RetrogeneDB ID: retro_mmus_2357

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 4:62274008..62274223(+)
• Located in intron of: ENSMUSG00000066152

Retrocopy information

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

Parental gene information

• Parental gene symbol: Minos1
• Ensembl ID: ENSMUSG00000050608
• Aliases: Minos1, 2310028O11Rik
• Description: mitochondrial inner membrane organizing system 1 [Source:MGI Symbol;Acc:MGI:1913628]

Sequence

>retro_mmus_2357
GAGATCAGCCTCTGCAGGAAGTGGGCCTGGCGCATGCCCAGTGCGGTGCCAGAACCGGAACCTGGTTTGGGGTTAGGAGT
TGTTTTCTCACCTTTGGAAGAAGAACGTGGCCATTGGCCGTTGGTTCCAGCATGGGGTTGAGGCTGACCTGCTCCAACTG
TCAGCATGATCCACAGGCTCCGTGTCTTCTACGCTGAAAATATGTCAAAGAGCAG

Alignment

ORF - retro_mmus_2357 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.0 %
• Parental protein coverage: 97.37 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ESELGRKWDRCMADTV-VKLGTGFGLGIVFSLTFFKRRMWPLAFGSGVGLGMAYSNCQHDFQAPYLLHGK
          E..L.RKW...M...V....GT.FG....F.LTF..RR.WPLA.GS..GL....SNCQHD.QAP.LL..K
Retrocopy EISLCRKWAWRMPSAV<ARTGTWFGVRSCF-LTF-GRRTWPLAVGSSMGLRLTCSNCQHDPQAPCLLR*K

Parental  YVKEQ
          YVKEQ
Retrocopy YVKEQ

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
SRP007412_brain	0.00 RPM	53.94 RPM
SRP007412_cerebellum	0.00 RPM	59.53 RPM
SRP007412_heart	0.00 RPM	123.06 RPM
SRP007412_kidney	0.00 RPM	91.17 RPM
SRP007412_liver	0.00 RPM	31.32 RPM
SRP007412_testis	0.18 RPM	61.34 RPM

ChIP-Seq

RNA Polymerase II activity near the 5' end of retro_mmus_2357 was not detected

EST

No EST(s) were mapped for retro_mmus_2357 retrocopy.

TSS

No TSS is located nearby retro_mmus_2357 retrocopy 5' end.

Lab

retro_mmus_2357 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_2357 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 18 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003110	3 retrocopies	retro_amel_1685, retro_amel_502, retro_amel_689,
Callithrix jacchus	ENSCJAG00000006709	1 retrocopy	retro_cjac_2070,
Echinops telfairi	ENSETEG00000010942	5 retrocopies	retro_etel_1360, retro_etel_1463, retro_etel_171, retro_etel_459, retro_etel_978,
Felis catus	ENSFCAG00000003066	2 retrocopies	retro_fcat_1448, retro_fcat_739,
Homo sapiens	ENSG00000173436	3 retrocopies	retro_hsap_1857, retro_hsap_2761, retro_hsap_2948,
Gallus gallus	ENSGALG00000004039	1 retrocopy	retro_ggal_19,
Gorilla gorilla	ENSGGOG00000007347	4 retrocopies	retro_ggor_1920, retro_ggor_2042, retro_ggor_2154, retro_ggor_979,
Loxodonta africana	ENSLAFG00000016199	1 retrocopy	retro_lafr_825,
Macaca mulatta	ENSMMUG00000005855	2 retrocopies	retro_mmul_1268, retro_mmul_1949,
Mus musculus	ENSMUSG00000050608	1 retrocopy	retro_mmus_2357 ,
Nomascus leucogenys	ENSNLEG00000007867	2 retrocopies	retro_nleu_1297, retro_nleu_665,
Pongo abelii	ENSPPYG00000001788	3 retrocopies	retro_pabe_1513, retro_pabe_2251, retro_pabe_2445,
Pan troglodytes	ENSPTRG00000000269	2 retrocopies	retro_ptro_1868, retro_ptro_2050,
Rattus norvegicus	ENSRNOG00000042696	2 retrocopies	retro_rnor_16, retro_rnor_2460,
Sus scrofa	ENSSSCG00000028414	1 retrocopy	retro_sscr_1171,
Tupaia belangeri	ENSTBEG00000004024	1 retrocopy	retro_tbel_4339,
Tarsius syrichta	ENSTSYG00000002903	1 retrocopy	retro_tsyr_825,
Vicugna pacos	ENSVPAG00000011525	1 retrocopy	retro_vpac_607,