RetrogeneDB ID: retro_mluc_2252

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430147:1074529..1075088(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VDAC2
• Ensembl ID: ENSMLUG00000007500
• Aliases: None
• Description: None

Sequence

>retro_mluc_2252
CCCACGGCCTTGCCATGGCCACCAGCACATAGAGCTGCACATGCTAGAAATCTTTTCAAAAACAAATTTGGTTTTGGGTT
GATGAAACTGGGTGTAAAACAAAGTTATACAGTGACATGGAATTCTCAACACCTGGTTCATCTCATACAGACACTGGTAA
AGTTACTGGGACCTTGGAGACCTAACATAAATGGTGTGAATGTGGCCTCCTTTCACAGGGAATGGAACACTGACGACACT
GGGAACAGAAATCTCAATTGAAGACTAGATTTGTCACAGCTTGAAACTGACATTTAATACCACCTCTTCACCAAGCCCGG
GAAAGAAAAGTGGTAAAATCAAGTCTTCTCACAAGAGGGAGTGTGTAAACCTTGGATGTGATGTTGACTTTGATTGTGCT
GGACCTGCGATCCATGGTTCATCTGTCTCTGGTTGTGAGGGCTGGCTTGCTGGGTACCAGATGACCCTTGACAGTGCCAG
ATCAAAGCTGACAAGGACTCGCTTTGCGGTGGGCTTCAGGACTGGGGGCTTCCAGCTGCACACTGATGTCAATGATGGG

Alignment

ORF - retro_mluc_2252 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.0 %
• Parental protein coverage: 63.95 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PMCIPPSYADLGKAARDIFNKGFGFGLVKLDVK-TKSCSGVEFSTSGSSNTDTGKVTGTLETKYKWCEYG
          P...P...A.....AR..F...FGFGL.KL.VK.TK..S..EFST.GSS.TDTGKVTGTLET..KWCE.G
Retrocopy PTALPWPPAHRAAHARNLFKNKFGFGLMKLGVK<TKLYSDMEFSTPGSSHTDTGKVTGTLET*HKWCECG

Parental  LT-FTEKWNTDNTLGTEIAIEDQICQGLKLTFDTTFSPNTGKKSGKIKSSYKRECINLGCDVDFDFAGPA
          L..FT....T..TLGTEI.IED.IC..LKLTF.TT.SP..GKKSGKIKSS.KREC.NLGCDVDFD.AGPA
Retrocopy LL<FTGN-GTLTTLGTEISIED*ICHSLKLTFNTTSSPSPGKKSGKIKSSHKRECVNLGCDVDFDCAGPA

Parental  IHGSAVFGYEGWLAGYQMTFDSAKSKLTRNNFAVGYRTGDFQLHTNVNDG
          IHGS.V.G.EGWLAGYQMT.DSA.SKLTR..FAVG.RTG.FQLHT.VNDG
Retrocopy IHGSSVSGCEGWLAGYQMTLDSARSKLTRTRFAVGFRTGGFQLHTDVNDG

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_2252 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 16 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012975	2 retrocopies	retro_btau_1252, retro_btau_1389,
Canis familiaris	ENSCAFG00000015398	1 retrocopy	retro_cfam_376,
Callithrix jacchus	ENSCJAG00000001145	1 retrocopy	retro_cjac_2385,
Felis catus	ENSFCAG00000026943	3 retrocopies	retro_fcat_1385, retro_fcat_804, retro_fcat_815,
Homo sapiens	ENSG00000165637	1 retrocopy	retro_hsap_2114,
Gorilla gorilla	ENSGGOG00000005861	5 retrocopies	retro_ggor_1677, retro_ggor_1949, retro_ggor_2934, retro_ggor_3036, retro_ggor_425,
Macropus eugenii	ENSMEUG00000012995	1 retrocopy	retro_meug_30,
Myotis lucifugus	ENSMLUG00000007500	2 retrocopies	retro_mluc_1710, retro_mluc_2252 ,
Mustela putorius furo	ENSMPUG00000003268	1 retrocopy	retro_mputfur_354,
Mus musculus	ENSMUSG00000021771	1 retrocopy	retro_mmus_2667,
Otolemur garnettii	ENSOGAG00000030039	1 retrocopy	retro_ogar_2116,
Rattus norvegicus	ENSRNOG00000013505	1 retrocopy	retro_rnor_2652,
Sarcophilus harrisii	ENSSHAG00000012048	1 retrocopy	retro_shar_325,
Tupaia belangeri	ENSTBEG00000001946	4 retrocopies	retro_tbel_1504, retro_tbel_1541, retro_tbel_1885, retro_tbel_4597,
Tarsius syrichta	ENSTSYG00000004764	1 retrocopy	retro_tsyr_14,
Vicugna pacos	ENSVPAG00000008068	1 retrocopy	retro_vpac_156,