RetrogeneDB ID: retro_mluc_1641

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429876:584205..584718(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB7A
• Ensembl ID: ENSMLUG00000008454
• Aliases: None
• Description: None

Sequence

>retro_mluc_1641
AAATTCAAAGCCACAAAAGGAACAGACTTTCTGACAAAGGAGGTGATGGTGGGTGACAGACTAGTTACTATGCAGATTGG
GACCTGCAGGACAGGAATGGTTCCAGTCTCATGGTGTGGCCTTTTCCAGCGGTGCAGACTGCTGTGTTCTGGTATTTGAT
GTGACTGCCCCCAACACATTCAAAACCCCTGACGGTTGGAGAGATGAGTTTCTCATCCAGGTCAGTCCTCGGGACCCTGA
AAACTTTCCTTTCGTGGTGTTGGGAAATAAGATTGACCTTGAAAGCGGACAAATGGCCACAAAACAAGCACAGGCCTGGT
GCTGCAGCAAAAACAACAGCCCCTACCTCAAGACCAGAGCCAAGGAGGCCATCAGCGTGGAGTAGGCATTCCAGATGATC
GCACGGAATGCACTTAATAGGGAACAGAGATGGAGCCTTACTATGAATTTTCTGAACCCACCAAACTGGACAAGAATGTC
CAGGCCAAAGCCTCAGCGGAAAGCTACCGTTGC

Alignment

ORF - retro_mluc_1641 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.71 %
• Parental protein coverage: 83.09 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QYKATIGADFLTKEVMVDDRLVTMQI-WDT-AGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWR
          ..KAT.G.DFLTKEVMV.DRLVTMQI.WD..AGQE.FQS.GVAF..GADCCVLVFDVTAPNTFKT.D.WR
Retrocopy KFKATKGTDFLTKEVMVGDRLVTMQI<WDL<AGQEWFQSHGVAFSSGADCCVLVFDVTAPNTFKTPDGWR

Parental  DEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNA
          DEFLIQ.SPRDPENFPFVVLGNKIDLE..Q.ATK.AQAWC.SKNN.PY..T.AKEAI.VE.AFQ.IARNA
Retrocopy DEFLIQVSPRDPENFPFVVLGNKIDLESGQMATKQAQAWCCSKNNSPYLKTRAKEAISVE*AFQMIARNA

Parental  LKQE-TEVELYNEFPEPIKLDKNDRAKASAESCSC
          L..E.TE.E.Y.EF.EP.KLDKN..AKASAES..C
Retrocopy LNRE<TEMEPYYEFSEPTKLDKNVQAKASAESYRC

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_1641 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000365	1 retrocopy	retro_chof_13,
Felis catus	ENSFCAG00000022971	2 retrocopies	retro_fcat_661, retro_fcat_76,
Meleagris gallopavo	ENSMGAG00000007208	1 retrocopy	retro_mgal_7,
Myotis lucifugus	ENSMLUG00000008454	1 retrocopy	retro_mluc_1641 ,
Myotis lucifugus	ENSMLUG00000014686	1 retrocopy	retro_mluc_555,
Mustela putorius furo	ENSMPUG00000017333	1 retrocopy	retro_mputfur_1169,
Mus musculus	ENSMUSG00000079477	2 retrocopies	retro_mmus_3339, retro_mmus_3546,
Oryctolagus cuniculus	ENSOCUG00000001645	1 retrocopy	retro_ocun_259,
Pongo abelii	ENSPPYG00000013431	1 retrocopy	retro_pabe_90,
Rattus norvegicus	ENSRNOG00000012247	1 retrocopy	retro_rnor_2779,
Sarcophilus harrisii	ENSSHAG00000016787	1 retrocopy	retro_shar_65,