RetrogeneDB ID: retro_mmur_1560

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_82986:128..1138(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX18
• Ensembl ID: ENSMICG00000017590
• Aliases: None
• Description: DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 [Source:HGNC Symbol;Acc:2741]

Sequence

>retro_mmur_1560
CAGTCTGAAGAAACAAGCGCTGAGGCACAAGAAGAAACAGAAAACAAGGTGGAAAGCCAGATACTGAGGAGGATGACAAT
GAAGTGCTGAGCCTGCCCCTGGAACTGACAGGAGCTTTTGAGGATACTTCATTCACTTCTCTAACTAATCTTGTCAATGC
AAACACTCTGAAGGCAATAAAAGAAATGGGCTTTATAAACAAGACTGAAATTCAACATAAAAGTATCACGCCACTTCTGG
AAGGCAGGGATCTTCTAGCAGCTGCAAAAACAGGCAGTGGCAGGACCCTGGCTTTTCTTATTTCTGCTGTTGAACTCATT
GTTAAGTTAAAGTTCATGCCCAGAAATGGAACAGGAGTCCTTATTCTCTCACCAACTAGAGAACTGGCCATGCAGACTTT
CAGAGTTCTTAAGGAGCTGATGACTCACCATGTGCATACATACGGGTTAATAATGGGTGGCAGTAACAGATCTGCTGAAG
CACAGAAACTTGCTCATGGGATCAACATCACTGTGGCCATACCAGGCCATCTCCTAGACCACATGCAGAATACCCCAGGG
TTTATGTATAAAAATCTACAGTGTCTGGTTATTGATGAGGCTGATCGTATCTTGGATGTTGGGTTTGAAGAGGAATTAAA
GCAAATTATTAAACTTCTGCCAATACGCAGACAAACTATGCTCTTCTCTGCCACACAAACTCGAAAAGTTGAAGACTTGG
CAAGGATTTCTCTGAAAAAGGAGCCATTGTATGTTGGTGTTGATGATGATAAAACTAATGCAACAGTGGATGGTCTTGAG
CAGGGATATGTTGTTTGTCCCTCTGAAAAGAGATTCCTGCTGCTCTTTACATTCCTTAAGAAGAACCGAAAGAAGAAACT
GATGGTCTTCTTTTCATCTTGTATGTCTGTGAAATACCACTATGAGTTGCTGAACTACATTGATTTGCCTGTCTTGGCCA
TTCATGGAAGGCAGAAGCACAATAAGCGTACAACCACATTCTTCCAGTTC

Alignment

ORF - retro_mmur_1560 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.27 %
• Parental protein coverage: 50.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QSEETSAEAQEETENKVE-KPDTEEDDSEVPSLPLGLTGAFEDTSFTSLTNLVNENTLKAIKEMGFTNMT
          QSEETSAEAQEETENKVE.KPDTEEDD.EV.SLPL.LTGAFEDTSFTSLTNLVN.NTLKAIKEMGF.N.T
Retrocopy QSEETSAEAQEETENKVE<KPDTEEDDNEVLSLPLELTGAFEDTSFTSLTNLVNANTLKAIKEMGFINKT

Parental  EIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLKFMPRNGTGVLILSPTRELAMQTFGVLKE
          EIQHKSI.PLLEGRDLLAAAKTGSG.TLAFLI.AVELIVKLKFMPRNGTGVLILSPTRELAMQTF.VLKE
Retrocopy EIQHKSITPLLEGRDLLAAAKTGSGRTLAFLISAVELIVKLKFMPRNGTGVLILSPTRELAMQTFRVLKE

Parental  LMTHHVHTYGLIMGGSNRSAEAQKLANGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGF
          LMTHHVHTYGLIMGGSNRSAEAQKLA.GINI.VA.PG.LLDHMQNTPGFMYKNLQCLVIDEADRILDVGF
Retrocopy LMTHHVHTYGLIMGGSNRSAEAQKLAHGINITVAIPGHLLDHMQNTPGFMYKNLQCLVIDEADRILDVGF

Parental  EEELKQIIKLLPIRRQTMLFSATQTRKVEDLARISLKKEPLYVGVDDDKTNATVDGLEQGYVVCPSEKRF
          EEELKQIIKLLPIRRQTMLFSATQTRKVEDLARISLKKEPLYVGVDDDKTNATVDGLEQGYVVCPSEKRF
Retrocopy EEELKQIIKLLPIRRQTMLFSATQTRKVEDLARISLKKEPLYVGVDDDKTNATVDGLEQGYVVCPSEKRF

Parental  LLLFTFLKKNRKKKLMVFFSSCMSVKYHYELLNYIDLPVLAIHGRQKQNKRTTTFFQF
          LLLFTFLKKNRKKKLMVFFSSCMSVKYHYELLNYIDLPVLAIHGRQK.NKRTTTFFQF
Retrocopy LLLFTFLKKNRKKKLMVFFSSCMSVKYHYELLNYIDLPVLAIHGRQKHNKRTTTFFQF

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_1560 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1560 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 34 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000021414	5 retrocopies	retro_cjac_2309, retro_cjac_2743, retro_cjac_4179, retro_cjac_644, retro_cjac_753,
Echinops telfairi	ENSETEG00000017166	2 retrocopies	retro_etel_1919, retro_etel_297,
Homo sapiens	ENSG00000088205	6 retrocopies	retro_hsap_1361, retro_hsap_1579, retro_hsap_3223, retro_hsap_3561, retro_hsap_608, retro_hsap_834,
Gorilla gorilla	ENSGGOG00000028420	4 retrocopies	retro_ggor_1201, retro_ggor_2189, retro_ggor_2402, retro_ggor_535,
Microcebus murinus	ENSMICG00000017590	1 retrocopy	retro_mmur_1560 ,
Myotis lucifugus	ENSMLUG00000017607	1 retrocopy	retro_mluc_2279,
Macaca mulatta	ENSMMUG00000021343	1 retrocopy	retro_mmul_2192,
Monodelphis domestica	ENSMODG00000000533	1 retrocopy	retro_mdom_414,
Nomascus leucogenys	ENSNLEG00000011769	4 retrocopies	retro_nleu_1377, retro_nleu_1396, retro_nleu_266, retro_nleu_437,
Pongo abelii	ENSPPYG00000012796	4 retrocopies	retro_pabe_1128, retro_pabe_1301, retro_pabe_2670, retro_pabe_744,
Pan troglodytes	ENSPTRG00000012391	5 retrocopies	retro_ptro_1064, retro_ptro_2174, retro_ptro_2419, retro_ptro_448, retro_ptro_933,