RetrogeneDB ID: retro_dmel_45

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:7319991..7321428(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0035763
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CG12194
• Ensembl ID: FBgn0031636
• Aliases: None
• Description: None

Sequence

>retro_dmel_45
ATGGCGCGCGAGGACGAGGAACGCATCGTGGACAATGAGGAGGTGTCGCGACCGACGGAGGAGGACCAAGTGGTCAGTCG
GGCCGGTCGGCGTGACAATGAACTGAGCCTTCCGTCCGGCGGCTGCTGCATGCCCTCGAGCACGAGCCACCGGTTCATGG
CTCTGGTGTTCATGTGCCTGCTGGGATTCGGCTCCTATTTCTGTTACGATGCACCCGGCGCCCTGCAGAACTATTTCAAG
AAAGATCTTAATCTGACCTCCGCCCAGTTCACACTCATCTACTCGATTTACTCGTGGCCCAATGTCGTCCTGTGCTTCGT
GGGAGGTTTCCTGATCGATCGACTGTTTGGCATTCGACTGGGCACGATTATCTACATGATGATCCTGCTGGTGGGTCAGT
TGATCTTTGCCTGCGGCGGCATTCTGGACGCCTTCTGGATGATGATCCTGGGACGGTTTATCTTCGGCATTGGCGCCGAA
TCACTGGCGGTGGCCCAGAACAGCTATGCGGTGCTCTGGTTTAAGGGCAAGGAACTGAACATGGTATTCGGCCTGCAGCT
GTCGGTTGCCCGATTCGGCAGCACCGTCAACTTCTGGGTGATGCAGCCCATCTATGAGTATGTGAGCAATTTTTACAAGG
GACATACCGCTCTAGGCGTCGTCTTATTGCTGGCTACCCTCACCTGTGTGATGTCGATGACCTGTGCCCTCATCCTCGGC
TGGATGGACAAGAGGGCCGAGCGGATTTTGCAGCGTAACAACAACCCGGCTGGACAGATACCGAAACTCACCGATGTCTT
TTCGTTCAAACCACCCTTTTGGATGGTATCCATCATTTGCGTCGCCTACTATGTGGCCATCTTCCCATTCATTGCCCTCG
GACAGAATTTCTTTGTTGATCGCTTCGGGCTTTCGCCTGCTGAGGCCAACACCGTGGACTCGCTGGTGTATCTAATTGCA
GCCGTATCGTCTCCGGTCTTTGGTTTCATCATCGACAAACTGGGTAGGAATGTGACCTGGGTGTTCACAGCGACACTGAC
CACCATTGGAGCCCATGCCCTGCTTACGTTCACCCAGCTGACACCCTATGTGGGCATGATCATCATGGGACTGTCGTATT
CCATGCTGGCCGCAAGCCTGTGGCCTCTGGTGGCTCTCATCATTCCGGAATACCAATTGGGCACGGCCTACGGCTTCTGC
CAATCGATACAGAATCTTGGCTTGGCGGTCATCACTATCGTGGCTGGAATTATCGTGGATCACAGCGGCGGCGAGCACAT
GTGGCTGCAGTTGTTCTTCATGGGCTGGCTGACCATTGCCCTGATCTCCACCGGCGTCATCTGGGCCTACAACAACAAGA
ACCGCGGTAATCTCAACATGACACCCCAGCAACGGGCACAGTTCGTCAGCGCCGAGAATTATCAGAACTTTGAATAG

Alignment

ORF - retro_dmel_45 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.89 %
• Parental protein coverage: 97.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSREERKPIVSSSSSSTCSSSDDEVHPVVRRRSTRDTELAGHQKDAGCCDPTSTPHRFLALLFMCLLGFG
          M.RE....IV.....S.....D.....VV.R...RD.EL.......GCC.P.ST.HRF.AL.FMCLLGFG
Retrocopy MAREDEERIVDNEEVSRPTEEDQ----VVSRAGRRDNELS--LPSGGCCMPSSTSHRFMALVFMCLLGFG

