RetrogeneDB ID: retro_dmel_13

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:20499131..20500475(+)
• Located in intron of: FBgn0052425

Retrocopy information

• Ensembl ID: FBgn0037005
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CG11537
• Ensembl ID: FBgn0035400
• Aliases: None
• Description: None

Sequence

>retro_dmel_13
ATGTCCAAGTTCGGTCTGAAAAAGTTACTCGTATCGTTGGCCTCTACTTCGGGAATTGGAAAGCCAAGTGTTGGGCACAT
ACTAGTAGTTGTTTTTCTGGAATACTTCGCATGGGGCCTGCTAACAATGCCCATGATAGCCACTCTAAAGGAGACCTTCC
CAGACCACACGTTCCTAATGAACGGATTGGTCATGGGAGTCAAGGGAATACTCTCGTTTCTGTCGTCGCCCCTGATCGGA
GCTTTATCGGATATATATGGGCGGAAAGTGCTGCTCCTTATAACAGTGATCTTCACTTCCTTACCGATCCCCATGATGAC
CATGGATAACTGGTGGTTCTTTGTGATAAGTTCGATCAGTGGAGTATTGGGTGTTAGCTTCTCAGTGGCTTTCGCCTATG
TGGCGGATGTTACCACAAAGGAAGAGCGCTCTAGATCCTATGAACTTGTATCGGCCACCTTTGCTGCCAGCTTGGTGATC
GCCCCAGCAATGGGTAATCTCATAATGGATCGTTACGGAATTAATACTGTGGTGTTAGTAGCAACTTTGGTCTCCACAAC
GAACGTGATGTTTGTACTGCTGGCTGTGCCCGAAACATTACAACAAAACGTTAGATCCACTGGATTGAGCTGGAAACAAG
CGGATCCTTTTCTATCCCTGCGAAGAGTGGGCTCGGATCCTAATGTTCTGCTACTGTGCGTAGTGATGTTCACGTTTCTA
CTTCCCGAAGCTGGGGAATATTCCAGTGTGCCAGCCTATCTGAAACTAACAATGGGGTTTGATTTCACGGAACTCTCCAC
GCTGGTGGCGTTCATGGCCATATTAGGCATTTCGATAAACGTGACCTTGGGATCAATAGTGAAGACATTGGGTGCCAAGA
ATGCTATAATACTTGGATTGCTCCTGGAACTGTTGCAACTCATACTCTTCGCCATAGGATACGAAAAGTGGCAAATGTGG
CTAGCCGGAAATGTAGCTGCCCTGAGTTCCATCACCTTTCCGGCCGTGAGTGCCTACGTATCCCTCTACACGGATGTTGA
AACTCAAGGAGCAGTTCAGGGAATGATCACGGGAATGTCGGGATTGTGTAGTGGACTTGGACCCGCTCTGTTCGGTATCG
TATTCTACCTATCCGACATGGATTTGGATAAAAATCGAATTTTGATAGGCAGTGTAAGTGGAGATCGCACTGTGACCAAT
CCCTTTATGATTGGAGCTATCTCTGTGTTTATCGGCATTCTGTTGGCGTCATATATCCCAGATGAAAAGGTTTCCAGGGG
AAGGAGAGAGGAATTTTCCGCACTGAAGTATATTATTGAAATGGAGGAGGCGACAACAATATAG

Alignment

ORF - retro_dmel_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.67 %
• Parental protein coverage: 79.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SVFTSSGIGEPSVHHALVVIFLEFFAWGLLTMPIISTLNQTFPDHTFLMNGLVMGIKGILSFLSAPLIGA
          S....SGIG.PSV.H.LVV.FLE.FAWGLLTMP.I.TL..TFPDHTFLMNGLVMG.KGILSFLS.PLIGA
Retrocopy SLASTSGIGKPSVGHILVVVFLEYFAWGLLTMPMIATLKETFPDHTFLMNGLVMGVKGILSFLSSPLIGA

Parental  LSDIWGRKFFLLVTVFFTCLPIPLMSINTWWFFAMISISGAFAVTFSVVFAYVADVTTPEERSKAYGLAS
          LSDI.GRK..LL.TV.FT.LPIP.M....WWFF...SISG...V.FSV.FAYVADVTT.EERS..Y.L.S
Retrocopy LSDIYGRKVLLLITVIFTSLPIPMMTMDNWWFFVISSISGVLGVSFSVAFAYVADVTTKEERSRSYELVS

Parental  ATFAASLVISPALGNALMEMYGDTLVVALSTAIALLDVFFILVAVPESLSEKMRPASWGAPISWEQADPF
          ATFAASLVI.PA.GN..M..YG...VV...T......V.F.L.AVPE.L....R........SW.QADPF
Retrocopy ATFAASLVIAPAMGNLIMDRYGINTVVLVATLVSTTNVMFVLLAVPETLQQNVRSTG----LSWKQADPF

Parental  LALRKVGTDKTVLMLCLTVLLSYLPEAGEYSCMFVYLKLKMGFNYVEVSVFIAIVGILSITVQVTLGSFM
          L.LR.VG.D..VL.LC.......LPEAGEYS....YLKL.MGF...E.S...A...IL.I...VTLGS..
Retrocopy LSLRRVGSDPNVLLLCVVMFTFLLPEAGEYSSVPAYLKLTMGFDFTELSTLVAFMAILGISINVTLGSIV

Parental  QVFGAKRTIIMGLALEIVQLLWYGFGSQKWMMWSAGVVAALGSITYPAISAFVSLYAAPESQGAVQGMIT
          ...GAK..II.GL.LE..QL.....G..KW.MW.AG.VAAL.SIT.PA.SA.VSLY...E.QGAVQGMIT
Retrocopy KTLGAKNAIILGLLLELLQLILFAIGYEKWQMWLAGNVAALSSITFPAVSAYVSLYTDVETQGAVQGMIT

Parental  GMRGLCNGLGPAVFGVVFYLFNVDLNDDHDSHAKSSGSR
          GM.GLC.GLGPA.FG.VFYL...DL..........SG.R
Retrocopy GMSGLCSGLGPALFGIVFYLSDMDLDKNRILIGSVSGDR

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_13 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_13 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010468	1 retrocopy	retro_chof_2174,
Echinops telfairi	ENSETEG00000005809	1 retrocopy	retro_etel_2047,
Loxodonta africana	ENSLAFG00000015429	1 retrocopy	retro_lafr_793,
Myotis lucifugus	ENSMLUG00000002112	1 retrocopy	retro_mluc_718,
Oryctolagus cuniculus	ENSOCUG00000007819	1 retrocopy	retro_ocun_1386,
Ochotona princeps	ENSOPRG00000001014	1 retrocopy	retro_opri_536,
Drosophila melanogaster	FBgn0035400	1 retrocopy	retro_dmel_13 ,