RetrogeneDB ID: retro_dmel_8

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:275337..276567(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0035124
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ttm50
• Ensembl ID: FBgn0250874
• Aliases: None
• Description: tiny tim 50 [Source:FlyBase gene name;Acc:FBgn0250874]

Sequence

>retro_dmel_8
ATGTCTTTAATAGCCATTGAAAGGGTGTTATGTGGCTGGCCCAAGATTTGCCGCAAACTTATTGTAACGTCGCGGTCGCT
GACCTCCGGCTTGCGGCGGGCACTGGTCAAGCAGCCCCGTAAAGGCGGAGATGTTGGAAAACCCGGAATGGAGCTTGGGC
GCTGTTCGTGCTTTGGACTCCGTGTGAACCTCAGCAATGCATCCGTCGTATACGTTGGCCACCGACGCTACTCGACGTAC
GAGAAGACGTCTACGCAAATTTTAACGAAGCTCTTTCCACAAACCTCTGAGGAGTCCAACGACGAGGAAAGTCGTGAGCG
GCGGAAACTTGAGGAGGAGGAGGAGCAGAAGGAATTGGAGCGGGCATTTAGGCGGATGAAACTGGGCTTTGGGCTTTTCG
GCATAGGTAGCATGTTGTTCTCGTTTTGGGCTATATATTTCTATGGAAGGCCGTCCTTGGATGAGCACGGAAATGAAGTA
ATCGACGAATTTAGTTGTCTGCCACAGATGCAGCAGCTTATGTGGCGGACATGGAAGTCGGTGAACCGCTTTCAACGGTT
TTTCAAAGAGCCGTCGAGAAAAAAGCTGCTTCCTGATCCCCTTCAGCCCCCCTACGTGCAGCCGCCGTATACTTTGGTAC
TTGAGATTAAGGATGTGCTGGTACATCCCGATTGGACCTACGAAACAGGATGGCGCTTCAAGAAGCGCCCTGGCGTTGAC
GTGTTTTTGAAAGAATGTGCCAAGTATTTTGAGATTGTTGTTTACACGGCGGAGCAAGGAGTTACTGTGTTCCCGCTGGT
CGACGCGCTTGATCCGAACGGCTGTATTATGTATCGCCTGGTTCGCGACTCTACGCACTTTGATGGAGGGCACCACGTGA
AGAACCTTGACAACCTCAACCGAGACCTAAAGCGAGTGGTTGTCGTGGACTGGGATAGAAATTCCACCAAGTTTCACCCT
TCGAATTCATTCTCGATCCCGCGGTGGTCTGGAAACGACAATGACACTACCCTCTTTGAACTCACGTCGTTTCTTAGTGT
TCTAGGAACGAGTGAGATCGACGATGTCCGAGAAGTGCTGCAATACTACAATCAGTTTAGTGACTCGTTATCCCAGTTCA
GAGAAAACCAGCGAAAGCTGGGTGAGCTAATGCACGCCGAGGAGGTAGAAAAAACTAGCAAGTCTAGGCCCGTTGTCAAG
AACTGGACCCGTGGCTTCATAAATCATTAA

Alignment

ORF - retro_dmel_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.24 %
• Parental protein coverage: 74.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLAKLFPQTSPEVDSNAEQERKKREEEEE-KENERAWKRMKLGFAIFGGSAVAAGFWAVYEFGKPEVDPN
          .L.KLFPQTS.E.......ER.K.EEEEE.KE.ERA..RMKLGF..FG.......FWA.Y..G.P..D..
Retrocopy ILTKLFPQTSEESNDEESRERRKLEEEEEQKELERAFRRMKLGFGLFGIGSMLFSFWAIYFYGRPSLDEH

Parental  GQPIEDEFTHKPLVQQYLQRMWKSIHYYQRMIQEPSRAKLLPDPLKPPYVQPRYTLVLEMKDVLVHPDWT
          G....DEF...P..QQ...R.WKS....QR...EPSR.KLLPDPL.PPYVQP.YTLVLE.KDVLVHPDWT
Retrocopy GNEVIDEFSCLPQMQQLMWRTWKSVNRFQRFFKEPSRKKLLPDPLQPPYVQPPYTLVLEIKDVLVHPDWT

Parental  YQTGWRFKKRPGVDHFLAECAKDFEIVVFTAEQGMTVFPILDALDPNGYIMYRLVRDATHFVDGHHVKNL
          Y.TGWRFKKRPGVD.FL.ECAK.FEIVV.TAEQG.TVFP..DALDPNG.IMYRLVRD.THF..GHHVKNL
Retrocopy YETGWRFKKRPGVDVFLKECAKYFEIVVYTAEQGVTVFPLVDALDPNGCIMYRLVRDSTHFDGGHHVKNL

Parental  DNLNRDLKKVIVVDWDANATKMHPDNTFGLARWHGNDDDGQLLDLIAFLKIIAQNNVDDVREVLHYYRQF
          DNLNRDLK.V.VVDWD.N.TK.HP.N.F...RW.GND.D..L..L..FL........DDVREVL.YY.QF
Retrocopy DNLNRDLKRVVVVDWDRNSTKFHPSNSFSIPRWSGNDNDTTLFELTSFLSVLGTSEIDDVREVLQYYNQF

Parental  DDPINQFRENQRKLAEQMLEAERIEQSKTKPMVKQWSRNIL
          .D...QFRENQRKL.E.M...E....SK..P.VK.W.R...
Retrocopy SDSLSQFRENQRKLGELMHAEEVEKTSKSRPVVKNWTRGFI

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

5 EST(s) were mapped to retro_dmel_8 retrocopy

EST ID	Start	End	Identity	Match	Mis-match	Score
AI946848	275823	276234	100	411	0	411
BF486565	275214	275859	100	645	0	645
CK658885	275222	275893	100	671	0	671
CO182627	275696	276176	99.4	476	2	471
CO185155	275696	276075	99.8	376	0	373

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_8 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000019376	1 retrocopy	retro_mmul_143,
Oryctolagus cuniculus	ENSOCUG00000002166	1 retrocopy	retro_ocun_1046,
Drosophila melanogaster	FBgn0250874	2 retrocopies	retro_dmel_72, retro_dmel_8 ,