RetrogeneDB ID: retro_dmel_80

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 2R:12661924..12663055(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0011743
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Arp87C
• Ensembl ID: FBgn0011745
• Aliases: None
• Description: Actin-related protein 87C [Source:FlyBase gene name;Acc:FBgn0011745]

Sequence

>retro_dmel_80
ATGAGCAGCGAGGTAGATAGTAATTCACACCACGCCGCAGTGGTTATTGACAACGGCTCTGGAGTATGTAAGGCTGGATT
CTCCCCAGAAGATACTCCCCGTGCTGTCTTCCCGTCGATTGTGGGCAGACCTCGTCACCTGAACGTCCTGCTGGATTCCG
TGATCGGTGATAGTGTTATTGGCGAGGCGGCAGCCCGAAAAAGGGGAATACTAACCCTAAAGTATCCCATCGAGCACGGA
ATGGTCAAGAACTGGGATGAAATGGAGATGGTTTGGCAGCACACGTACGAGCTCTTGCGGGCGGATCCAATGGATTTGCC
GGCTCTACTCACCGAAGCCCCACTGAATCCGAAGAAGAATAGAGAGAAGATGACAGAGATTATGTTCGAACACTTTCAGG
TGCCAGCTTTTTATGTAGCAGTTCAGGCTGTGCTCTCACTTTACGCCACCGGGCGTACTGTGGGCATTGTGGTGGACTCG
GGTGATGGTGTGACGCACACGGTACCGATCTACGAAGGATTTGCCCTGCCCCACGCCTGTGTACGAGTTGATCTGGCCGG
CAGGGACCTCACCGATTATCTATGCAAGCTGCTTCTGGAGAGGGGCGTTACAATGGGCACCTCTGCTGAACGGGAAATCG
TGCGTGAAATCAAGGAGAAACTCTGCTATGTGTCAATGAACTATGCCAAGGAAATGGATCTCCACGGAAAGGTGGAAACC
TATGAGCTGCCAGATGGGCAGAAAATCGTTTTGGGCTGCGAGAGATTCCGCTGCCCGGAGGCTCTCTTCCAACCCAGTTT
GCTGGGTCAGGAGGTGATGGGCATCCACGAGGCCACCCATCACTCGATAACCAACTGCGACATGGATCTGCGAAAGGATA
TGTATGCGAACATTGTTCTCTCTGGCGGTACGACCATGTTTCGTAACATCGAGCATAGATTCCTGCAAGACCTAACCGAA
ATGGCTCCACCATCCATCCGAATCAAGGTTAACGCTAGTCCAGACCGCAGATTCTCCGTTTGGACGGGTGGTTCCGTCTT
GGCCTCACTCACGAGCTTCCAAAACATGTGGATCGACAGCTTGGAGTACGAAGAAGTTGGTTCCGCCATAGTCCATCGAA
AGTGTTTTTAG

Alignment

ORF - retro_dmel_80 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.78 %
• Parental protein coverage: 97.07 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVIDNGSGVIKAGFAGEHIPKCRFPNYIGRPKHVRVMAGALEGDIFVGPKAEEHRGLLSIRYPMEHGIVT
          VVIDNGSGV.KAGF..E..P...FP...GRP.H..V......GD...G..A...RG.L...YP.EHG.V.
Retrocopy VVIDNGSGVCKAGFSPEDTPRAVFPSIVGRPRHLNVLLDSVIGDSVIGEAAARKRGILTLKYPIEHGMVK

Parental  DWNDMERIWSYIYSKEQLATFTEDHPVLLTEAPLNPRRNREKAAEFFFEGINAPALFVSMQAVLSLYATG
          .W..ME..W...Y..E.L.....D.P.LLTEAPLNP..NREK..E..FE....PA..V..QAVLSLYATG
Retrocopy NWDEMEMVWQHTY--ELLRADPMDLPALLTEAPLNPKKNREKMTEIMFEHFQVPAFYVAVQAVLSLYATG

Parental  RVTGVVLDSGDGVTHAVPIYEGFAMPHSIMRVDIAGRDVTRYLKTLIRREGFNFRSTAEFEIVRSIKEKV
          R..G.V.DSGDGVTH.VPIYEGFA.PH...RVD.AGRD.T.YL..L....G......AE.EIVR.IKEK.
Retrocopy RTVGIVVDSGDGVTHTVPIYEGFALPHACVRVDLAGRDLTDYLCKLLLERGVTMGTSAEREIVREIKEKL

Parental  CYLATNPQKEETVETEKFAYKLPDGKIFEIGPARFRAPEVLFRPDLLGEECEGIHDVLMYSIEKSDMDLR
          CY...N..KE.........Y.LPDG.....G..RFR.PE.LF.P.LLG.E..GIH.....SI...DMDLR
Retrocopy CYVSMNYAKEMDLHGKVETYELPDGQKIVLGCERFRCPEALFQPSLLGQEVMGIHEATHHSITNCDMDLR

Parental  KMLYQNIVLSGGSTLFKGFGDRLLSELKKHSAKDLKIRIAAPQERLYSTWMGGSILASLDTFKKMWISKR
          K..Y.NIVLSGG.T.F.....R.L..L.........I...A...R..S.W.GGS.LASL..F..MWI...
Retrocopy KDMYANIVLSGGTTMFRNIEHRFLQDLTEMAPPSIRIKVNASPDRRFSVWTGGSVLASLTSFQNMWIDSL

Parental  EYEEEGQKAVHRKTF
          EYEE.G...VHRK.F
Retrocopy EYEEVGSAIVHRKCF

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

3 EST(s) were mapped to retro_dmel_80 retrocopy

EST ID	Start	End	Identity	Match	Mis-match	Score
BF490336	12661946	12662383	99.8	435	1	433
CO182181	12662234	12662444	100	210	0	210
EY198943	12661810	12662395	100	532	0	531

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_80 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000138107	1 retrocopy	retro_hsap_2141,
Mus musculus	ENSMUSG00000025228	1 retrocopy	retro_mmus_2686,
Nomascus leucogenys	ENSNLEG00000015157	1 retrocopy	retro_nleu_2751,
Pongo abelii	ENSPPYG00000002605	1 retrocopy	retro_pabe_1930,
Pan troglodytes	ENSPTRG00000002894	1 retrocopy	retro_ptro_1567,
Pteropus vampyrus	ENSPVAG00000007116	1 retrocopy	retro_pvam_992,
Tarsius syrichta	ENSTSYG00000000406	1 retrocopy	retro_tsyr_2031,
Drosophila melanogaster	FBgn0011745	1 retrocopy	retro_dmel_80 ,