RetrogeneDB ID: retro_mluc_2279

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430171:636828..637854(-)
• Located in intron of: ENSMLUG00000015238

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX18
• Ensembl ID: ENSMLUG00000017607
• Aliases: None
• Description: None

Sequence

>retro_mluc_2279
GCAGCTGCAAAAACTGGCAGTGGCAAAACCCTGGCCTTTCTCATCCCTGCAGCTGAACTCATTGTTAAGTTAAAGTTTAT
GCCCAGGAATGGAACAGGAGTACTTATTCTCTCCCCTACTAGGGAACTGGCCATGCAGACTTTTGGTGTTCGTAAAGAGC
TGATGACACACCACGTTCACACATACGGGTTGATAGTGGGCGGCAGCAACAGGTCTGCTGAGGCACAGAAGCTTGCTAAT
GGGATCAACATCATTGTGGCCACACTAGGCCGCCTCGTGGACCATATGCAGAATACTCCAGGGTTTATGTATAAAATCCT
GCAGTGTCTGGTTATTGATGAGGCTGATCGTATCTGGGATGTCGGGTTTGAAGAGGAGTTAAAGCAAATTATTAAACTTC
TGCCAAAACGCAGACAGACCATGCTCTTTTCTGCCACACAAACTCGAAGAGTTGAGGACCTGGTGAGGATTTCTCAGAAA
AAGGAGCCATTGTATGTTGGTGTTGATGATGATAAAACTAATGCAACAGTGGATGGTCTTGAGCAGGGATACGTTGTTTG
TCTTTTCCGAGAAAAGATTCCTCCTGCTCTTCACATTCCTTTAGAAGAACTGGAAGAAGAAACTCATGGTCTTCTCATCT
TGCATGTCCGTGAAATACCACTATGAGTTGCTGAACTACATCGATTTGCCTGTCTTGGCCATTCATGGAAGGCAGAAGCA
AAATAAGCGTACGACCACATTCCTCCAGTTCTGCAGTGCGGATACGGGGATATTGTTGTGCACGGACGTGGAAGCTAGAG
GGCTGGACATTCCTGAAGTCGACTGGATTGTTCAGTATGACCCTCCAGATGACCCCAAGGAATACATTCATCGATGGGAA
GAACTGCCAGGGGCCTAAACGGAAGGGGGCATGCCTTGCACATTTTGCGTCCTGAAGAATTGGGTTTCCTTCGTTACCTG
AAGCAATCCAAGGTTCCATTAAGTGAATTTGAGTTTTCCTGGTCCAAAATTTCTGACATTGTCTCA

Alignment

ORF - retro_mluc_2279 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.62 %
• Parental protein coverage: 51.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AAAKTGSGKTLAFLIPAVELIVKLKFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSN
          AAAKTGSGKTLAFLIPA.ELIVKLKFMPRNGTGVLILSPTRELAMQTFGV.KELMTHHVHTYGLI.GGSN
Retrocopy AAAKTGSGKTLAFLIPAAELIVKLKFMPRNGTGVLILSPTRELAMQTFGVRKELMTHHVHTYGLIVGGSN

Parental  RSAEAQKLANGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQT
          RSAEAQKLANGINIIVAT.GRL.DHMQNTPGFMYK.LQCLVIDEADRI.DVGFEEELKQIIKLLP.RRQT
Retrocopy RSAEAQKLANGINIIVATLGRLVDHMQNTPGFMYKILQCLVIDEADRIWDVGFEEELKQIIKLLPKRRQT

Parental  MLFSATQTRRVEDLARISLKKEPLYVGVDDDKTNATVDGLEQGYVVCP-SEKRFLLLFTFLKKNRKKKLM
          MLFSATQTRRVEDL.RIS.KKEPLYVGVDDDKTNATVDGLEQGYVVC..SEKRFLLLFTFL.KN.KKKLM
Retrocopy MLFSATQTRRVEDLVRISQKKEPLYVGVDDDKTNATVDGLEQGYVVCL>SEKRFLLLFTFL*KNWKKKLM

Parental  VFFSSCMSVKYHYELLNYIDLPVLAIHGRQKQNKRTTTFFQFCNADTGILLCTDVAARGLDIPEVDWIVQ
          V.FSSCMSVKYHYELLNYIDLPVLAIHGRQKQNKRTTTF.QFC.ADTGILLCTDV.ARGLDIPEVDWIVQ
Retrocopy V-FSSCMSVKYHYELLNYIDLPVLAIHGRQKQNKRTTTFLQFCSADTGILLCTDVEARGLDIPEVDWIVQ

Parental  YDPPDDPKEYIHR-VGRTARGLNGRGHALLILRPEELGFLRYLKQSKVPLSEFEFSWSKISDIQS
          YDPPDDPKEYIHR..GRTARGLNGRGHAL.ILRPEELGFLRYLKQSKVPLSEFEFSWSKISDI.S
Retrocopy YDPPDDPKEYIHR<MGRTARGLNGRGHALHILRPEELGFLRYLKQSKVPLSEFEFSWSKISDIVS

Legend:

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

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_2279 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 15 parental genes, and 44 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004950	2 retrocopies	retro_cfam_1404, retro_cfam_2116,
Choloepus hoffmanni	ENSCHOG00000004191	6 retrocopies	retro_chof_1221, retro_chof_1539, retro_chof_1636, retro_chof_2416, retro_chof_2418, retro_chof_721,
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,
Mus musculus	ENSMUSG00000001674	1 retrocopy	retro_mmus_2865,
Nomascus leucogenys	ENSNLEG00000011769	4 retrocopies	retro_nleu_1377, retro_nleu_1396, retro_nleu_266, retro_nleu_437,
Ochotona princeps	ENSOPRG00000001701	1 retrocopy	retro_opri_1039,
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,