RetrogeneDB ID: retro_mluc_1133

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429797:5032901..5033517(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000029790
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TSG101
• Ensembl ID: ENSMLUG00000016353
• Aliases: None
• Description: None

Sequence

>retro_mluc_1133
ACAGGGCTGCCAAATACGTCCTACATGCCAGGTATGCCCAGTGGAATCTTTCCATACCCATCCTGAGACCTCTCCGATCC
TAATGATTACCTCGGCTGTTCTTACCCACCTGGTGGTCTGTATCTGCCACAAAAAGTTCCCAATAACCTTCCCAGCCTCC
TGTGAGCACTGCTGGTCCCAGTGGGGATGGCTAATCAGCGAGGACACCTTCCAGGCTTTTCTCATCTCAGTGGTCAGTGA
AAAGCTGAGATGGCAGAAGGAGGAAAAGGACAGCGCCCAGGCAGAGCTCAATGCCTTGAAACGGACAGAGGAGGACCTGA
AACAGGGTCATCAGAAACTCGAAGAGATGGTTATCTGTTTAGATCAAGAAGCAGCTGAGGTTGATAAAAACATAGAACTT
TTGAGAAAGAAGGATGAACTCAGCTCTGCTCTGGAGAAAATGGACAATCAGTCTGAAAACAACGATATTGATGAAGTTAT
CATTCCCACAGCTCCACTATATAAGCAGATCCTAAATCTGTACATAGAGGAAAATGCTATTGAAGACTCTACCTTTTACC
TGGGAGGAGCCTTGAGGCAGAGAGTAATAGACCTGGATGTCTTCTTAAAGCATGTT

Alignment

ORF - retro_mluc_1133 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.52 %
• Parental protein coverage: 53.2 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TGPPNTSYMPGMPSGISSYPSGYPSNPSGYPGCPYPPGGPY-PATTSSQYPSQPPVTTVGPSRDG-TISE
          TG.PNTSYMPGMPSGI..YPS...S.P..Y.GC.YPPGG.Y..AT.SSQ.PSQPPV.T.GPS.DG..ISE
Retrocopy TGLPNTSYMPGMPSGIFPYPS*DLSDPNDYLGCSYPPGGLY<SATKSSQ*PSQPPVSTAGPSGDG<LISE

Parental  DTIRASLISAVSDKLRWRMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKK
          DT..A.LIS.VS.KLRW..KEE.D.AQAELNALKRTEEDLK.GHQKLEEMV..LDQE.AEVDKNIELL.K
Retrocopy DTFQAFLISVVSEKLRWQ-KEEKDSAQAELNALKRTEEDLKQGHQKLEEMVICLDQEAAEVDKNIELLRK

Parental  KDEELSSALEKMENQSENNDIDEVIIPTAPLYKQILNLYAEENAIEDTIFYLGEALRRGVIDLDVFLKHV
          KDE.LSSALEKM.NQSENNDIDEVIIPTAPLYKQILNLY.EENAIED..FYLG.ALR..VIDLDVFLKHV
Retrocopy KDE-LSSALEKMDNQSENNDIDEVIIPTAPLYKQILNLYIEENAIEDSTFYLGGALRQRVIDLDVFLKHV

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_1133 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 5 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000013563	4 retrocopies	retro_btau_1009, retro_btau_698, retro_btau_825, retro_btau_979,
Canis familiaris	ENSCAFG00000009279	1 retrocopy	retro_cfam_1615,
Cavia porcellus	ENSCPOG00000011994	1 retrocopy	retro_cpor_1420,
Myotis lucifugus	ENSMLUG00000016353	2 retrocopies	retro_mluc_1133 , retro_mluc_1713,
Mus musculus	ENSMUSG00000014402	1 retrocopy	retro_mmus_1350,