RetrogeneDB ID: retro_mluc_1136

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429797:6524745..6526736(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000015252
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DDX5
• Ensembl ID: ENSMLUG00000009496
• Aliases: None
• Description: None

Sequence

>retro_mluc_1136
CACCGGCCTGTAGGGGAGCAGCTCCGGCTCCTATCATCGCAGTCCCTCCCCCCCCCCCCCCCTGCCCCGGCAAGGCTTCG
ATATCGCCACAGCCTTCACCAGCAACTCGTCGCACCCGATTCTCTCCACTTCGTTCCCCGCCAACCTCAATCATTGACGC
CATGTCGGGCTATTCGAGTGGCCGGGATCGAGGGTTTCGTGCACCTCGATTTGGAGGAAGTCGGGCAGGGCCTCTATCAG
GAAAGAAGTTTGGAAACCCTGGGGAGAAACTAGTTAAAAAGCAGTGGAATCTTGATGAGCTGCCCAAATTTGAGAAGAAT
TTTTACCAAGAACACCCTGATTTGGCCAGGCGCACAGCGCAAGAGGTAGAGACATACAGAAGAAGCAAGGAAATTACAGT
TAGAGGACACAACTGCCCGAAGCCCATTCTGAATTTTTACGAAGCAAACTTCCCTGCAAACGTCATGGATGCGATTGCAA
GACAGAACTTTACTGAACCCACTGCTATTCAAGCTCAGGGATGGCCAGTTGCCCTAAGTGGATTGGATATGGTTGGAGTA
GCACAGACTGGATCTGGGAAAACATTGTCTTATTTGCTGCCTGCCATTGTCCACATCAATCATCAGCCATTCCTAGAGAG
AGGTGATGGGCCTATTTGCTTGGTGCTGGCACCAACTCGGGAACTGGCCCAGCAGGTGCAGCAAGTGGCTGCTGAATACT
GTAGAGCATGCCGATTGAAGTCTACTTGCATCTATGGTGGTGCTCCCAAGAGACCACAAATACAAGATTTGGAGAGAGGT
GTGGAGATCTGTATTGCAACACCTGGAAGACTGATTGACTTTTTAGAGTGTGGAAAAACAAATCTGAGACGAACCACCTA
CCTTGTCCTTGATGAAGCAGATAGAATGCTTGACATGGGCTTTGAACCCCAAATAAGAAAGATCGTGGACCAGATAAGGC
CTGACAGGCAAACCCTGATGTGGAGTGCAACTTGGCCAAAAGAAGTAAGACAGCTTGCTGAAGATTTCCTGAAAGACTAT
ATTCATATAAACACTGGTGCACTGGAACTGAGTGCAAACCACAACATTCTTCAGATTGTGGATGTGTGTCAAGATGTAGA
AAAGGATGAAAAACTTATTCGTCTGATGGAAGAGATCATGGGTGAGAAGGAGAGTAAAACCATTGTGTTTGTTGAGACCA
AAAGAAGATGTGATGAACTTACTAGAAAAATGAGGAGAGACGGGTGGCCTGCCATGGGTATTCATGGTGACAAGAGTCAA
CAGGAACGTGATTGGGTTCTAAGTGAATTCAAACATGGAAAAGCTCCTATTCTGATTGCTACGGATGTGGCTTCCAGGGG
GCTAGATGTGGAAGATGTGAAATTTGTCATCAACTATGACTACCCTAACTCCTCAGAGGATTATATTCATCGAATTGGAA
GAACTGCTCGCAGTACCAAAACGGGCACAGCATACACTTTCTTTACACCTAATAATATAAAGCAAGCGAGCGACCTTATC
TCTGTGCTTCGTGAAGCTAATCAAGCAGTCAATCCCAAGTTGCTTCAGTTGGTTGAAGACGGAGGTTCAGGTCGTTCCAG
GGGTAGAGGAGGCATGAAGGATGACCGTCGGGACAGATACTCTGCAGGCAAAAGGGGTGGATTTAATGCCTTTAGAGACA
GGGAAAATTATGACAGAGGTTACTCTAGTCTGCTTAAGAGAGATTTCGGGGCAAAGACCCAGAATGGTGTTTTCAGTGCT
ACAAATTACACCCATGGGAGCTTTGGAAGCAACTTTGTGTCTGCTGGCATACACACCAGTTTTGGGACTGGTAATCCAAC
AGGGACTTACCAGACTGGTTATGATAGCACTCAGCAATATGGAAGTAATGTTCCAAATATGCACAATGGTATGAACCAAC
AGGCGTATGCATATCCTGCTACTGCAGCTGCACCTATGATCGGTTATCCGATGCCAACAGGATATTCTCAA

