RetrogeneDB ID: retro_mluc_2435

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430395:295423..296125(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB11A
• Ensembl ID: ENSMLUG00000008820
• Aliases: None
• Description: None

Sequence

>retro_mluc_2435
CCTGCAGCAACGTCCCCCTGGTCCCACCCATTCCATTGCTACTCCTGCCCCTTCACTCCTTGCTATGGGCGCCCACGAGA
CAAATACGTCAACCTCTTCAAAGTTGTCCTTATCAGAGATTCCAGTGTTGGAAAGAATTATCTCTTGTCTCAATTTACTT
GAAACAAGTTTAATCTTGAAAGCAAGAGCACCACTGGAGTAGAGTTTGCAACATGAAGCATCCAGGTTGATGGGAAAACA
ATGAAGGCACCGATATGGGACACAGCTGGGCAAGAGCGATTTTGAGCTATCACATTAGCATACTGTCATGGAGCTGTAGG
TGCCTTAATGGTTGGTGACATTGCTAAACATCTCACATATGAAAATGTAGAGCGATGGCTGAAAGAACTGAGAGATCAGA
CTGATATTAACACTGTCATCATGCATGTGGGCAATAAGAGTGATGTGCGTCATCTCAGGGCAGTTCCTACGCACGAAGCA
AGAATTTTTGCCGAAAAGAATGGTTTGTCGTTCATTGGGACATCAGCTCTAGACTCTGCAAATGTAGAAGCTGCTTTTCA
GAGAGTTCTGGCAGAGATATACCGCACTGTTTCCCAGAAGGAAATGTCAGACGTGAAAATAACGTCTCCACGCAACAATG
CGGTTCCTATCCATGTTCCACCAACTACTGAAAATAAGCCGAAGGTGCAGTGCTGTCAGAAC

Alignment

ORF - retro_mluc_2435 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.08 %
• Parental protein coverage: 91.19 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PAAT-PPGPTATTAAPAPSLLGRAMGTRD-DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIG
          PAAT.PPGPT...A.PAPSLL..AMG....D.Y..LFKVVLI.DS.VGK..LLS.FT.N.FNLESKST.G
Retrocopy PAAT>PPGPTHSIATPAPSLL--AMGAHE<DKYVNLFKVVLIRDSSVGKNYLLSQFT*NKFNLESKSTTG

Parental  VEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADS
          VEFAT.SIQVDGKT.KA.IWDTAGQER..AIT.AY..GAVGAL.V.DIAKHLTYENVERWLKELRD..D.
Retrocopy VEFAT*SIQVDGKTMKAPIWDTAGQERF*AITLAYCHGAVGALMVGDIAKHLTYENVERWLKELRDQTDI

Parental  NIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDRR
          N.VIM.VGNKSD.RHLRAVPT.EAR.FAEKNGLSFI.TSALDS.NVEAAFQ..L.EIYR.VSQK.MSD..
Retrocopy NTVIMHVGNKSDVRHLRAVPTHEARIFAEKNGLSFIGTSALDSANVEAAFQRVLAEIYRTVSQKEMSDVK

Parental  ENDMSPSNNVVPIHVPPTTENKPKVQCCQN
          ....SP.NN.VPIHVPPTTENKPKVQCCQN
Retrocopy IT--SPRNNAVPIHVPPTTENKPKVQCCQN

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_2435 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 13 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018959	1 retrocopy	retro_btau_1850,
Callithrix jacchus	ENSCJAG00000007333	1 retrocopy	retro_cjac_1050,
Echinops telfairi	ENSETEG00000004920	5 retrocopies	retro_etel_1150, retro_etel_2132, retro_etel_2214, retro_etel_694, retro_etel_837,
Homo sapiens	ENSG00000103769	1 retrocopy	retro_hsap_715,
Gorilla gorilla	ENSGGOG00000014252	2 retrocopies	retro_ggor_538, retro_ggor_605,
Myotis lucifugus	ENSMLUG00000001902	3 retrocopies	retro_mluc_1243, retro_mluc_1251, retro_mluc_2103,
Myotis lucifugus	ENSMLUG00000008820	2 retrocopies	retro_mluc_1606, retro_mluc_2435 ,
Myotis lucifugus	ENSMLUG00000009818	1 retrocopy	retro_mluc_1875,
Macaca mulatta	ENSMMUG00000008006	1 retrocopy	retro_mmul_2463,
Nomascus leucogenys	ENSNLEG00000012853	1 retrocopy	retro_nleu_467,
Petromyzon marinus	ENSPMAG00000009335	1 retrocopy	retro_pmar_25,
Pongo abelii	ENSPPYG00000006573	1 retrocopy	retro_pabe_618,
Pan troglodytes	ENSPTRG00000007188	1 retrocopy	retro_ptro_510,