RetrogeneDB ID: retro_mluc_1713

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429890:2094853..2095986(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

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

Sequence

>retro_mluc_1713
GTGTCTGAGAGCAGCTCAAGAAAACGGTGTCCAAGTACAAATACAGAGACCTAACTGGCGTGAAACTATCAATGTGATTA
CGTTATACAAAGATCTCCAACCTGTATTGGATTCATATGCTTTTAACGATGGCAGTTCCCAGGAAATAATGAATCTCACT
GGAACAGTTCCTGTGCTTTATAGAGGAAATACATATAATATTCCAATATGCCTGCGGCTGCTGGACACATACCCATATAA
CCCCCCTATCTGTTTTGTTAAGCCTACTAGTTCAATGACTATTATAATGGGAAAGCATGTTGATGCAAATGGGAAGATAT
ATCTTTCTTATCTACACGAATGGAAACATCCTCAGTCAGACTTGTTGGGGCTTATTCAGGTCATGATTGTGGTGTTTGGA
GATGAACCTCCAGTCTGCTCCTGACCTACAATTTCAACATCTTATCCATCATACCAGGCAACAGGGCCACCAAATACTTC
CTACATGCAAGGCCTGCCCAGTGGAATCTCTCCATACCCCTCCTGATACCCTTCCAATCCCAGTGGTTACCCAGGCTGTG
CTCACCCACCTGGTGGTCCTTATCCTGCCACAACAAGTTCTCAGTACCCTTCCCAGCCTCCTGTGACCACTGTTGGTCCC
AGTGGGGATGGCACAATCAGTGAGGAAACAATCTGAGCTTCTCTCATTTCAACAGTCAGTGACAACCTGAGATGGCAGAT
GAAGGAGGAAATGGACCGCGCTTAGGCAGAGCTCAATGCCTTGAAACGAACAGAGGAAGACCTGAAAAAAGGTCACCAGA
ATCTAGAAGAGATGGATACCCGTTCAGATCAAGAAGTAGCTGAAGTTGATTTTTAAAAAAACCATAGAACTTTTGAGAAA
GAAGGATGAAGAATTCAGCTCTACTCTGAAAAAAAAAATGGAAAAACAATCTGAAAACAATATTGATGAAGTTATCATTC
CAACAGCCCCACTATATAAACAGATCCTAAATCTGTACGCAGAGAAGAATGCTGTTGAAGGCACTATCTTTTACCTGGAA
GAAGCCTTGAGGTGGGGAGTAATAGACCTGGAGGTCTTGTCCCGTAGACAGTTCCAGCTGAGGGTACTAATGCAAAAAGT
AAAGAGACTGCGG

Alignment

ORF - retro_mluc_1713 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.89 %
• Parental protein coverage: 95.4 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VSES-QLKKMVSKYKYRDLTV-RETINVITLYKDLKPVLDSYVFNDGSSRELMNLTGTVPVLYRGNTYNI
          VSES.QLKK.VSKYKYRDLT..RETINVITLYKDL.PVLDSY.FNDGSS.E.MNLTGTVPVLYRGNTYNI
Retrocopy VSES<QLKKTVSKYKYRDLTG<RETINVITLYKDLQPVLDSYAFNDGSSQEIMNLTGTVPVLYRGNTYNI

Parental  PICLWLLDTYPYNPPICFVKPTSSMTIKTGKHVDANGKIYLPYLHEWKHPQSDLLGLIQVMIVVFGDEPP
          PICL.LLDTYPYNPPICFVKPTSSMTI..GKHVDANGKIYL.YLHEWKHPQSDLLGLIQVMIVVFGDEPP
Retrocopy PICLRLLDTYPYNPPICFVKPTSSMTIIMGKHVDANGKIYLSYLHEWKHPQSDLLGLIQVMIVVFGDEPP

Parental  VFSRPTVSASYPPYQATGPPNTSYMPGMPSGISSYPSGYPSNPSGYPGCPYPPGGPYPATTSSQYPSQPP
          V.S.PT.S.SYP.YQATGPPNTSYM.G.PSGIS.YPS.YPSNPSGYPGC..PPGGPYPATTSSQYPSQPP
Retrocopy VCS*PTISTSYPSYQATGPPNTSYMQGLPSGISPYPS*YPSNPSGYPGCAHPPGGPYPATTSSQYPSQPP

Parental  VTTVGPSRDGTISEDTIRASLISAVSDKLRWRMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQ
          VTTVGPS.DGTISE.TI.ASLIS.VSD.LRW.MKEEMDRA.AELNALKRTEEDLKKGHQ.LEEM.TR.DQ
Retrocopy VTTVGPSGDGTISEETI*ASLISTVSDNLRWQMKEEMDRA*AELNALKRTEEDLKKGHQNLEEMDTRSDQ

Parental  EVAEVD--KN-IELLKKKDEELSSALEKMENQSENNDIDEVIIPTAPLYKQILNLYAEENAIEDTIFYLG
          EVAEVD..KN.IELL.KKDEE.SS.L.........N.IDEVIIPTAPLYKQILNLYAE.NA.E.TIFYL.
Retrocopy EVAEVDF*KN>IELLRKKDEEFSSTLXXXXXXQSENNIDEVIIPTAPLYKQILNLYAEKNAVEGTIFYLE

Parental  EALRRGVIDLDVFLK---HVRLLSRKQFQLR
          EALR.GVIDL.V........R.L..K...LR
Retrocopy EALRWGVIDLEVLSRRQFQLRVLMQKVKRLR

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_1713 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,