RetrogeneDB ID: retro_meug_1330

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold369983:1048..1585(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000007002
• Aliases: None
• Description: None

Sequence

>retro_meug_1330
TCAGTGGTCTAGTGTGAGAATGATGATGACAGGATCCAGGTCTCTAAGAAATACTTGCCGGGCATGGCTATGGGCTACTC
CAGCCTGAAGCTGACCTTGCATGTTAGAGATAGATTTGAATTCATGCAGCAGAACCAGGATGCCTTTGATGTCATCATCA
CTGATTCCTCGGACCCCATGAGTCCTACCAAGAGTTTGTTCAAAGAGTCTTATTACCAGCTGATGAAGACAGCGCTGAAA
GATAATAGGATCCTCTGCTGTCAGGGTGAGTACCAGTGGCTGCATCTGGACCTCATCAAGGAGATGTGTCACTTCTGTAA
GTCTCTGTTCCCTGTTATGGAATATGTCTACTGTGCCATCTCCACGTATTCCATTGGCCAGATTGGCTTCATGCTCTCAG
GCTAGACCCCAAGTACTAACTTCTGGGAACTAACGCAGTGGCTGACCCAGGAGCAAGTAGAGAAAATGAATCTCAAATAC
TTCAACTTGGACCTCTGCCACACGGCCTTTGTGCTGCCTGAGTTTGCCCGCAAGGCT

Alignment

ORF - retro_meug_1330 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.56 %
• Parental protein coverage: 61.3 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SVVQCEIDEDVIQVSKKYLPGMAVGYSSPKLTLHVRDGFEFMQQNQDAFDVIITDSSDPMGPAESLFKES
          SVV.CE.D.D.IQVSKKYLPGMA.GYSS.KLTLHVRD.FEFMQQNQDAFDVIITDSSDPM.P..SLFKES
Retrocopy SVV*CENDDDRIQVSKKYLPGMAMGYSSLKLTLHVRDRFEFMQQNQDAFDVIITDSSDPMSPTKSLFKES

Parental  YYQLMKTALKDDGILCCQGECQWLHLDLIKEMRHFCKSLFPVVEYAYCTIPTYPSGQIGFMLCSKTPSTN
          YYQLMKTALKD..ILCCQGE.QWLHLDLIKEM.HFCKSLFPV.EY.YC.I.TY..GQIGFML...TPSTN
Retrocopy YYQLMKTALKDNRILCCQGEYQWLHLDLIKEMCHFCKSLFPVMEYVYCAISTYSIGQIGFMLSG*TPSTN

Parental  FREPVQQLTQEQVEKMNLKYYNSDIHRAAFVLPEFARKA
          F.E..Q.LTQEQVEKMNLKY.N.D....AFVLPEFARKA
Retrocopy FWELTQWLTQEQVEKMNLKYFNLDLCHTAFVLPEFARKA

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_1330 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1330 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 15 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002354	4 retrocopies	retro_cjac_2131, retro_cjac_2524, retro_cjac_3331, retro_cjac_4025,
Dasypus novemcinctus	ENSDNOG00000013348	1 retrocopy	retro_dnov_338,
Homo sapiens	ENSG00000116649	2 retrocopies	retro_hsap_1426, retro_hsap_2313,
Gorilla gorilla	ENSGGOG00000014385	1 retrocopy	retro_ggor_1756,
Loxodonta africana	ENSLAFG00000028297	2 retrocopies	retro_lafr_1175, retro_lafr_894,
Macropus eugenii	ENSMEUG00000007002	2 retrocopies	retro_meug_1330 , retro_meug_887,
Myotis lucifugus	ENSMLUG00000017585	1 retrocopy	retro_mluc_2458,
Macaca mulatta	ENSMMUG00000019321	2 retrocopies	retro_mmul_1500, retro_mmul_2259,
Mustela putorius furo	ENSMPUG00000016435	1 retrocopy	retro_mputfur_1085,
Mus musculus	ENSMUSG00000006442	1 retrocopy	retro_mmus_3271,
Nomascus leucogenys	ENSNLEG00000009532	3 retrocopies	retro_nleu_1842, retro_nleu_2082, retro_nleu_2778,
Ochotona princeps	ENSOPRG00000012079	1 retrocopy	retro_opri_1119,
Pongo abelii	ENSPPYG00000001892	3 retrocopies	retro_pabe_1181, retro_pabe_1828, retro_pabe_2044,
Pan troglodytes	ENSPTRG00000000138	3 retrocopies	retro_ptro_1403, retro_ptro_1688, retro_ptro_975,
Sus scrofa	ENSSSCG00000027689	1 retrocopy	retro_sscr_1208,