RetrogeneDB ID: retro_dmel_18

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 2R:4588251..4589133(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0033322
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Dd
• Ensembl ID: FBgn0029067
• Aliases: None
• Description: Dullard [Source:FlyBase gene name;Acc:FBgn0029067]

Sequence

>retro_dmel_18
ATGGTCAGTCAGCTGCCCGCACAGTCTGCTGATTTAGACAAGCTCGCTCCATCAGGTCAGTTTGCCGTCGCTGTGGTCAG
CAATCTCCAGAGATCGCGTTCGAGCTCCGATCGCCGGGGGCTCGTCTTGATCCTGCTCTCCAGCGACCTGGGCACCTACA
TCAGACGCCTGCTGGCCCGTGTGGCGGAGAAGGCATGTACGATCCTACGTACATATCTGGGGCTTAGCTACCGGGAAGTG
TCCGTGTCCCAGGACATGGCCCACAGACTGGCCGTGGTTGGCCGGAAGACCCTGGTCCTGGACCTGGATGAGACTCTGGT
GCACTCATGTTACCTCGATCCGGACACCCACGACAACGTGGGATGTAGCCAGTTGCCCGAACACGCACAACCGGACTATG
TGCTCAATATTTCCATCGACGGGATGGAACCTATCGTTTTCCGGGTCTTCAAGCGGCCGCATGTAGACGAGTTCCTGGAC
TTTGTGTCCAAGTGGTACGACCTGGTGATCTATACGGCCAGCCTGGAGGTCTATGCCGCCCAGGTTGTGGACCATCTGGA
CGCGGGGCGAGGATTGATTACTCGCCGCTTCTATCGCCAGCACTGTCGAGCCTCCTCGCCAATGGTCTCCAAGGACCTGA
CATTGGTCACCCCTGACATGAGCGGCGTTTTAATCATCGACAACTCGCCGTACGCATACCGCGACTTTCCCGACAACGCT
ATTCCCATTAAGACCTTCATCTACGACCCCGACGACACGGAGCTCCTGAAGATGCTGCCCTTCCTCGATGCCCTGCGCTT
CACCAAGGACGTTCGCTCCATTCTCGGTCGGCGCGTTATCCGCCATTATTATAACCGATCTACCATTTCATCCCATCATT
GA

Alignment

ORF - retro_dmel_18 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.63 %
• Parental protein coverage: 61.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DFTVKVTID-RNPVRFFVHKRPHVDYFLDVVSQWYDLVVFTASMEIYGAAVADKLDNGRNILRRRYYRQH
          D......ID...P..F.V.KRPHVD.FLD.VS.WYDLV..TAS.E.Y.A.V.D.LD.GR....RR.YRQH
Retrocopy DYVLNISIDGMEPIVFRVFKRPHVDEFLDFVSKWYDLVIYTASLEVYAAQVVDHLDAGRGLITRRFYRQH

Parental  CTPDYGSYTKDLSAICSDLNRIFIIDNSPGAYRCFPNNAIPIKSWFSDPMDTALLSLLPMLDALRFTNDV
          C........KDL.....D.....IIDNSP.AYR.FP.NAIPIK....DP.DT.LL..LP.LDALRFT.DV
Retrocopy CRASSPMVSKDLTLVTPDMSGVLIIDNSPYAYRDFPDNAIPIKTFIYDPDDTELLKMLPFLDALRFTKDV

Parental  RSVLSRNLHLH
          RS.L.R....H
Retrocopy RSILGRRVIRH

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Drosophila melanogaster was not studied using RNA-Seq expression data.

ChIP-Seq

Drosophila melanogaster was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_dmel_18 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_18 was not experimentally validated.

Homology

Retrocopy orthology:

Drosophila melanogaster 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 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019443	1 retrocopy	retro_btau_915,
Dasypus novemcinctus	ENSDNOG00000013673	2 retrocopies	retro_dnov_1802, retro_dnov_2494,
Echinops telfairi	ENSETEG00000004654	1 retrocopy	retro_etel_125,
Homo sapiens	ENSG00000175826	2 retrocopies	retro_hsap_2687, retro_hsap_3188,
Gorilla gorilla	ENSGGOG00000013777	2 retrocopies	retro_ggor_1338, retro_ggor_1874,
Macaca mulatta	ENSMMUG00000010547	1 retrocopy	retro_mmul_2011,
Mus musculus	ENSMUSG00000018559	1 retrocopy	retro_mmus_1023,
Otolemur garnettii	ENSOGAG00000004389	1 retrocopy	retro_ogar_1001,
Pongo abelii	ENSPPYG00000007902	2 retrocopies	retro_pabe_2294, retro_pabe_2645,
Pan troglodytes	ENSPTRG00000008668	2 retrocopies	retro_ptro_1814, retro_ptro_2256,
Drosophila melanogaster	FBgn0029067	1 retrocopy	retro_dmel_18 ,