RetrogeneDB ID: retro_mmur_1615

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_9448:93756..94340(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6orf106
• Ensembl ID: ENSMICG00000013442
• Aliases: None
• Description: chromosome 6 open reading frame 106 [Source:HGNC Symbol;Acc:21215]

Sequence

>retro_mmur_1615
GAGGGGATGGATGTGTATCTGGACCTGGAACTGATGCAGAAGTTCAGCTGCCTTGGCACAACTGATAAGGACAAGCTCAT
CTTCGAGTTCCAGAGGCTCCTTGGCTTCCAGCTCAACCCTCCCAGCTGAGCCTTCTTCCTGGACATGACCAACTGGAACC
TACAAGCACCAATTGGTGACTATTATGAGTTTGAGAGCCCAAACATCAGTGTGCCCTCTATGTCCTTTGTTGAAGATGTC
ACCATAGGAGAAGGGGAGTCAATACCTCCTGATTCTCAGTTTATAAAAACGTGGCAGATCCAGAATTCTGGGGCAGATGC
CTGGCCTCCAGGAGTTTGTGTTAAATATGTAAGGGAGACCAAGTTGGACATGTGAACATGGTGATGGTGAGATCGCTAGA
GCCCCAAGAAATTGCAGATGTCAGCATCCAGAAGTGCAGCCCCAGCAGAGCAGGAATGTATCAGGGACAGTGGCAGATGT
GCACTGCTACAGGACTCTACTATGGAGATGTCATATGGGTGATTCTTAGTGTGGAGGTTGGTGGACTTTTAAGAGTAATG
CAGTAGCTGTCATCTTTTGAAACG

Alignment

ORF - retro_mmur_1615 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.65 %
• Parental protein coverage: 66.9 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EGMDVDLDPELMQKFSCLGTTDKDVLISEFQ-LLGFQLNXXXXXXXXXXXXXNLQAAIGAYYDFESPNIS
          EGMDV.LD.ELMQKFSCLGTTDKD.LI.EFQ.LLGFQLN.............NLQA.IG.YY.FESPNIS
Retrocopy EGMDVYLDLELMQKFSCLGTTDKDKLIFEFQRLLGFQLNPPS*AFFLDMTNWNLQAPIGDYYEFESPNIS

Parental  VPSMSFVEDVTIGEGESIPPDTQFIKTWRIQNSGAEAWPPGVCLKYVG-GDQFGHVNMVMVRSLEPQEIA
          VPSMSFVEDVTIGEGESIPPD.QFIKTW.IQNSGA.AWPPGVC.KYV..GDQ.GHVNMVMVRSLEPQEIA
Retrocopy VPSMSFVEDVTIGEGESIPPDSQFIKTWQIQNSGADAWPPGVCVKYVR<GDQVGHVNMVMVRSLEPQEIA

Parental  DVSVQMCSPSRAGMYQGQWRMCTATGLYYGDVIWVILSVEVGGLLGVTQQLSSFET
          DVS.Q.CSPSRAGMYQGQW.MCTATGLYYGDVIWVILSVEVGGLL.V.Q.LSSFET
Retrocopy DVSIQKCSPSRAGMYQGQWQMCTATGLYYGDVIWVILSVEVGGLLRVMQ*LSSFET

Legend:

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

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1615 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1615 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 14 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000034493	1 retrocopy	retro_btau_1343,
Callithrix jacchus	ENSCJAG00000015304	1 retrocopy	retro_cjac_2788,
Homo sapiens	ENSG00000196821	1 retrocopy	retro_hsap_2137,
Gorilla gorilla	ENSGGOG00000000388	1 retrocopy	retro_ggor_1653,
Microcebus murinus	ENSMICG00000013442	1 retrocopy	retro_mmur_1615 ,
Macaca mulatta	ENSMMUG00000022824	1 retrocopy	retro_mmul_2155,
Nomascus leucogenys	ENSNLEG00000008387	2 retrocopies	retro_nleu_1933, retro_nleu_2739,
Oryctolagus cuniculus	ENSOCUG00000024862	2 retrocopies	retro_ocun_1955, retro_ocun_499,
Otolemur garnettii	ENSOGAG00000011264	1 retrocopy	retro_ogar_3245,
Ochotona princeps	ENSOPRG00000009350	1 retrocopy	retro_opri_559,
Pongo abelii	ENSPPYG00000016519	2 retrocopies	retro_pabe_1265, retro_pabe_1928,
Pan troglodytes	ENSPTRG00000018068	1 retrocopy	retro_ptro_1564,
Rattus norvegicus	ENSRNOG00000038883	2 retrocopies	retro_rnor_1748, retro_rnor_1749,
Tursiops truncatus	ENSTTRG00000007822	4 retrocopies	retro_ttru_1601, retro_ttru_1738, retro_ttru_1896, retro_ttru_827,