RetrogeneDB ID: retro_mluc_1096

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429794:1587732..1588401(-)
• Located in intron of: ENSMLUG00000000718

Retrocopy information

• Ensembl ID: ENSMLUG00000027661
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TMEM106C
• Ensembl ID: ENSMLUG00000017734
• Aliases: None
• Description: None

Sequence

>retro_mluc_1096
GAGGATGTGCTGGGTGAACGGGAGCAGGAAGATGCCACTGCCCAGTTCCCACACGTGGAGTTCACTGGGCGGGACAGCAT
CCCCTGCCTCTCCTGCCCAGGGACAGGCTACATCCGACAGAGCAAGTAAATGAGCTGGTGGCTTTGATCCCACTTGACCA
GAGATTGTGCGCTCGGAGAACCAAGCAGTATGGCCTCCTGTCTGTCCTGCTCTGTCTCCTGGCATTTGGGTTAGTGATTT
TCTTCCTATTTCCAAATTCAGTCCTTGTGGACGACGACGGCATCGTGGGAAAAGTCACATTTAATAAGCAGGACTCCCTT
GTAATCCTCACTGTCAAGGCCACCCTGAAAACCAGGGCCTTCCACTTCTTCTCTGTGGCAGTGGCCAGCCTGTCCAACCA
AGTTCAGTGTGTGAACACAGTGGTTGGTCATATGTGACAGCTAACATCTCCCACATTCCACCTTGGAGCGAGCTGGTGAG
TGTGACGGCGCAGGCAGAGGTGGGACGGCCATTTTCCTGTGTGGACTTCGGCACATTGCCCAGTGTCCAGGGGTACAACG
TAGTGACCTTCATGAGAACTTCAGTTAAGATCTCATACATTGGCCACATGACCTAGAGCTCCTTGGAGACACATCACTAT
GTGGATTGTGGACAAATTCCTCAGCTGTT

Alignment

ORF - retro_mluc_1096 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.46 %
• Parental protein coverage: 91.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EDMLDEREQEEAIAQFPYVEFTGRDSITCLTCQGTGYI-PTEQVNELVALIPHSDQRLRPQRTKQYVLLS
          ED.L.EREQE.A.AQFP.VEFTGRDSI.CL.C.GTGYI.PTEQVNELVALIP..DQRL...RTKQY.LLS
Retrocopy EDVLGEREQEDATAQFPHVEFTGRDSIPCLSCPGTGYI<PTEQVNELVALIP-LDQRLCARRTKQYGLLS

Parental  VLLCLLAFGLVAFFLFPHSVLVDDDGIRMMNVTFNKQDSLVILAIKATLKIRNSNFYSVAVTSLSSQVQY
          VLLCLLAFGLV.FFLFP.SVLVDDDGI....VTFNKQDSLVIL..KATLK.R...F.SVAV.SLS.QVQ.
Retrocopy VLLCLLAFGLVIFFLFPNSVLVDDDGI-VGKVTFNKQDSLVILTVKATLKTRAFHFFSVAVASLSNQVQC

Parental  MNTVVG-SYMTTNVSLIPPRSEQLVDFLVQAEMGGPFSYVYFFCTLPDIQVHNIVIFLRTSVKISYIGHM
          .NTVVG.SY.T.N.S.IPP.SE.LV....QAE.G.PFS.V..F.TLP..Q..N.V.F.RTSVKISYIGHM
Retrocopy VNTVVG<SYVTANISHIPPWSE-LVSVTAQAEVGRPFSCV-DFGTLPSVQGYNVVTFMRTSVKISYIGHM

Parental  TQSSLETHHYVDCG-TNFSAV
          T.SSLETHHYVDCG.TN.SAV
Retrocopy T*SSLETHHYVDCG<TNSSAV

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_1096 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000008335	1 retrocopy	retro_cpor_1124,
Equus caballus	ENSECAG00000020351	1 retrocopy	retro_ecab_660,
Echinops telfairi	ENSETEG00000010370	1 retrocopy	retro_etel_173,
Myotis lucifugus	ENSMLUG00000017734	1 retrocopy	retro_mluc_1096 ,
Pteropus vampyrus	ENSPVAG00000014352	1 retrocopy	retro_pvam_562,
Sus scrofa	ENSSSCG00000028397	1 retrocopy	retro_sscr_473,
Tarsius syrichta	ENSTSYG00000001184	1 retrocopy	retro_tsyr_1263,