Parental  SYFCYDNPGALQDVFQKELQLSSTEFTLIYSIYSWPNIVLCFVGGFLIDRVFGIRLGTIIYMLIVLVGQL
          SYFCYD.PGALQ..F.K.L.L.S..FTLIYSIYSWPN.VLCFVGGFLIDR.FGIRLGTIIYM.I.LVGQL
Retrocopy SYFCYDAPGALQNYFKKDLNLTSAQFTLIYSIYSWPNVVLCFVGGFLIDRLFGIRLGTIIYMMILLVGQL

Parental  IFATGGVLGHFWLMIVGRFVFGIGAESLAVAQNSYAVLWFKGKEINMVFGLQLSVARFGSTVNFWIMQPL
          IFA.GG.L..FW.MI.GRF.FGIGAESLAVAQNSYAVLWFKGKE.NMVFGLQLSVARFGSTVNFW.MQP.
Retrocopy IFACGGILDAFWMMILGRFIFGIGAESLAVAQNSYAVLWFKGKELNMVFGLQLSVARFGSTVNFWVMQPI

Parental  YGYVSKSYSGYKGLGVALFLASSTCVMSLVCTLILGWMDKRAERILKRNNNPGGELAKLSDIVTFKLDFW
          Y.YVS..Y.G...LGV.L.LA..TCVMS..C.LILGWMDKRAERIL.RNNNP.G...KL.D...FK..FW
Retrocopy YEYVSNFYKGHTALGVVLLLATLTCVMSMTCALILGWMDKRAERILQRNNNPAGQIPKLTDVFSFKPPFW

Parental  MVSVVCVAYYVAIFPFVALGQAFFVSNFHMTPDEANTVNSIVYLISAIASPLFGFVIDKVGRNVTWVFCA
          MVS..CVAYYVAIFPF.ALGQ.FFV..F...P.EANTV.S.VYLI.A..SP.FGF.IDK.GRNVTWVF.A
Retrocopy MVSIICVAYYVAIFPFIALGQNFFVDRFGLSPAEANTVDSLVYLIAAVSSPVFGFIIDKLGRNVTWVFTA

Parental  TISTLLAHFLLTFTHLDPYIGMSIMGLSYSMLAASLWPLVSLIVPEYQLGTAYGFCQSVQNLGLAVVTIA
          T..T..AH.LLTFT.L.PY.GM.IMGLSYSMLAASLWPLV.LI.PEYQLGTAYGFCQS.QNLGLAV.TI.
Retrocopy TLTTIGAHALLTFTQLTPYVGMIIMGLSYSMLAASLWPLVALIIPEYQLGTAYGFCQSIQNLGLAVITIV

Parental  AGIIVDSSGGSHFWLQVFFMSFLLVSLLATCAIWAYNRKHQGNLNMSPAQRATY
          AGIIVD.SGG.H.WLQ.FFM..L...L..T..IWAYN.K..GNLNM.P.QRA..
Retrocopy AGIIVDHSGGEHMWLQLFFMGWLTIALISTGVIWAYNNKNRGNLNMTPQQRAQF

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_45 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_45 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009263	1 retrocopy	retro_btau_1323,
Dasypus novemcinctus	ENSDNOG00000005048	1 retrocopy	retro_dnov_1121,
Macaca mulatta	ENSMMUG00000023510	1 retrocopy	retro_mmul_1210,
Oryctolagus cuniculus	ENSOCUG00000001272	1 retrocopy	retro_ocun_1528,
Pongo abelii	ENSPPYG00000014247	1 retrocopy	retro_pabe_1427,
Tupaia belangeri	ENSTBEG00000013974	1 retrocopy	retro_tbel_1396,
Tursiops truncatus	ENSTTRG00000002207	2 retrocopies	retro_ttru_1119, retro_ttru_1271,
Drosophila melanogaster	FBgn0031636	1 retrocopy	retro_dmel_45 ,