RetrogeneDB ID: retro_mluc_1223

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429807:7819855..7821201(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX1
• Ensembl ID: ENSMLUG00000003027
• Aliases: None
• Description: None

Sequence

>retro_mluc_1223
TCCGAGATGGGTGTTATGCCTGAAATCGCGCAAGCTGTGGAAGAGGTGGATCGGCTTCTCCCAACTGATATCCAGGCAGA
ATCCATCCCACTGATCCTGGGAGGCGGTGATGTGCTTATGGCTGCAGAAACAGGAAGTGGAAAAACTGGTGCTTTCAGCA
TTCCAGTTATCCAGATAGTTTATGAAACTCTGAAAGACCAACAGGAAGGCAAAAAGGGGAAAACAACAATTAAAACTGGT
GCTTCAGTGCTCAACAAATGGCAAATGAACCCATATGACAGAGGATCTGCTTTTGTAATTGGGTCCGATGGTCTTTGCTG
TCAAAGCCGAGAAGTGAAGGAGTGGCATGGTTGTAGAGCTACTAAAGGACTCACGAAAGGGAAGCACTACTACGAAGTGT
CCTGTCATGACCAGGGGCTGTGCAGAGTCGGGTGGTCTTCCATGCAGGCATCTTTAGACTTAGGTACTGACAAGTTTGGA
TTTGGCTTTGGTGGAGCAGGAAAGAAATCCCATAATAAACAGTTCGATAACTATGGAGAGGAATTCACTATGCATAATAC
CATTGGGTGTTACCTACATATAGATAAAGGACACGTCAAATTCTCCAAAAATGGAAAAGACCTTGGTTTGGCATTTGAAA
TACCACCACATATGAAGAACCAAGCCCTCTTTCCTGCCTATGTTTTGAAGAATGCTGAACTAAAATTCAACTTTGGTGAA
GAAGAATTTAAGTTTCCACCAAAAGATGGCTTTGTAGGTCTGTCCAAGGCACCGGACAGCTGCGTTGTCAAATCACAGCA
CACAGGTAATGCGCAGGTGGCACAGACCTCCCCATGGCGCCCAAAGCTCTCATCGTTGAACCCTCCCGAAAGTTAGCTGA
ACAAACTCTGAACATCAAGCAGTTTAAGAAATAGGTTGATAATCCTAAATTAAGGGAGCTTCTGATCATTGGAGGTGTTG
CAGCCCGGGATCAGCTCTCTCTTTTAGATAATGGGGTGGATATAGTCGTCGGCACTCCGGGGAGACTGGATGACCTGGTG
TCCACTGGGAAGCTGAACTTGTCCCAAGTTAGGTTCCTGGTCCTGGACAAAGCCGACGGGCTTCTCTCTCAAGGCTACTC
GGATTTTATAAATAAGATGCACAATCAGATCCCTCAGATCACCTCCGATGGAAAAAGGCTGCAGGTGATTGTTTGCTCTG
CTACTTTGCATTCTTTTGAAGTAAAGAAATTATCTGAGAAGATAATGCATTTTCCCACGTGGGTTGATTTAAAAGGCGAA
GATTCCGTCCCAGACACCGTGCACCACATGGTTGTCCCCATGAATCCCAAAGCTGACAGACTCTGG

Alignment

ORF - retro_mluc_1223 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.7 %
• Parental protein coverage: 60.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQEG
          SEMGVMPEIAQAVEE.D.LLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQEG
Retrocopy SEMGVMPEIAQAVEEVDRLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQEG

Parental  KKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCHDQGL
          KKGKTTIKTGASVLNKWQMNPYDRGSAF.IGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCHDQGL
Retrocopy KKGKTTIKTGASVLNKWQMNPYDRGSAFVIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCHDQGL

Parental  CRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGL
          CRVGWSSMQASLDLGTDKFGFGFGG.GKKSHNKQFDNYGEEFTMH.TIGCYL.IDKGHVKFSKNGKDLGL
Retrocopy CRVGWSSMQASLDLGTDKFGFGFGGAGKKSHNKQFDNYGEEFTMHNTIGCYLHIDKGHVKFSKNGKDLGL

Parental  AFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVGLSKAPDSCVVKSQHSGNAQVAQTKFLP
          AFEIPPHMKNQALFPA.VLKNAELKFNFGEEEFKFPPKDGFVGLSKAPDSCVVKSQH.GNAQVAQT...P
Retrocopy AFEIPPHMKNQALFPAYVLKNAELKFNFGEEEFKFPPKDGFVGLSKAPDSCVVKSQHTGNAQVAQTS--P

Parental  NAPK-ALIVEPSRELAEQTLNNVKQFKKYVDNPKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDL
          ..PK.ALIVEPSR.LAEQTL.N.KQFKK.VDNPKLRELLIIGGVAARDQLS.LDNGVDIVVGTPGRLDDL
Retrocopy WRPK<ALIVEPSRKLAEQTL-NIKQFKK*VDNPKLRELLIIGGVAARDQLSLLDNGVDIVVGTPGRLDDL

Parental  VSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRMHNQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIM
          VSTGKLNLSQVRFLVLD.ADGLLSQGYSDFIN.MHNQIPQITSDGKRLQVIVCSATLHSF.VKKLSEKIM
Retrocopy VSTGKLNLSQVRFLVLDKADGLLSQGYSDFINKMHNQIPQITSDGKRLQVIVCSATLHSFEVKKLSEKIM

Parental  HFPTWVDLKGEDSVPDTVHHVVVPVNPKADRLW
          HFPTWVDLKGEDSVPDTVHH.VVP.NPKADRLW
Retrocopy HFPTWVDLKGEDSVPDTVHHMVVPMNPKADRLW

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_1223 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000008254	1 retrocopy	retro_meug_555,
Myotis lucifugus	ENSMLUG00000003027	1 retrocopy	retro_mluc_1223 ,
Otolemur garnettii	ENSOGAG00000008730	1 retrocopy	retro_ogar_2862,