RetrogeneDB ID: retro_mluc_1238

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429808:1718302..1719038(-)
• Located in intron of: ENSMLUG00000000025

Retrocopy information

• Ensembl ID: ENSMLUG00000003009
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BIN3
• Ensembl ID: ENSMLUG00000005585
• Aliases: None
• Description: None

Sequence

>retro_mluc_1238
ATTCCTTTCAAGATTGGGCAACCCAAGAAACAGATTGTCCCCACAACAGTGGAGAGAGACTTTGAGAGGAGTATGAAAAA
CTGCAGCAGCTGGAAGAACAGACCAGGAAGCTGCAAAAGGACTTGAAGAAGAGCACCAATACTGACCTGGCCATGTCCAA
ATCTGCTGTGAAGATATCCTTGGACTTGCTCTCTAATCCCTTCTGCAAACAAGACCAGGACTTTCTGAACATAGTGACAG
CCCTGGACACGGCCATGAAACAGATGGACGCCTCCAACCAGGAAAAGGTGAACCAGATTCAAAAGCCCTTGAAAAAGTTT
GGCAGTGTCTTCCCGAGCCTCAACATGGCGGTGAAACGGTGGGAGCAGGCCCTGCAGGACTACAGGAGGCTGCAGGCCAA
GGTGGAGAAGTACGAGGAAAAGGAGAAGACAGGGATAGTGTTGGCCAAACTCCACCAGGCCCGAGAAGAGCTCCGGCCCG
TGCGGGACAACTTTGAGGCCAAGAACAAGCAGCTCCTGGATGAGATGCGGCAGTTCTACAACTGCCGACTCAACTACTTC
CAGCCCAGCTTTGAACCCCTGATCCAAGCGCAGGTTGTCTACTACTCTGAAATGCATAAGATCTTTGGAGACCAACCCAA
CAGCTTGACCAGCCTGGCCACCCTGATGAGCAGTGGGAGCGGGAGAATGAAGCTAAACTGAGCAAGCTCGGAGCCCTCTC
TATTGTGGCTGATGAC

Alignment

ORF - retro_mluc_1238 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.49 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IPFKIGQPKKQIVPKTVERDFER-EYGKLQQLEEQTRKLQKDLKKSTDADLAMSKSAVKISLDLLSNPLC
          IPFKIGQPKKQIVP.TVERDFER.EY.KLQQLEEQTRKLQKDLKKST..DLAMSKSAVKISLDLLSNP.C
Retrocopy IPFKIGQPKKQIVPTTVERDFER<EYEKLQQLEEQTRKLQKDLKKSTNTDLAMSKSAVKISLDLLSNPFC

Parental  EQDQDFMNMVTALDTAMKRMDAFNQEKVNQIQKTVVEPLKKFGSVFPSLNMAVKRREQALQDYRRLQAKV
          .QDQDF.N.VTALDTAMK.MDA.NQEKVNQIQK....PLKKFGSVFPSLNMAVKR.EQALQDYRRLQAKV
Retrocopy KQDQDFLNIVTALDTAMKQMDASNQEKVNQIQK----PLKKFGSVFPSLNMAVKRWEQALQDYRRLQAKV

Parental  EKYEEKEKTGPVLAKLHQAREELRPVRDDFEAKNKQLLDEMPRFYNSRLDYFQPSFESLIRAQVVYYSEM
          EKYEEKEKTG.VLAKLHQAREELRPVRD.FEAKNKQLLDEM..FYN.RL.YFQPSFE.LI.AQVVYYSEM
Retrocopy EKYEEKEKTGIVLAKLHQAREELRPVRDNFEAKNKQLLDEMRQFYNCRLNYFQPSFEPLIQAQVVYYSEM

Parental  HKIFGDL-TQQLDQPGHPDEQRERENEAKLSELRALSIVADD
          HKIFGD..TQQLDQPGHPDEQ.ERENEAKLS.L.ALSIVADD
Retrocopy HKIFGDQ<TQQLDQPGHPDEQWERENEAKLSKLGALSIVADD

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_1238 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005470	1 retrocopy	retro_btau_1291,
Macropus eugenii	ENSMEUG00000002173	1 retrocopy	retro_meug_545,
Myotis lucifugus	ENSMLUG00000005585	1 retrocopy	retro_mluc_1238 ,
Monodelphis domestica	ENSMODG00000009297	1 retrocopy	retro_mdom_346,
Pteropus vampyrus	ENSPVAG00000006191	1 retrocopy	retro_pvam_1028,