RetrogeneDB ID: retro_rnor_697

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 10:61154900..61155114(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Atp5i
• Ensembl ID: ENSRNOG00000000064
• Aliases: Atp5i, Atp5k
• Description: ATP synthase subunit e, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:P29419]

Sequence

>retro_rnor_697
ATGGTGTCCCCGGTTCAGGTCTCTCTGCTCATCAAGTTCGGCTGGTACTCTGCTCTGACCCTTGGCATGGCATATGGCGC
CAAGCACTACAGTTAACTAAAACCCCTGGGCAGGGGAGGAGAGGAGAATAGCAGCAGAGGAAAAGAAGAGACTAGATGAA
CTGAAACGGATTGAGAGAGAACTGGCAGAAGCTCAAGATGACAGCATTCTCAAG

Alignment

ORF - retro_rnor_697 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVPPVQVSPLIKFGRYSALILGMAYGAKRYSYLKPR-AEEERRIAAEEKKRLDELKRIERELAEAEDVSI
          MV.PVQVS.LIKFG.YSAL.LGMAYGAK.YS.LKP..A.EERRIAAEEKKRLDELKRIERELAEA.D.SI
Retrocopy MVSPVQVSLLIKFGWYSALTLGMAYGAKHYS*LKPL>AGEERRIAAEEKKRLDELKRIERELAEAQDDSI

Parental  FK
          .K
Retrocopy LK

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	52.27 RPM
SRP017611_kidney	0.00 RPM	113.61 RPM
SRP017611_liver	0.00 RPM	45.12 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_697 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_697 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_697 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016722	2 retrocopies	retro_amel_1171, retro_amel_1761,
Bos taurus	ENSBTAG00000017496	2 retrocopies	retro_btau_1222, retro_btau_219,
Canis familiaris	ENSCAFG00000023527	1 retrocopy	retro_cfam_62,
Callithrix jacchus	ENSCJAG00000001989	1 retrocopy	retro_cjac_352,
Cavia porcellus	ENSCPOG00000008678	1 retrocopy	retro_cpor_98,
Felis catus	ENSFCAG00000029708	1 retrocopy	retro_fcat_268,
Mustela putorius furo	ENSMPUG00000011414	1 retrocopy	retro_mputfur_494,
Mus musculus	ENSMUSG00000050856	1 retrocopy	retro_mmus_3152,
Otolemur garnettii	ENSOGAG00000012271	1 retrocopy	retro_ogar_1292,
Rattus norvegicus	ENSRNOG00000000064	1 retrocopy	retro_rnor_697 ,
Tursiops truncatus	ENSTTRG00000002962	1 retrocopy	retro_ttru_1938,