RetrogeneDB ID: retro_mgal_14

Retrocopy location

• Organism: Turkey (Meleagris gallopavo)
• Coordinates: 10:3431918..3432636(+)
• Located in intron of: ENSMGAG00000002072

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP5A1Z
• Ensembl ID: ENSMGAG00000009963
• Aliases: None
• Description: ATP synthase subunit alpha [Source:UniProtKB/TrEMBL;Acc:G1NC68]

Sequence

>retro_mgal_14
ACTGCTGAAGTATCTTCAATTCTTGAGGAACATATTTTGGGAGCTGACTCCTCTGCTGAACTTGAGGAGACCGGCCGTGT
GCACTCAATTGGTGATGGTATTGCCTGTGTGTATGGCCTAAGAAATGTCCAAGCAGAAGAAATGACTGAGTTCTCTTCTG
GGCTGAAGGGAACATCCTTGAACCTGGAGCCCGACAATGTTGGTGTTGTCGTATTTGGTAATGACAGACTGACGAAGGAA
GGGGATGTTGTGAAGAGGACTGGTGCCATTGTGGGTGTTCCAGTTGGGGAAGAGCTGCTGGGCCGTGTTGTAGATGCCCT
GGGCAACCCAATTGATGGGAAGGGTCCTATTACATCTAAGACGCATAGAAGAGTTGGCTTGAAGGCCCCTGGCATCATTC
CCAGAATCTCTGTGCAGGAGCCCATGCAAACTGGTATTAAGGCTGTGGAAAGCTTGGTGCCCATTGGTCGTGGCCAGTGT
GAGCTGATTATCGGTGACAGGCAGACTGGGAAAACTTCAATTGCCATTGACAATCAACCAAAAACAATTTAATGATGGAA
CAGATGAGAAAAAGAAGCTGTACTGTATCTATGTTGCCATCGGCCAGAAGAGATCTACTGTTGCTCAGCTGGTGAAGAGG
CTCACTGATTCACATGCCATGAAGTACACAATTGTGTTGTCTGCAACAGCATCTGATGCTGCACGTCTTCAGTGGCTC

Alignment

ORF - retro_mgal_14 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.95 %
• Parental protein coverage: 69.45 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TAEVSSILEERILGANTSAELEETGHVLSIGDGIARVYGLRNVQAEEMVEFSSGLKGMSLNLEPDNVGVV
          TAEVSSILEE.ILGA..SAELEETG.V.SIGDGIA.VYGLRNVQAEEM.EFSSGLKG.SLNLEPDNVGVV
Retrocopy TAEVSSILEEHILGADSSAELEETGRVHSIGDGIACVYGLRNVQAEEMTEFSSGLKGTSLNLEPDNVGVV

Parental  VFGNDRLIKEGDVVKRTGAIVDVPVGEELLGRVVDALGNPIDGKSSFTSKMRRRVGLKAPGIIPRISVRE
          VFGNDRL.KEGDVVKRTGAIV.VPVGEELLGRVVDALGNPIDGK...TSK..RRVGLKAPGIIPRISV.E
Retrocopy VFGNDRLTKEGDVVKRTGAIVGVPVGEELLGRVVDALGNPIDGKGPITSKTHRRVGLKAPGIIPRISVQE

Parental  PMQTGIKAVDSLVPIGRGQRELIIGDRQT-GKTSIAIDTIINQKRFNDGVDEKKKLYCIYVAIGQKRSTV
          PMQTGIKAV.SLVPIGRGQ.ELIIGDRQT.GK........INQK.FNDG.DEKKKLYCIYVAIGQKRSTV
Retrocopy PMQTGIKAVESLVPIGRGQCELIIGDRQT>GKLQLPLT--INQKQFNDGTDEKKKLYCIYVAIGQKRSTV

Parental  AQLVKRLTDADAMKYTIVVSATASDAAPLQYL
          AQLVKRLTD..AMKYTIV.SATASDAA.LQ.L
Retrocopy AQLVKRLTDSHAMKYTIVLSATASDAARLQWL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Meleagris gallopavo was not studied using RNA-Seq expression data.

ChIP-Seq

Meleagris gallopavo was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mgal_14 retrocopy.

TSS

Meleagris gallopavo was not studied using FANTOM5 data.

Lab

retro_mgal_14 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mgal_14 has 0 orthologous retrocopies within neognath group .

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Parental genes homology:

Parental genes homology involve 20 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002507	2 retrocopies	retro_btau_1380, retro_btau_1426,
Canis familiaris	ENSCAFG00000017648	2 retrocopies	retro_cfam_1483, retro_cfam_516,
Dasypus novemcinctus	ENSDNOG00000006331	2 retrocopies	retro_dnov_1740, retro_dnov_2525,
Equus caballus	ENSECAG00000021561	1 retrocopy	retro_ecab_788,
Homo sapiens	ENSG00000152234	1 retrocopy	retro_hsap_1702,
Gorilla gorilla	ENSGGOG00000016560	1 retrocopy	retro_ggor_1275,
Macropus eugenii	ENSMEUG00000009770	1 retrocopy	retro_meug_151,
Meleagris gallopavo	ENSMGAG00000009963	1 retrocopy	retro_mgal_14 ,
Microcebus murinus	ENSMICG00000017500	1 retrocopy	retro_mmur_1210,
Myotis lucifugus	ENSMLUG00000009856	1 retrocopy	retro_mluc_1198,
Macaca mulatta	ENSMMUG00000003570	1 retrocopy	retro_mmul_1208,
Mustela putorius furo	ENSMPUG00000000923	1 retrocopy	retro_mputfur_601,
Nomascus leucogenys	ENSNLEG00000010973	1 retrocopy	retro_nleu_1334,
Oryctolagus cuniculus	ENSOCUG00000003967	1 retrocopy	retro_ocun_1235,
Otolemur garnettii	ENSOGAG00000026684	1 retrocopy	retro_ogar_2623,
Pongo abelii	ENSPPYG00000009130	1 retrocopy	retro_pabe_1363,
Pan troglodytes	ENSPTRG00000009991	1 retrocopy	retro_ptro_1151,
Sarcophilus harrisii	ENSSHAG00000017177	1 retrocopy	retro_shar_109,
Tarsius syrichta	ENSTSYG00000007804	1 retrocopy	retro_tsyr_1186,
Tursiops truncatus	ENSTTRG00000005118	1 retrocopy	retro_ttru_159,