RetrogeneDB ID: retro_mluc_1071

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429792:550084..550741(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TPK1
• Ensembl ID: ENSMLUG00000004213
• Aliases: None
• Description: None

Sequence

>retro_mluc_1071
TCTGAAACTCTGGACAAAAGTTTTCATCATCTTTGGAACAAATCTCTTTCAAGAGCCTGTGTTGATGGAGGCTCCAACTG
CTACTATATAGCCCCGAAGGAGAGAGGGAAAGCTTTTTTGCCTGAATTCATCAATAGGGACTTTGATTCCATTAGTCCTG
AAGTTAGAGAATACTATGCTATTAAGAGATGTGAGCTTATTTCAACTCCTGATCAAGACCATACTGACTTTATCAAATGC
CTTGAAGTGCTCCAAAAGAAGGTAGAAGAAAAAGACCTACAGGTCGATGTGGTTGTGACATGGGAGGACTTGCTGGGTGG
TTTGACCAGATCATGATATCTGTGAGGACCTTGATCCAAAAGACTTTTATCACTTCCTTGCCAATTATAATCATCCAAGA
GAAATCACTCATCTACATGCTCTAACCAAGAAAGCACAAATTGCATGTAAACCCTGGAATGGAAGGTCATTGGTGTGGTC
TTATTCCTGTTGGACAGCCTTGCAATCGGGTTCGGACAATGGGCCTAAAAGGGAAGCCTCAGAAGTCAGGTGCTCAGTTT
TGGAACACTAGCCAGCACTTCCAGTACCTACAATGGATCTGGTGTTGTGACTATAGAAACGGACCACCCGCCCCTCTGGA
CCATGGCCATCAAAAAC

Alignment

ORF - retro_mluc_1071 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.3 %
• Parental protein coverage: 95.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NQPLDKSFRHLWSKALLRACADGGANRLYDITDRERERFLPEFISGDFDSIRPEVREYYTVKGCELISTP
          ...LDKSF.HLW.K.L.RAC.DGG.N..Y.........FLPEFI..DFDSI.PEVREYY..K.CELISTP
Retrocopy SETLDKSFHHLWNKSLSRACVDGGSNCYYIAPKERGKAFLPEFINRDFDSISPEVREYYAIKRCELISTP

Parental  DQDHTDFTKCLEVLQKKIEEKDLQVNVIVT-MGGLAGRFDQIMASVSTLFQATRITPLPIIIIQEESLIY
          DQDHTDF.KCLEVLQKK.EEKDLQV.V.VT.MGGLAG.FDQIM.SV.TL.Q.T.IT.LPIIIIQE.SLIY
Retrocopy DQDHTDFIKCLEVLQKKVEEKDLQVDVVVT<MGGLAGWFDQIMISVRTLIQKTFITSLPIIIIQEKSLIY

Parental  LLQPGKHKLHVDTGMEGDWCGLIPVGQPCNQVTTTGL-KWNLTNHVLSFGTLVSTSNTYDGSGVVTVETD
          .L.P.KHKLHV..GMEG.WCGLIPVGQPCN.V.T.GL.K..L...VLSFGTL.STS.TY.GSGVVT.ETD
Retrocopy ML*PRKHKLHVNPGMEGHWCGLIPVGQPCNRVRTMGL>KGSLRSQVLSFGTLASTSSTYNGSGVVTIETD

Parental  HPLLWTMAIKN
          HP.LWTMAIKN
Retrocopy HPPLWTMAIKN

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_1071 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 34 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001227	23 retrocopies	retro_chof_1004, retro_chof_1093, retro_chof_1416, retro_chof_1458, retro_chof_1537, retro_chof_1683, retro_chof_1732, retro_chof_191, retro_chof_1927, retro_chof_2202, retro_chof_2413, retro_chof_2507, retro_chof_2577, retro_chof_468, retro_chof_472, retro_chof_550, retro_chof_630, retro_chof_665, retro_chof_701, retro_chof_801, retro_chof_917, retro_chof_954, retro_chof_988,
Dasypus novemcinctus	ENSDNOG00000018545	4 retrocopies	retro_dnov_1080, retro_dnov_1592, retro_dnov_2405, retro_dnov_2523,
Macropus eugenii	ENSMEUG00000010062	1 retrocopy	retro_meug_1153,
Myotis lucifugus	ENSMLUG00000004213	1 retrocopy	retro_mluc_1071 ,
Monodelphis domestica	ENSMODG00000025468	2 retrocopies	retro_mdom_1299, retro_mdom_1300,
Ornithorhynchus anatinus	ENSOANG00000020728	1 retrocopy	retro_oana_44,
Vicugna pacos	ENSVPAG00000010214	2 retrocopies	retro_vpac_205, retro_vpac_503,