Alignment

ORF - retro_mluc_1136 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.57 %
• Parental protein coverage: 99.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HRPVGEQLRLLSSPSFRRCRPRKASL-SPKPPP--ATRRTRFSPLRSPPTAIIDAMSGYSSDRDRGRDRG
          HRPVGEQLRLLSS.S........A.L.S..P.P..ATRRTRFSPLRSPPT.IIDAMSGYSS....GRDRG
Retrocopy HRPVGEQLRLLSSQSXXXXXXAPARL<SISPQPSPATRRTRFSPLRSPPTSIIDAMSGYSS----GRDRG

Parental  FGAPRFGGSRAGPLSGKKFGNPGEKLVKKKWNLDELPKFEKNFYQEHPDLARRTAQEVETYRRSKEITVR
          F.APRFGGSRAGPLSGKKFGNPGEKLVKK.WNLDELPKFEKNFYQEHPDLARRTAQEVETYRRSKEITVR
Retrocopy FRAPRFGGSRAGPLSGKKFGNPGEKLVKKQWNLDELPKFEKNFYQEHPDLARRTAQEVETYRRSKEITVR

Parental  GHNCPKPVLNFYEANFPANIMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH
          GHNCPKP.LNFYEANFPAN.MD.IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH
Retrocopy GHNCPKPILNFYEANFPANVMDAIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH

Parental  INHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATP
          INHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPK.PQI.DLERGVEICIATP
Retrocopy INHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKRPQIQDLERGVEICIATP

Parental  GRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLK
          GRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLK
Retrocopy GRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLK

Parental  DYIHINIGALELSANHNILQIVDVCHDVEKDEKLIRLMEEIMSEKENKTIVFVETKRRCDELTRKMRRDG
          DYIHIN.GALELSANHNILQIVDVC.DVEKDEKLIRLMEEIM.EKE.KTIVFVETKRRCDELTRKMRRDG
Retrocopy DYIHINTGALELSANHNILQIVDVCQDVEKDEKLIRLMEEIMGEKESKTIVFVETKRRCDELTRKMRRDG

Parental  WPAMGIHGDKSQQERDWVLNEFKHGKAPILIATDVASRGLDVEDVKFVINYDYPNSSEDYIHRIGRTARS
          WPAMGIHGDKSQQERDWVL.EFKHGKAPILIATDVASRGLDVEDVKFVINYDYPNSSEDYIHRIGRTARS
Retrocopy WPAMGIHGDKSQQERDWVLSEFKHGKAPILIATDVASRGLDVEDVKFVINYDYPNSSEDYIHRIGRTARS

Parental  TKTGTAYTFFTPNNIKQVSDLISVLREANQAINPKLLQLVEDRGSGRSRGRGGMKDDRRDRYSAGKRGGF
          TKTGTAYTFFTPNNIKQ.SDLISVLREANQA.NPKLLQLVED.GSGRSRGRGGMKDDRRDRYSAGKRGGF
Retrocopy TKTGTAYTFFTPNNIKQASDLISVLREANQAVNPKLLQLVEDGGSGRSRGRGGMKDDRRDRYSAGKRGGF

Parental  NTFRDRENYDRGYSSLLKRDFGAKTQNGVYSAANYTNGSFGSNFVSAGIQTSFRTGNPTGTYQNGYDSTQ
          N.FRDRENYDRGYSSLLKRDFGAKTQNGV.SA.NYT.GSFGSNFVSAGI.TSF.TGNPTGTYQ.GYDSTQ
Retrocopy NAFRDRENYDRGYSSLLKRDFGAKTQNGVFSATNYTHGSFGSNFVSAGIHTSFGTGNPTGTYQTGYDSTQ

Parental  QYGSNVPNMHNGMNQQAYAYPATAAAPMIGYPMPTGYSQ
          QYGSNVPNMHNGMNQQAYAYPATAAAPMIGYPMPTGYSQ
Retrocopy QYGSNVPNMHNGMNQQAYAYPATAAAPMIGYPMPTGYSQ

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_1136 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 10 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000019950	1 retrocopy	retro_etel_1009,
Felis catus	ENSFCAG00000003512	1 retrocopy	retro_fcat_172,
Myotis lucifugus	ENSMLUG00000009496	4 retrocopies	retro_mluc_1136 , retro_mluc_1499, retro_mluc_1845, retro_mluc_2208,
Monodelphis domestica	ENSMODG00000003743	4 retrocopies	retro_mdom_1519, retro_mdom_1520, retro_mdom_1955, retro_mdom_1956,
Mus musculus	ENSMUSG00000020719	1 retrocopy	retro_mmus_788,
Pteropus vampyrus	ENSPVAG00000001932	1 retrocopy	retro_pvam_1267,
Rattus norvegicus	ENSRNOG00000030680	1 retrocopy	retro_rnor_1277,
Tupaia belangeri	ENSTBEG00000009490	1 retrocopy	retro_tbel_4260,
Tarsius syrichta	ENSTSYG00000012149	1 retrocopy	retro_tsyr_1269,
Tursiops truncatus	ENSTTRG00000008793	1 retrocopy	retro_ttru_1662,