RetrogeneDB ID: retro_dmel_24

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:4648671..4650135(+)
• Located in intron of: FBgn0262870

Retrocopy information

• Ensembl ID: FBgn0052238
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CG8918
• Ensembl ID: FBgn0030823
• Aliases: None
• Description: None

Sequence

>retro_dmel_24
ATGGCCGTTGTTTGGGACATGAGTCAATGGACGCAGGCGTGGCGGATCGACAGTCTGCATCCGACGGTCCGCTCGAGCGG
TACAAGAACCACAACGAGCGGTACAATCATGTACGGTCGCACGTCGGTCGGTGCAAATCAATCCGTGACGAATGGCAACT
CAAATAGTGGCGCAAATAGCGGCGGTGGTGCCAGTGGTGGTGCCCAGGGACACGATAAACTGAAAATTGGCTTCTGCACG
GACCTGGATAAATCGGTTTTGGTCAACAATTTCGAGAAACGTGGCTGGCATCAGGTGAATGGCGATGATGATTGGCATTT
CTATTGGGCCGGAGTGCAAACCTGCCGGAATATATTCAGTGTGGATAGTGGTTATAGGATGCACGATAACCAGATGATCA
ATCATTTTCCCAATCACTATGAATTATCACGCAAGGATTTACTGGTCAAGAACATCAAGCGTTATCGCAAGGATCTCGAG
AGGGATGGCAATCCATTGGCGGAGAAAACAGAGTCCAATAACTCCAGTGGCACCAGATATCTTTATTTGGATTTTGTGCC
AACAACTTTTGTCCTGCCAGCCGATTATAATATGTTCGTGGAGGAGTATCGCAAGTTTCCGCTGAGTACGTGGATTATGA
AACCCTGTGGAAAATCCCAAGGAGCGGGTATATTCCTTATAAACAAACTATCCAAACTCAAGAAGTGGTCAAGAGAGGCC
AAGGGTCCTTTTCATCCACAAATAGCCAAGGAATCGTATGTGATATCCAGATACATAGACAATCCACTATTGATTGGTGG
TAAAAAATTTGATCTTCGTCTATATGTTCTAGTCGCTTCGTTCAGACCCCTGAAAGCTTATCTTTTTAAGCAGGGATTCT
GCCGTTTTTGTACTGTAAAATACGATACTAGTGTTACGGAACTGGATAATATGTACGTCCATCTGACAAATGTGAGTGTG
CAGAAACATGGTGGCGAATACAATACCCTACATGGTGGCAAGTGGTCTGTACAAAATCTGGCCCTCTATTTGGAAGGAAC
TCGGGGAAAAGAGGTTACGGATCGTTTGTTTGGAGCCATATCCTGGCTTATAGTACACTCCTTAAGAGCTGTGGCTCCTG
TGATGGCCAGTGATAGGCATTGTTTTGAGTGTTATGGCTACGACATCATCATAGACAATGCCTTGAAACCTTGGCTAGTG
GAGGTGAATGCCTCACCGTCACTCACATCAACTACAGTAAACGACAGGATACTAAAATACAAACTGATTGACAACATACT
GTCCGTGGTCCTACCCCCCGATGGAGTGCCCGATGTGCGTTGGAATAAGGTTCCCAGTGCCGATGCTTTGGGCAACTTTG
AGCTGCTCATCGATGAGGAGTTGGCCGCCCAGGATGAACAACACCAAAATAGCAGCAGCAACACTCATAGTAAAACATCC
AAAATGGGCAGCCGATGGAAGTGA

Alignment

ORF - retro_dmel_24 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.81 %
• Parental protein coverage: 82.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IYYSTDWDKSALVSNFQKRGWLQVPSFNGEWNFYWACTQNCRYIFGIDHPYRMRSDQVINHFPNSIELSR
          I...TD.DKS.LV.NF.KRGW.QV......W.FYWA..Q.CR.IF..D..YRM...Q.INHFPN..ELSR
Retrocopy IGFCTDLDKSVLVNNFEKRGWHQVNG-DDDWHFYWAGVQTCRNIFSVDSGYRMHDNQMINHFPNHYELSR

Parental  KDLLIKNIKRYRKDLERRGDPLAQSHPPDTKLGIGGTRYKHLDIIPMTFVLPSDYQMFVEVFHRNPASTW
          KDLL.KNIKRYRKDLER.G.PLA............GTRY..LD..P.TFVLP.DY.MFVE.....P.STW
Retrocopy KDLLVKNIKRYRKDLERDGNPLAEKTESNNS---SGTRYLYLDFVPTTFVLPADYNMFVEEYRKFPLSTW

Parental  IVKPCSKSQGVGIYLVNKLSKLKKFAYDAR-TFYPQINRDTCVISKYIDNPLLIGGKKFDLRLFVLVTTF
          I.KPC.KSQG.GI.L.NKLSKLKK....A...F.PQI.....VIS.YIDNPLLIGGKKFDLRL.VLV..F
Retrocopy IMKPCGKSQGAGIFLINKLSKLKKWSREAKGPFHPQIAKESYVISRYIDNPLLIGGKKFDLRLYVLVASF

Parental  NPLKAYLYKEGFCRFCTEKYDE--TEIDNVFMHLTNVSIQKTNQEYNSIHGGKWPLQNLWLYLDSLRGEG
          .PLKAYL.K.GFCRFCT.KYD...TE.DN...HLTNVS.QK...EYN..HGGKW..QNL.LYL...RG..
Retrocopy RPLKAYLFKQGFCRFCTVKYDTSVTELDNMYVHLTNVSVQKHGGEYNTLHGGKWSVQNLALYLEGTRGKE

Parental  VSDMLWSRITATIRHSLDAVAPVMANDRHCFEVYGYDIIIDNNLKPWLIEINTSPSMHSTTTNDRMLKSR
          V.D.L...I...I.HSL.AVAPVMA.DRHCFE.YGYDIIIDN.LKPWL.E.N.SPS..STT.NDR.LK..
Retrocopy VTDRLFGAISWLIVHSLRAVAPVMASDRHCFECYGYDIIIDNALKPWLVEVNASPSLTSTTVNDRILKYK

Parental  LIDNVLDVVVPPNCMPNEHWDKTPNPELLKNFTVLMPISPCKPKEQVPVRRKGRLSKKKKSKS
          LIDN.L.VV.PP...P...W.K.P....L.NF..L.........EQ.........SK..K..S
Retrocopy LIDNILSVVLPPDGVPDVRWNKVPSADALGNFELLIDEELAAQDEQHQNSSSNTHSKTSKMGS

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_24 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_24 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000004854	1 retrocopy	retro_eeur_145,
Oryctolagus cuniculus	ENSOCUG00000016224	1 retrocopy	retro_ocun_1952,
Tursiops truncatus	ENSTTRG00000007375	1 retrocopy	retro_ttru_709,
Drosophila melanogaster	FBgn0030823	1 retrocopy	retro_dmel_24 ,