RetrogeneDB ID: retro_mluc_1618

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429873:693520..694314(+)
• Located in intron of: ENSMLUG00000025886

Retrocopy information

• Ensembl ID: ENSMLUG00000005762
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MED8
• Ensembl ID: ENSMLUG00000012621
• Aliases: None
• Description: None

Sequence

>retro_mluc_1618
ATGCAGAGGGAGGAGAAGCAGCTTGAAGCGTCATTAGATGCACTGCTGAGTCAAGTGGCTGATCTGAAGAATTCACTGGG
GAGTTTCATTTACAAATTAGAGAACGAGTATGACCGGTTGACCTGGCCCTCTGTCCTGGACAGCTTTGCCTTGCTCTCTG
GACAGTTGAACACTCTGAACAAGGTCTTGAAGCATGAAAAGACACCACTGTTCCGTAACCAGGTCATCATCCCTCTGGTG
TTGTCCCCAGACCGTGATGAAGATCTTATGCGGCAGACGGAAGGACGAGTACCTGTTTTCAGCCATGAGGTAGTCCCCGA
CCATCTGAGAACCAAGCCTGACCCTGAGGTTGAAGAGCAAGAGAAGCAACTGACAACAGATGCTGCCCGCATCGGTGCTA
TGTAGCTCAGAAGCAGATCCAGAGTTTCAATAAAATGTGCTCAAAACTTTTGGAGAAAATCAGCAAAGAGGAACGAGAAT
CAGAGAGTGGAGGTCTCCGGCCAAACAAGCAGACCTTTAACCCTGCAGACACCAATGCCTTGGTGGCAGCTGTTGCCTTT
GGAAAAGGGCTGTCTAATTGGAGACCTTCAGGCAGCAGTGGATCTGGCCAGCCAGGAACTGGAACAATCCTTGCAGGAGC
CTCAGGATTGCAGCAGGTGCAAATGACAGGTGCTCCAAGCCAGCTGCAATCAATTCTCAGTGGGGTACAAATGGCCCAAG
CAGGTCAACCAGGGAAAATGCCAAGTGGAATAAAAACCAAGTTCAAGTCAGCTTTAATGCATCTCTACCAGCGG

Alignment

ORF - retro_mluc_1618 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.8 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VQREEKQLEASLDALLSQVADLKNSLGSFIYKLENEYDRLTWPSVLDSFALLSGQLNTLNKVLKHEKTPL
          .QREEKQLEASLDALLSQVADLKNSLGSFIYKLENEYDRLTWPSVLDSFALLSGQLNTLNKVLKHEKTPL
Retrocopy MQREEKQLEASLDALLSQVADLKNSLGSFIYKLENEYDRLTWPSVLDSFALLSGQLNTLNKVLKHEKTPL

Parental  FRNQVIIPLVLSPDRDEDLMRQTEGRVPVFSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGA-DVAQKQ
          FRNQVIIPLVLSPDRDEDLMRQTEGRVPVFSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGA..VAQKQ
Retrocopy FRNQVIIPLVLSPDRDEDLMRQTEGRVPVFSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGA<YVAQKQ

Parental  IQSLNKMCSNLLEKISKEERESESGGLRPNKQTFNPADTNALVAAVAFGKGLSNWRPSGSSGSGQPGQPG
          IQS.NKMCS.LLEKISKEERESESGGLRPNKQTFNPADTNALVAAVAFGKGLSNWRPSGSSGSGQPG...
Retrocopy IQSFNKMCSKLLEKISKEERESESGGLRPNKQTFNPADTNALVAAVAFGKGLSNWRPSGSSGSGQPG---

Parental  TGTILAGASGLQQVQMTGAPSQQQSILSGVQMAQAGQPGKMPSGIKTNIKSASLHPYQR
          TGTILAGASGLQQVQMTGAPSQ.QSILSGVQMAQAGQPGKMPSGIKT..KSA..H.YQR
Retrocopy TGTILAGASGLQQVQMTGAPSQLQSILSGVQMAQAGQPGKMPSGIKTKFKSALMHLYQR

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_1618 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005237	1 retrocopy	retro_cfam_458,
Macropus eugenii	ENSMEUG00000013567	1 retrocopy	retro_meug_1813,
Myotis lucifugus	ENSMLUG00000012621	1 retrocopy	retro_mluc_1618 ,
Monodelphis domestica	ENSMODG00000011310	1 retrocopy	retro_mdom_1131,
Oryctolagus cuniculus	ENSOCUG00000027895	2 retrocopies	retro_ocun_1088, retro_ocun_67,
Otolemur garnettii	ENSOGAG00000001865	1 retrocopy	retro_ogar_2091,
Ictidomys tridecemlineatus	ENSSTOG00000009737	1 retrocopy	retro_itri_818,