RetrogeneDB ID: retro_mluc_2549

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430893:60889..61504(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YIPF5
• Ensembl ID: ENSMLUG00000011143
• Aliases: None
• Description: None

Sequence

>retro_mluc_2549
ATGTCAGGCTTTGATAACTTAAACACAGATTTCTACCAGACAAGTTACAGCATCGATGACTGGTCACAGCAGTCCTGATT
ATGGAGGAAGGGGAGGCCCCTGTAGCAAACAGTGTGCTGGCTGTGACTACTCGCAGCAAGGTCGGTATGTCCCTCCAGAC
GTGTTGCAGCCGCAGCAGCCATACGCCAGGCAGATTCCCAGCCAGCTCAGACATATACTCCAACTGCTCCTCAGCCATTC
CATGGAAACAGCTTTGAGGATGAACCACTTTTATTGGAAGAATTAGGTATCAATTTTGACCACATCTGGCAAAAAATACG
AACAGTGTTACACCCATTAAAAGTAGCAGATGGCAGCATCATGAATGAGGCTCATCTGGCAGGAACCATGGTGTTTTGCT
TTGCTTTTGGAGTCATATTATTACTGGCTGGCAAAATCCAGTTTGGTTATGTATATGGAATCAGTACAATTGAATTGTCT
AGGAATGCTTTATTAAACTTAATGAGTATGATAGGTATTTCATTTGGTTGTGAGGGAAGTGTCCTTAGATATTGTCTTCA
TCCCGTGATCCTACTTTTCAGTGTTGTGGTGATATTTTCTTTGCAATAAATGGTA

Alignment

ORF - retro_mluc_2549 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.56 %
• Parental protein coverage: 80.54 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSGFDNLNTDFYQTSYSIDDQSQQ-SYDYGGSGGPYNKQYAGYDYSQQGRYVPPEMIQPQQPYTGQI-FQ
          MSGFDNLNTDFYQTSYSI.D...Q.S.DYGG.GGP..KQ.AG.DYSQQGRYVPP...QPQQPY..QI..Q
Retrocopy MSGFDNLNTDFYQTSYSI-DDWSQ>SPDYGGRGGPCSKQCAGCDYSQQGRYVPPDVLQPQQPYARQI<SQ

Parental  PTQTFTPTTPQPFYGNSFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGPMVFCLAFG
          P.QT.TPT.PQPF.GNSFEDEP.LLEELGINFDHIWQK..TVLHPLKVADGSIMNE..LAG.MVFC.AFG
Retrocopy PAQTYTPTAPQPFHGNSFEDEPLLLEELGINFDHIWQKIRTVLHPLKVADGSIMNEAHLAGTMVFCFAFG

Parental  ATLLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAVIFSLQGMV
          ..LLLAGKIQFGYVYGIS.I..L....LLNLMSM.G.SFGC..SVL.YCL.P.ILL.S..VIFSLQ.MV
Retrocopy VILLLAGKIQFGYVYGISTIE-LSRNALLNLMSMIGISFGCEGSVLRYCLHPVILLFSVVVIFSLQ*MV

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_2549 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010135	1 retrocopy	retro_amel_489,
Dasypus novemcinctus	ENSDNOG00000014497	1 retrocopy	retro_dnov_16,
Felis catus	ENSFCAG00000031350	1 retrocopy	retro_fcat_177,
Myotis lucifugus	ENSMLUG00000011143	3 retrocopies	retro_mluc_2549 , retro_mluc_521, retro_mluc_750,
Otolemur garnettii	ENSOGAG00000001543	2 retrocopies	retro_ogar_2657, retro_ogar_2803,
Tarsius syrichta	ENSTSYG00000008071	1 retrocopy	retro_tsyr_16,