RetrogeneDB ID: retro_mluc_974

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429786:3296381..3297166(-)
• Located in intron of: ENSMLUG00000017663

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARPC1B
• Ensembl ID: ENSMLUG00000010933
• Aliases: None
• Description: None

Sequence

>retro_mluc_974
ATGGCCTACCACAGCTTCCTGATGGAGCCCATCAGCTGCCACGCCTGGAACAAGGACCGCACACAGATTGCCATCTGCCC
CAACAACCATGAGGTGCACATCTATGAGAAGAGTAGAGCCAAGTGGGTCAAGGTGCAAGAGCTCAAGGAGCACAACGGGC
AGGTGACAGGCATTGACTGGGCCCCTGAGAGTAACCGCATTGTGACCTGCGGCACAGACCGCAATGCGTATGTGTGGACA
CTGAAGGGCTGCACGTGGAAGCCCACCCTTGTCATTCTGCGGATCAACCGGGCTGCTCGCTGTGTGTGCTGGGCCCCCAA
TGAAAACAAGTTCGCTGTGGGCAGCGGCTCCTGTGTCATCTCCATCTGCTATTTCGAACAGGAAAATGACTGTGGGTGTG
CAAGCACATCAAGAAGCCCATTCGCTCCACCATCCTCAGCATGGACTGGCACCCCAACAACGTGCTCCTGGCCGCAGGCT
CCTGCAACTTCAAGTGCCGGATATTCTCAGCCTACATAAAGGAAGTGGAGGAGCGAACAGCACCCACCCCATGGGGCTCC
AAGATGCCTTTCGGGGAGCTGATGTGCGAGTCCAGCAGTAACTGCGGATGGGTGTACGGTGTCTGCTTTTCAGCCAGTGG
CAGACGCGTGGCCTGGGTCAGCCATGACAGCACGGTGTGCCTGGCTGATGCTGACAAGAAGATGGCAGTCACAACTCTGG
CCTCTGAAACGCTGCCACTGCTGGCCGTGACTTTCATCACAGAAAACAGTCTGGTGGCTGCGGGC

Alignment

ORF - retro_mluc_974 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.07 %
• Parental protein coverage: 70.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAYHSFLMEPISCHAWNKDRTQIAICPNNHEVHIYEKSGAKWAKVHELKEHNGQVTGIDWAPESNRIVTC
          MAYHSFLMEPISCHAWNKDRTQIAICPNNHEVHIYEKS.AKW.KV.ELKEHNGQVTGIDWAPESNRIVTC
Retrocopy MAYHSFLMEPISCHAWNKDRTQIAICPNNHEVHIYEKSRAKWVKVQELKEHNGQVTGIDWAPESNRIVTC

Parental  GTDRNAYVWTLKGRTWKPTLVILRINRAARCVRWAPNENKFAVGSGSRVISICYFEQEND-WWVCKHIKK
          GTDRNAYVWTLKG.TWKPTLVILRINRAARCV.WAPNENKFAVGSGS.VISICYFEQEND..WVCKHIKK
Retrocopy GTDRNAYVWTLKGCTWKPTLVILRINRAARCVCWAPNENKFAVGSGSCVISICYFEQEND<LWVCKHIKK

Parental  PIRSTVLSLDWHPNNVLLAAGSCDFKCRIFSAYIKEVEERPAPTPWGSKMPFGELMFESSSSCGWVHGVC
          PIRST.LS.DWHPNNVLLAAGSC.FKCRIFSAYIKEVEER.APTPWGSKMPFGELM.ESSS.CGWV.GVC
Retrocopy PIRSTILSMDWHPNNVLLAAGSCNFKCRIFSAYIKEVEERTAPTPWGSKMPFGELMCESSSNCGWVYGVC

Parental  FSASGSRVAWVSHDSTVCLADADKKMAVTTLASETLPLLAVTFITENSLVAAG
          F...................DADKKMAVTTLASETLPLLAVTFITENSLVAAG
Retrocopy FXXXXXXXXXXXXXXXXXXXDADKKMAVTTLASETLPLLAVTFITENSLVAAG

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_974 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 13 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000046248	2 retrocopies	retro_btau_1547, retro_btau_473,
Canis familiaris	ENSCAFG00000015081	1 retrocopy	retro_cfam_1568,
Callithrix jacchus	ENSCJAG00000015849	1 retrocopy	retro_cjac_2365,
Echinops telfairi	ENSETEG00000009924	2 retrocopies	retro_etel_1076, retro_etel_1275,
Gorilla gorilla	ENSGGOG00000013186	2 retrocopies	retro_ggor_1337, retro_ggor_1455,
Microcebus murinus	ENSMICG00000017424	1 retrocopy	retro_mmur_602,
Myotis lucifugus	ENSMLUG00000010912	1 retrocopy	retro_mluc_1432,
Myotis lucifugus	ENSMLUG00000010933	1 retrocopy	retro_mluc_974 ,
Mustela putorius furo	ENSMPUG00000016522	1 retrocopy	retro_mputfur_1578,
Mus musculus	ENSMUSG00000029622	2 retrocopies	retro_mmus_1340, retro_mmus_3623,
Otolemur garnettii	ENSOGAG00000010872	2 retrocopies	retro_ogar_2380, retro_ogar_3087,
Rattus norvegicus	ENSRNOG00000000991	2 retrocopies	retro_rnor_1105, retro_rnor_967,
Sus scrofa	ENSSSCG00000007625	1 retrocopy	retro_sscr_374,