RetrogeneDB ID: retro_mluc_728

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429773:2568711..2569415(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000028908
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SEPHS1
• Ensembl ID: ENSMLUG00000001971
• Aliases: None
• Description: None

Sequence

>retro_mluc_728
ACATCTATAACAGGCAGACAAACAGTGGTAAACCCCTGGATTGTTTTGGGAGGAGTGGCTACAACTGTCTGCCAGCCCAA
TGAATTCTTCATGCCAGATAACTCAGTGCCTGGGGACATGCTGGTTCTGACAAAGCCCCTGGGGACACAAGTGGCCATGG
CTGTGCACCAGTGGTTGGATATTCTTGAAAAGTGGAATAAAATTAAACTAGTGGTCACTCAAGAAGATGTGGAGTTGGCA
TACCAGGAGGCGATGATGAATATGGCAAAGCTCAACAGAACAGCTACTGGACTCATGCACACGTTCAGTGCCACGCTGCC
ACTGATATCACTGGCTTTGGAATTCTGGGCCATGCACCGAACCTAGCTAAACAGCAGAGGAACGAGGTGTCCTTTGTGAT
TCACAACCTCCCTGTCCTGGCCAAGATGGCTGCTGTGAGCAAGGCCTGGGGAATCATGTTTAGCCTCATGCATGGGACCT
GCCTGGAGACATCAGGAGGCCTTCTAATCTGTTTACCATGTGAGCAAGCAGCTCGGTTCTGTGCAGAGATAAAGTCTCCC
AAATATGGTGGAGGTCACCAAGCATGGATTATAGGTATCGTAGAGAAGGGCAATTGTACAGCCAGAATCATAGACAAACC
CTGGATCATCGAAGTCGCATCACAGGTGGCCACTCAAAATGTGAATCCCACACCTGGTGCCACT

Alignment

ORF - retro_mluc_728 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.68 %
• Parental protein coverage: 68.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TSVTGGQTVLNPWIVLGGVATTVCQPNEFIMPDNAVPGDVLVLTKPLGTQVAVAVHQWLDIPEKWNKIKL
          TS.TG.QTV.NPWIVLGGVATTVCQPNEF.MPDN.VPGD.LVLTKPLGTQVA.AVHQWLDI.EKWNKIKL
Retrocopy TSITGRQTVVNPWIVLGGVATTVCQPNEFFMPDNSVPGDMLVLTKPLGTQVAMAVHQWLDILEKWNKIKL

Parental  VVTQEDVELAYQEAMMNMARLNRTAAGLMHTFNA-HAATDITGFGILGHAQNLAKQQRNEVSFVIHNLPV
          VVTQEDVELAYQEAMMNMA.LNRTA.GLMHTF.A.HAATDITGFGILGHA.NLAKQQRNEVSFVIHNLPV
Retrocopy VVTQEDVELAYQEAMMNMAKLNRTATGLMHTFSA<HAATDITGFGILGHAPNLAKQQRNEVSFVIHNLPV

Parental  LAKMAAVSKACGNMFGLMHGTCPETSGGLLICLPREQAARFCAEIKSPKYGEGHQAWIIGIVEKGNRTAR
          LAKMAAVSKA.G.MF.LMHGTC.ETSGGLLICLP.EQAARFCAEIKSPKYG.GHQAWIIGIVEKGN.TAR
Retrocopy LAKMAAVSKAWGIMFSLMHGTCLETSGGLLICLPCEQAARFCAEIKSPKYGGGHQAWIIGIVEKGNCTAR

Parental  IIDKPRIIEVAPQVATQNVNPTPGAT
          IIDKP.IIEVA.QVATQNVNPTPGAT
Retrocopy IIDKPWIIEVASQVATQNVNPTPGAT

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_728 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 8 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009494	2 retrocopies	retro_cjac_166, retro_cjac_2219,
Gorilla gorilla	ENSGGOG00000003806	2 retrocopies	retro_ggor_147, retro_ggor_2924,
Myotis lucifugus	ENSMLUG00000001971	2 retrocopies	retro_mluc_2350, retro_mluc_728 ,
Macaca mulatta	ENSMMUG00000021233	4 retrocopies	retro_mmul_1607, retro_mmul_2495, retro_mmul_2647, retro_mmul_922,
Monodelphis domestica	ENSMODG00000016864	1 retrocopy	retro_mdom_86,
Nomascus leucogenys	ENSNLEG00000012205	7 retrocopies	retro_nleu_1868, retro_nleu_2211, retro_nleu_234, retro_nleu_2668, retro_nleu_2873, retro_nleu_3004, retro_nleu_327,
Pteropus vampyrus	ENSPVAG00000002945	2 retrocopies	retro_pvam_115, retro_pvam_566,
Rattus norvegicus	ENSRNOG00000018125	1 retrocopy	retro_rnor_59,