RetrogeneDB ID: retro_mluc_1948

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429959:170361..171036(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000025349
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MDH2
• Ensembl ID: ENSMLUG00000017795
• Aliases: None
• Description: Malate dehydrogenase [Source:UniProtKB/TrEMBL;Acc:G1PXQ3]

Sequence

>retro_mluc_1948
CTCTCTGCTCTTGCCTTGCCAAGCTGGCGCCACTCTCTGCCGCAGCTTCAGCACCTAGGCCGCCAGAGCAATGCTAAAAT
AGCTGTGCCCAGGGCTTCTGGAGGAATTGGGCAGCCCTTTTCGCTTCTCCTGAACAATAGCCCTTTGGTGAGCCGCCTGA
CGCTCTACAATATTGCTCATATACCAGGAGTGGCCACAGATCTGAGCCACATAGAGACCAGTGTGACTGTGAAAGGCTAC
CTTAGACGCGAGAAGCTGGCAAACTGCCTGAAAGGTTGTGATTGGTGGTTATTCCAGCTGGAGTCCCAGGCATGACATGG
GATGACCTGTTCAACACCAATGATACAATTGTGGTCACCTTGACTGCTGCCTGTGCCCAGCATTGCCCTGAGGCTGTGAT
CTGCATCATTTCAAATTCAGGTAACTTCACCATCCCATCACATCATAAGGTTTCAAGAAACATGGAGTGTACAGCGCCAA
TAAGACCTCTGGGGTGACAACCCTGGACAATGTCAGAGCCAACACTTTCATCGCAGAACTAAAAGGTTTGGATCCAGCTG
GAGTCAATGTTCCTGTCTTTGACAATCATGCTGGAAATACTATCATCCCCTGATCACTCAGTGCACTGCCAAGGTGGACT
TTTCTCAGGACCAGCTGACAACCTTCACTGGCCAG

Alignment

ORF - retro_mluc_1948 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.69 %
• Parental protein coverage: 67.46 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LSALARPAGA-ALRRSFSTSAQNNAKVAVLGASGGIGQPLSLLLKNSPLVSRLTLYDIAHTPGVAADLSH
          LSALA.P.....L........Q.NAK.AV..ASGGIGQP.SLLL.NSPLVSRLTLY.IAH.PGVA.DLSH
Retrocopy LSALALPSWRHSLPQLQHLGRQSNAKIAVPRASGGIGQPFSLLLNNSPLVSRLTLYNIAHIPGVATDLSH

Parental  IETRASVKGYLGPEQLPDCLKGCD-LVVIPAGVPRKPGMTRDDLFNTNATIVANLTAACAQNCPEAMICV
          IET...VKGYL..E.L..CLKGCD.LVVIPAGVP...GMT.DDLFNTN.TIV..LTAACAQ.CPEA.IC.
Retrocopy IETSVTVKGYLRREKLANCLKGCD<LVVIPAGVP---GMTWDDLFNTNDTIVVTLTAACAQHCPEAVICI

Parental  IANPVNSTI-PITSEVFKKHGVYNPNKIFGVTTLDVVRANAFVAELKGLDPARVNVPVIGGHAGKTII-P
          I.N..N.TI.PITS..FKKHGVY..NK..GVTTLD.VRAN.F.AELKGLDPA.VNVPV...HAG.TII.P
Retrocopy ISNSGNFTI<PITS*GFKKHGVYSANKTSGVTTLDNVRANTFIAELKGLDPAGVNVPVFDNHAGNTII<P

Parental  LISQCTPKVEFPQDQLTTLTGR
          LI.QCT.KV.F.QDQLTT.TG.
Retrocopy LITQCTAKVDFSQDQLTTFTGQ

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_1948 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010846	1 retrocopy	retro_amel_361,
Canis familiaris	ENSCAFG00000013515	2 retrocopies	retro_cfam_182, retro_cfam_41,
Myotis lucifugus	ENSMLUG00000017795	1 retrocopy	retro_mluc_1948 ,
Monodelphis domestica	ENSMODG00000013680	1 retrocopy	retro_mdom_1711,
Mustela putorius furo	ENSMPUG00000016000	2 retrocopies	retro_mputfur_1607, retro_mputfur_478,
Mus musculus	ENSMUSG00000019179	1 retrocopy	retro_mmus_2451,
Otolemur garnettii	ENSOGAG00000009705	1 retrocopy	retro_ogar_3068,
Pteropus vampyrus	ENSPVAG00000003397	1 retrocopy	retro_pvam_981,
Tupaia belangeri	ENSTBEG00000003190	1 retrocopy	retro_tbel_440,
Tursiops truncatus	ENSTTRG00000014834	1 retrocopy	retro_ttru_1550,
Drosophila melanogaster	FBgn0262559	2 retrocopies	retro_dmel_54, retro_dmel_76,