RetrogeneDB ID: retro_mluc_2205

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430099:181527..182107(-)
• Located in intron of: ENSMLUG00000000709

Retrocopy information

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

Parental gene information

• Parental gene symbol: LSM12
• Ensembl ID: ENSMLUG00000006391
• Aliases: None
• Description: None

Sequence

>retro_mluc_2205
ATGGTGGCTCCTCCGGGCAAATACTTCGGCATTAGGGGCCAGGTGTCCTGCCAGACATGCCAGGAGCAGCGGCTTCAGGG
CAGGGCAATACCCTTCGACTGCCAATCCAAAACGCTGGCTTTAAAATGTCCCTCTTCTAGTGGAAAGCCCAAGCATGTAG
ACATGTTGGTCATAAAGTTATAATATGTTTCAAAAGTGGAAATAATTAATGACCCAACAGAAACTCCTTCTCCCCTAGCA
TCACTCAATGTGAGTAAACTTGCCAGCAAAGCATGGACAGAGGAGGAAAACTGAGCCAGGCCTATGCAGTCAGCGCTGGT
GTCTCTCTGGAGGGCCAGCAGCCCTTCCAGACCATTCACAAGACCATTAACGACTTTAAATGGCAAGAAAAAAACATCAC
AGTCATGGAAGAAGCTGTGATTACACCCTCATATTAAGTGGAAACCCGTAAAGCAAAGAGGAGAGTGCACTGAGCCATGT
ACACAAAATAGTTGGAAAACATGTTAGAGATGTGGAAAGCCAAAAGGTATTGCAGCGTTCACAAGCCCAGCAACCACAGG
AGGAGGCTGCCCTGTCGTCC

Alignment

ORF - retro_mluc_2205 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.17 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAPPGEYFSVGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVEIIN
          M.APPG.YF....QVSC.TCQEQRLQG....FD.QSK.LALKCPSSSGKP.H.D.L.I.L.YVS.VEIIN
Retrocopy MVAPPGKYFGIRGQVSCQTCQEQRLQGRAIPFDCQSKTLALKCPSSSGKPKHVDMLVIKL*YVSKVEIIN

Parental  DRTETPPPLASLNVSKLASKARTEKEE-KLSQAYAISAGVSLEGQQLFQTIHKTIKDCKWQEKNIIVMEE
          D.TETP.PLASLNVSKLASKA.TE.EE.KLSQAYA.SAGVSLEGQQ.FQTIHKTI.D.KWQEKNI.VMEE
Retrocopy DPTETPSPLASLNVSKLASKAWTE-EE<KLSQAYAVSAGVSLEGQQPFQTIHKTINDFKWQEKNITVMEE

Parental  VVITPPYQVENCK-GKEGSALSHVRKIVEKHFRDVESQKILQRSQAQQPQKEAALSS
          .VITP.Y.VE..K..KE.SALSHV.KIV.KH.RDVESQK.LQRSQAQQPQ.EAALSS
Retrocopy AVITPSY*VETRK<SKEESALSHVHKIVGKHVRDVESQKVLQRSQAQQPQEEAALSS

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_2205 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001198	1 retrocopy	retro_chof_1429,
Dipodomys ordii	ENSDORG00000016381	1 retrocopy	retro_dord_596,
Erinaceus europaeus	ENSEEUG00000002419	1 retrocopy	retro_eeur_603,
Echinops telfairi	ENSETEG00000008374	1 retrocopy	retro_etel_21,
Macropus eugenii	ENSMEUG00000007501	1 retrocopy	retro_meug_1462,
Myotis lucifugus	ENSMLUG00000006391	1 retrocopy	retro_mluc_2205 ,
Macaca mulatta	ENSMMUG00000006804	1 retrocopy	retro_mmul_3,
Oryzias latipes	ENSORLG00000011310	1 retrocopy	retro_olat_12,
Pteropus vampyrus	ENSPVAG00000013706	1 retrocopy	retro_pvam_172,
Tupaia belangeri	ENSTBEG00000012523	2 retrocopies	retro_tbel_3062, retro_tbel_60,