP.KVVG.SCVV.KDYG
Retrocopy QAHLCVLASSCDKPMYVKLVEALCAEHQINLIKVEDNKKLGEWVGLCKIDREGKPSKVVGYSCVVIKDYG

Parental  KESQAKDVI-EEYFKCKK
          KESQ.KDVI...YFKCKK
Retrocopy KESQVKDVI<QKYFKCKK

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_961 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_961 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 21 parental genes, and 119 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010479	1 retrocopy	retro_acar_102,
Ailuropoda melanoleuca	ENSAMEG00000008015	2 retrocopies	retro_amel_79, retro_amel_92,
Bos taurus	ENSBTAG00000001360	7 retrocopies	retro_btau_106, retro_btau_1097, retro_btau_1306, retro_btau_1495, retro_btau_1514, retro_btau_1630, retro_btau_1802,
Cavia porcellus	ENSCPOG00000000429	4 retrocopies	retro_cpor_1096, retro_cpor_304, retro_cpor_32, retro_cpor_380,
Equus caballus	ENSECAG00000001599	8 retrocopies	retro_ecab_1012, retro_ecab_1131, retro_ecab_133, retro_ecab_744, retro_ecab_80, retro_ecab_828, retro_ecab_875, retro_ecab_959,
Echinops telfairi	ENSETEG00000006854	14 retrocopies	retro_etel_1129, retro_etel_1512, retro_etel_1580, retro_etel_2016, retro_etel_205, retro_etel_2082, retro_etel_2099, retro_etel_2169, retro_etel_26, retro_etel_280, retro_etel_29, retro_etel_55, retro_etel_578, retro_etel_915,
Felis catus	ENSFCAG00000028402	7 retrocopies	retro_fcat_1084, retro_fcat_1314, retro_fcat_1446, retro_fcat_1880, retro_fcat_537, retro_fcat_664, retro_fcat_796,
Gorilla gorilla	ENSGGOG00000012234	22 retrocopies	retro_ggor_1164, retro_ggor_1287, retro_ggor_1322, retro_ggor_139, retro_ggor_1426, retro_ggor_1441, retro_ggor_1686, retro_ggor_1861, retro_ggor_1894, retro_ggor_2115, retro_ggor_2241, retro_ggor_2261, retro_ggor_2339, retro_ggor_2456, retro_ggor_2489, retro_ggor_2680, retro_ggor_3076, retro_ggor_530, retro_ggor_595, retro_ggor_673, retro_ggor_724, retro_ggor_971,
Gadus morhua	ENSGMOG00000019455	1 retrocopy	retro_gmor_11,
Macropus eugenii	ENSMEUG00000004285	1 retrocopy	retro_meug_961 ,
Microcebus murinus	ENSMICG00000005252	5 retrocopies	retro_mmur_1260, retro_mmur_1527, retro_mmur_391, retro_mmur_491, retro_mmur_98,
Myotis lucifugus	ENSMLUG00000001137	5 retrocopies	retro_mluc_1479, retro_mluc_1552, retro_mluc_1987, retro_mluc_1988, retro_mluc_582,
Macaca mulatta	ENSMMUG00000013237	1 retrocopy	retro_mmul_12,
Mustela putorius furo	ENSMPUG00000014771	1 retrocopy	retro_mputfur_6,
Mus musculus	ENSMUSG00000061983	1 retrocopy	retro_mmus_36,
Nomascus leucogenys	ENSNLEG00000014611	4 retrocopies	retro_nleu_2717, retro_nleu_543, retro_nleu_588, retro_nleu_86,
Pelodiscus sinensis	ENSPSIG00000003457	1 retrocopy	retro_psin_52,
Rattus norvegicus	ENSRNOG00000016411	5 retrocopies	retro_rnor_177, retro_rnor_186, retro_rnor_241, retro_rnor_295, retro_rnor_300,
Sorex araneus	ENSSARG00000003170	2 retrocopies	retro_sara_356, retro_sara_8,
Tarsius syrichta	ENSTSYG00000010097	24 retrocopies	retro_tsyr_1010, retro_tsyr_102, retro_tsyr_1123, retro_tsyr_1188, retro_tsyr_129, retro_tsyr_1313, retro_tsyr_1345, retro_tsyr_1398, retro_tsyr_1486, retro_tsyr_1668, retro_tsyr_1955, retro_tsyr_1993, retro_tsyr_205, retro_tsyr_249, retro_tsyr_303, retro_tsyr_419, retro_tsyr_453, retro_tsyr_556, retro_tsyr_645, retro_tsyr_733, retro_tsyr_764, retro_tsyr_801, retro_tsyr_970, retro_tsyr_99,
Vicugna pacos	ENSVPAG00000011504	3 retrocopies	retro_vpac_133, retro_vpac_267, retro_vpac_339,