RetrogeneDB ID: retro_meug_203

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_5821:85083..85665(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IDH3G
• Ensembl ID: ENSMEUG00000013934
• Aliases: None
• Description: isocitrate dehydrogenase 3 (NAD+) gamma [Source:HGNC Symbol;Acc:5386]

Sequence

>retro_meug_203
GTAGCTTTGAAGGGAAACATCGAAGCCAACCACAATCTGCTACCATCTTATAAGTCCTCTAACAACATTCTCCTCATCAG
CTTAGACCTCTATGCCAATGTCATCCATTGTAAGAGCCTGCCAGGCATGGTGACTCGACACAAAGACATAGACATCCTCA
TTGTTAGGGAGAACACAGAGGGCAAGTACAGCAGCCTGGAAAATGACAGAGTTTCAGGCGTGGTGGAGAGCTTGAAGATC
ATCACCAAGGCCAAGTCCCTGCACATCACTGAGTATATTTTCTGCCTGGCCTAGGAAACTGGGCACAAGAAAGTGACCAA
CATGCACAAGGCCAACATCATGAAACTGGGAGATGGCCTCTTTCTCCAGTGATATAACAATGTGGCTGCAGGCAATCCCA
ACATCACTTTTGAGAGTATGATTGTGGACAACACCACAATGCAGCTAGTATTTAAGCCCCAGCAGCTTGATGTCATGGTG
TTATCCAATCTTTATGACATTATTGTCATTAATGTCTGCACTGGCCTGGTTGGGAGCCCTGGGCTTGTGGCTGGAGCAAA
TTATGGACATGAGTACAGTGTT

Alignment

ORF - retro_meug_203 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.96 %
• Parental protein coverage: 53.59 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VALKGNIETNHNLPPSYKSRNNILRTSLDLYANVIHCKSLPGVVTRHKDIDILIVRENTEGEYSSLEHES
          VALKGNIE.NHNL.PSYKS.NNIL..SLDLYANVIHCKSLPG.VTRHKDIDILIVRENTEG.YSSLE...
Retrocopy VALKGNIEANHNLLPSYKSSNNILLISLDLYANVIHCKSLPGMVTRHKDIDILIVRENTEGKYSSLENDR

Parental  VSGVVESLKIITKAKSLRIAEYAFRLAQETGRKKVTAVHKANIMKLGDGLFLQCCRDVAAGYPNITFESM
          VSGVVESLKIITKAKSL.I.EY.F.LA.ETG.KKVT..HKANIMKLGDGLFLQ....VAAG.PNITFESM
Retrocopy VSGVVESLKIITKAKSLHITEYIFCLA*ETGHKKVTNMHKANIMKLGDGLFLQ*YNNVAAGNPNITFESM

Parental  IVDNTTMQLVSRPQQFDVMVMPNLYGNIVNNVCAGLVGGPGLVAGANYGHVYAV
          IVDNTTMQLV..PQQ.DVMV..NLY..IV.NVC.GLVG.PGLVAGANYGH.Y.V
Retrocopy IVDNTTMQLVFKPQQLDVMVLSNLYDIIVINVCTGLVGSPGLVAGANYGHEYSV

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_203 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_203 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 23 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000018466	1 retrocopy	retro_amel_1892,
Bos taurus	ENSBTAG00000001059	1 retrocopy	retro_btau_1194,
Canis familiaris	ENSCAFG00000019286	1 retrocopy	retro_cfam_1023,
Callithrix jacchus	ENSCJAG00000011185	1 retrocopy	retro_cjac_1597,
Dipodomys ordii	ENSDORG00000006029	1 retrocopy	retro_dord_38,
Equus caballus	ENSECAG00000018509	1 retrocopy	retro_ecab_941,
Erinaceus europaeus	ENSEEUG00000015625	1 retrocopy	retro_eeur_248,
Homo sapiens	ENSG00000067829	1 retrocopy	retro_hsap_759,
Latimeria chalumnae	ENSLACG00000007365	1 retrocopy	retro_lcha_17,
Loxodonta africana	ENSLAFG00000006904	1 retrocopy	retro_lafr_560,
Macropus eugenii	ENSMEUG00000013934	1 retrocopy	retro_meug_203 ,
Myotis lucifugus	ENSMLUG00000004457	1 retrocopy	retro_mluc_396,
Mustela putorius furo	ENSMPUG00000008781	1 retrocopy	retro_mputfur_644,
Mus musculus	ENSMUSG00000002010	1 retrocopy	retro_mmus_134,
Nomascus leucogenys	ENSNLEG00000013540	1 retrocopy	retro_nleu_394,
Oryctolagus cuniculus	ENSOCUG00000016554	1 retrocopy	retro_ocun_80,
Otolemur garnettii	ENSOGAG00000006735	1 retrocopy	retro_ogar_25,
Procavia capensis	ENSPCAG00000008973	1 retrocopy	retro_pcap_361,
Pan troglodytes	ENSPTRG00000024398	1 retrocopy	retro_ptro_534,
Pteropus vampyrus	ENSPVAG00000013163	1 retrocopy	retro_pvam_373,
Rattus norvegicus	ENSRNOG00000037284	1 retrocopy	retro_rnor_209,
Sus scrofa	ENSSSCG00000012783	1 retrocopy	retro_sscr_662,
Tursiops truncatus	ENSTTRG00000011728	1 retrocopy	retro_ttru_848,