RetrogeneDB ID: retro_mluc_401

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: AAPE02056334:80594..81928(-)
• Located in intron of: ENSMLUG00000029268

Retrocopy information

• Ensembl ID: ENSMLUG00000015557
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TUBB2A
• Ensembl ID: ENSMLUG00000016179
• Aliases: None
• Description: None

Sequence

>retro_mluc_401
ATGCGCGAGATCGTGCACATCCAGGCGGGCCAGTGCGGCAACCAGATCGGAGCCAAGTTTTGGGAGGTCATCAGTGATGA
GCATGGGATCGACCCCACTGGCAGTTACCATGGAGACAGCGAGCTGCAGCTGGAGAGAATCAATGTGTACTACAATGAAG
CTGCTGGTAACAAGTACGTACCTCGGGCCATCCTGGTGGACCTGGAGCCGGGCACGATGGACTCGGTCAGGTCTGGACCA
TTCGGCCAGATCTTCAGGCCCGACAACTTCGTGTTTGGCCAGAGCGGGGCCGGGAACAACTGGGCAAAGGGCCACTACAC
AGAGGGCGCCGAACTGGTAGACTCAGTCCTGGACGTGGTGAGGAAGGAGTCAGAAAGCTGTGACTGTCTGCAGGGCTTCC
AGCTGACCCACTCGCTGGGGGGTGGCACCGGGTCAGGGATGGGCACGCTGCTCATCAGCAAGATCCGGGAGGAGTACCCA
GACCGCATCATGAACACCTTCAGCGTGATGCCCTCGCCCAAGGTGTCGGACACGGTGGTGGAACCCTACAACGCCACGCT
GACCGTGCACCAGCTGGTGGAGAACACAGATGAGACCTACTGCATCGACAACGAGGCCCTGTACGACATCTGCTTCCGCA
CCCTGAAACTGACCACGCCCACGTACGGGACCTCAACCACCTGGTGTCCGCCACCATGAGCGGGGTGACCACCTGCCTGC
GCTTCCCCGGCCAGCTGAACGCGGACCTGCGCAAGCTGGCAGTGAACATGGTGCCCTTCCCCCGCCTGCACTTCTTCATG
CCCGGCTTCGCGCCGCTGACCAGCCGGGGCAGCCAGCAGTACCGCGCCCTGACGGTGCCCGAGCTCACCCAGCAGATGTT
CGACTCCAAGAACATGATGGCCGCGTGCGACCCGCGCCACGGCCGCTACCTGACGGTGGCCGCGATCTTCCGGGGCCGCA
TGTCCATGAAGGAGGTGGACGAGCAGATGCTCAACGTGCAGAACAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAAC
AACGTGAAGACGGCCGTGTGCGACATCCCGCCGCGGGGCCTCAAGATGTCGGCCACCTTCATCGGCAACAGCACGGCCAT
CCAGGAGCTGTTCAAGCGCATCTCGGAGCAGTTCACGGCCATGTTCCGGCGCAAGGCCTTCCTGCACTGGTACACGGGCG
AGGGCATGGACGATATGGAGTTCACCGAGGCCGAGAGCAACATGAACGACCTGGTGTCCGAGTACCAGCAGTACCAGGAC
GCCACGGCTGATGAGCAGGGAGAGTTCGAGGAGGAGGAGGTAGAGGAAGAGGCT

Alignment

ORF - retro_mluc_401 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGSYHGDSELQLERINVYYNEAAGNKYVPRAILVDLEP
          MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGSYHGDSELQLERINVYYNEAAGNKYVPRAILVDLEP
Retrocopy MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGSYHGDSELQLERINVYYNEAAGNKYVPRAILVDLEP

Parental  GTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKESESCDCLQGFQLTHSLG
          GTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKESESCDCLQGFQLTHSLG
Retrocopy GTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKESESCDCLQGFQLTHSLG

Parental  GGTGSGMGTLLISKIREEYPDRIMNTFSVMPSPKVSDTVVEPYNATLSVHQLVENTDETYCIDNEALYDI
          GGTGSGMGTLLISKIREEYPDRIMNTFSVMPSPKVSDTVVEPYNATL.VHQLVENTDETYCIDNEALYDI
Retrocopy GGTGSGMGTLLISKIREEYPDRIMNTFSVMPSPKVSDTVVEPYNATLTVHQLVENTDETYCIDNEALYDI

Parental  CFRTLKLTTPTYG-DLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQ
          CFRTLKLTTPTYG.DLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQ
Retrocopy CFRTLKLTTPTYG<DLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQ

Parental  QYRALTVPELTQQMFDSKNMMAACDPRHGRYLTVAAIFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNV
          QYRALTVPELTQQMFDSKNMMAACDPRHGRYLTVAAIFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNV
Retrocopy QYRALTVPELTQQMFDSKNMMAACDPRHGRYLTVAAIFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNV

Parental  KTAVCDIPPRGLKMSATFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLV
          KTAVCDIPPRGLKMSATFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMD.MEFTEAESNMNDLV
Retrocopy KTAVCDIPPRGLKMSATFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDDMEFTEAESNMNDLV

Parental  SEYQQYQDATADEQGEFEEEEVEEEA
          SEYQQYQDATADEQGEFEEEEVEEEA
Retrocopy SEYQQYQDATADEQGEFEEEEVEEEA

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_401 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017637	1 retrocopy	retro_cjac_1649,
Erinaceus europaeus	ENSEEUG00000002955	1 retrocopy	retro_eeur_441,
Myotis lucifugus	ENSMLUG00000015607	1 retrocopy	retro_mluc_754,
Myotis lucifugus	ENSMLUG00000016179	1 retrocopy	retro_mluc_401 ,
Tupaia belangeri	ENSTBEG00000004854	9 retrocopies	retro_tbel_2291, retro_tbel_3456, retro_tbel_3944, retro_tbel_4113, retro_tbel_413, retro_tbel_4390, retro_tbel_4439, retro_tbel_961, retro_tbel_962,
Tarsius syrichta	ENSTSYG00000003440	2 retrocopies	retro_tsyr_1068, retro_tsyr_2125,
Tursiops truncatus	ENSTTRG00000006144	1 retrocopy	retro_ttru_1393,