RetrogeneDB ID: retro_dmel_64

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:581562..582621(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0035143
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CG17746
• Ensembl ID: FBgn0035425
• Aliases: None
• Description: None

Sequence

>retro_dmel_64
ATGGGACAGACACTGTCGGAACCAGTGACCACCAAGGACACCGCTTGCTGTGCCAATGCAAGCTATCGCGTGGGCTCATC
ATGCATGCAAGGATGGCGCGTGGATATGGAGGACGCCCACACCCACATTCTTTCCCTGCCGGATGACCCGCAGGCGGCCT
TCTTCGCCGTTTACGACGGACACGGTGGAGCTTCAGTGGCCAAGTACGCTGGTAAGCATTTGCACAAGTTCATTACGAAG
CGGCCGGAGTATCGGGACAATAGCATTGAGGTGGCCTTGAAAAAGGCCTTCCTCGACTTCGATCGGGAGATGCTGCAAAA
TGGCTCCCTTGATGAGCAAACGGCCGGCTGCACTGCCATTGTGGTGCTCATTAGGGAGCGTCGCCTGTACTGTGCCAATG
CGGGCGATTCGCGGGCCATCGCCTGCATTTCTGGAATGGTTCACGCCCTGTCCGTCGACCACAAGCCGAATGACGCGAAG
GAGTCCAAACGGATCATGGCCAGCGGTGGTTGGGTGGAGTTTAATCGGGTCAATGGCAATCTGGCCCTTTCCCGCGCCCT
CGGCGACTTTATCTACAAGAAGAACTTACTAAAGACTCCAGAAGAGCAAATCGTGACGGCCTATCCCGACGTGGAGGTTC
TTGACATCACCGAAGACTTGGAGTTTGTCCTGCTGGCCTGCGACGGGATCTGGGATGTGATGAGCAACTTCGAAGTCTGC
CAGTTCGTGCACAAGCGCATACGCGATGGCATGGAGCCGGAACTCATTTGCGAGGAACTGATGAACAGCTGCTTGTCTCC
GGATGGCCACACGGGCAATGTGGGCGGCGACAACATGACCGTCATCCTGGTGTGCCTGCTGCACAACAAGAGCTACGAGG
ATCTGGCGGTGCGCTGCGGAGGCAAACGAAAGACCCCCGTTGAAACCGTAGGCGACATCCAGGATCAGTCGGTGAAGGTC
GTAACTCCCTGTTCTCAGGGATCTTCGGGGTCGTCGACTTCTCGATTGGGCCTGGGCTTCGGACTTCGCGAAAGCGAAAC
TCCCGAGGCTAATCTTTAA

Alignment

ORF - retro_dmel_64 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.9 %
• Parental protein coverage: 80.05 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGQTLSEPVTAKESAYCQNAAYRVGSSCMQGWRINMEDSHTHILSLPDDPGAAFFAVYDGHGGATVAQYA
          MGQTLSEPVT.K..A.C.NA.YRVGSSCMQGWR..MED.HTHILSLPDDP.AAFFAVYDGHGGA.VA.YA
Retrocopy MGQTLSEPVTTKDTACCANASYRVGSSCMQGWRVDMEDAHTHILSLPDDPQAAFFAVYDGHGGASVAKYA

Parental  GKHLHKYVLKRPEYNDN-IEQALQQGFLDIDYVMLRNKTCGDQMAGSTAVVVLVKDNKLYCANAGDSRAI
          GKHLHK...KRPEY.DN.IE.AL...FLD.D..ML.N.....Q.AG.TA.VVL.....LYCANAGDSRAI
Retrocopy GKHLHKFITKRPEYRDNSIEVALKKAFLDFDREMLQNGSLDEQTAGCTAIVVLIRERRLYCANAGDSRAI

Parental  ACVNGQLEVLSLDHKPNNEAESKRIIQGGGWVEFNRVNGNLALSRALGDYVFKHE-NKKPEDQIVTAFPD
          AC..G....LS.DHKPN...ESKRI...GGWVEFNRVNGNLALSRALGD...K....K.PE.QIVTA.PD
Retrocopy ACISGMVHALSVDHKPNDAKESKRIMASGGWVEFNRVNGNLALSRALGDFIYKKNLLKTPEEQIVTAYPD

Parental  VETRKIMDDWEFIVLACDGIWDVMSNAEVLEFCRTRIGMGMFPEEICEELMNHCLAPDCQMGGLGGDNMT
          VE...I..D.EF..LACDGIWDVMSN.EV..F...RI..GM.PE.ICEELMN.CL.PD...G..GGDNMT
Retrocopy VEVLDITEDLEFVLLACDGIWDVMSNFEVCQFVHKRIRDGMEPELICEELMNSCLSPDGHTGNVGGDNMT

Parental  VVLVCLLHGRPYSDLIARC
          V.LVCLLH...Y.DL..RC
Retrocopy VILVCLLHNKSYEDLAVRC

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

1 EST(s) were mapped to retro_dmel_64 retrocopy

EST ID	Start	End	Identity	Match	Mis-match	Score
BE978707	581669	581978	95.2	294	15	279

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_64 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000021096	2 retrocopies	retro_mmus_2925, retro_mmus_2926,
Mus musculus	ENSMUSG00000061130	1 retrocopy	retro_mmus_468,
Oryctolagus cuniculus	ENSOCUG00000005461	1 retrocopy	retro_ocun_1094,
Otolemur garnettii	ENSOGAG00000003689	1 retrocopy	retro_ogar_1834,
Drosophila melanogaster	FBgn0035425	1 retrocopy	retro_dmel_64 ,
Drosophila melanogaster	FBgn0086361	1 retrocopy	retro_dmel_66,