RetrogeneDB ID: retro_dmel_32

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: X:12267277..12268312(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0030384
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CkIalpha
• Ensembl ID: FBgn0015024
• Aliases: None
• Description: Casein kinase Ialpha [Source:FlyBase gene name;Acc:FBgn0015024]

Sequence

>retro_dmel_32
ATGGAACGACTGCGCTCCTCCCAAAACCGCGAAGTGCGAATCGGCAACTATAAGGTGGTGCGCAAGATCGGCTGTGGATC
CTTCGGCGATATATATCTGGGCATCTATATCCACAGTGGGGAGCGGGTGGCCATCAAGGTGGAAAGCAGCAAGGTGCGCC
ATCCGCAGCTCAACTACGAGAGGCGAATCTACCGCGCCCTGAGGCCCGCCCACGGTTTGCCAAGGATTAGGTACTTCCAC
AAGGAGGAGCACTACCAGGCGATGGTTATGGATCTGCTTGGTCCCTCGCTGGAGAGACTCTTTCAGTTCTGCGAAAGGGC
ATTCACCATCAAGACCGTTCTGCTTCTGGCCGAACAGATGCTTCGCCGGGTGGAGTATGTCCATAACCGGGGATTCCTGC
ACCGCGACATCAAGCCGGATAACTTCCTGATGGGTCTGGGTACCATGTCCAAGCAAGTGTACCTCATCGATTTCGGGCTA
TCCAAGAAGTATCTGGACATAACCACTGGTGTCCATATACCATATCGCGAGGAGCGTTCCTTGACGGGAACAGCCAGGTA
CGCCTCCATTGGCGCCCATGCCGGCGTCGAATCCGCCAGAAGGGATGACATGGTGGCCGTTGGCTATGTCCTTATGTACT
TCAATCGGGGATCACTGCCGTGGCAGGATTTAAAGGCGTCCACCAAGCAGCAGAAATATGAACGCATACATGAGAAAAAG
ATCTCGGTAAGCATTGAGGTACTTTGCGAGGGATTTCCCTGCGAGTTCACAATGTACTTAAACTACTGCCGCGGCATGGG
ATTCTACGATAAGCCCAACTACGACTTCATCTGCCGCATGTTTCGGATGCTGCGGAATGGTCTCAATCTTCGGCCGGGTC
TCATCTACGACTGGGACATGCTGATGATGAAGTTCCACAATACTCAGAAAAATCCTGGCATTGGAATGCGTGTATTTCCA
CCTAAACAGAAGGAAGATGATGGTATCAGCGGTGAGCCGATCATCAAAGATGAGAAGTGCAACTTCTGGCCGTGA

Alignment

ORF - retro_dmel_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.68 %
• Parental protein coverage: 99.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRILKESRPEIIVGGKYRVIRKIGSGSFGDIYLGMSIQSGEEVAIKMESAHARHPQLLYEAKLYRILSGG
          M..L..S.......G.Y.V.RKIG.GSFGDIYLG..I.SGE.VAIK.ES...RHPQL.YE...YR.L...
Retrocopy MERLRSSQNREVRIGNYKVVRKIGCGSFGDIYLGIYIHSGERVAIKVESSKVRHPQLNYERRIYRALRPA

Parental  VGFPRIRHHGKEKNFNTLVMDLLGPSLEDLFNFCTRHFTIKTVLMLVDQMIGRLEYIHLKCFIHRDIKPD
          .G.PRIR...KE......VMDLLGPSLE.LF.FC.R.FTIKTVL.L..QM..R.EY.H...F.HRDIKPD
Retrocopy HGLPRIRYFHKEEHYQAMVMDLLGPSLERLFQFCERAFTIKTVLLLAEQMLRRVEYVHNRGFLHRDIKPD

Parental  NFLMGIGRHCNKLFLIDFGLAKKFRDPHTRHHIVYREDKNLTGTARYASINAHLGIEQSRRDDMESLGYV
          NFLMG.G.......LIDFGL.KK..D..T..HI.YRE...LTGTARYASI.AH.G.E..RRDDM...GYV
Retrocopy NFLMGLGTMSKQVYLIDFGLSKKYLDITTGVHIPYREERSLTGTARYASIGAHAGVESARRDDMVAVGYV

Parental  MMYFNRGVLPWQGMKANTKQQKYEKISEKKMSTPIEVLCKGSPAEFSMYLNYCRSLRFEEQPDYMYLRQL
          .MYFNRG.LPWQ..KA.TKQQKYE.I.EKK.S..IEVLC.G.P.EF.MYLNYCR...F...P.Y......
Retrocopy LMYFNRGSLPWQDLKASTKQQKYERIHEKKISVSIEVLCEGFPCEFTMYLNYCRGMGFYDKPNYDFICRM

Parental  FRILFRTLNHQYDYIYDWTMLKQKTHQGQPNPAI---LLEQLDKDKEKQNGKPLIAD
          FR.L...LN.....IYDW.ML..K.H..Q.NP.I.........K......G.P.I.D
Retrocopy FRMLRNGLNLRPGLIYDWDMLMMKFHNTQKNPGIGMRVFPPKQKEDDGISGEPIIKD

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_32 retrocopy

EST ID	Start	End	Identity	Match	Mis-match	Score
BF491838	12267243	12267777	100	534	0	534
CO184963	12267624	12267896	98.9	269	3	266
EC052025	12267276	12267668	99	388	4	384
EC052540	12267276	12267716	100	440	0	440
EC056456	12267276	12267727	100	451	0	451

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_32 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 15 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005326	2 retrocopies	retro_btau_1662, retro_btau_49,
Canis familiaris	ENSCAFG00000018286	1 retrocopy	retro_cfam_1887,
Callithrix jacchus	ENSCJAG00000021121	1 retrocopy	retro_cjac_2680,
Homo sapiens	ENSG00000113712	1 retrocopy	retro_hsap_32,
Gorilla gorilla	ENSGGOG00000013926	3 retrocopies	retro_ggor_1178, retro_ggor_742, retro_ggor_984,
Myotis lucifugus	ENSMLUG00000002910	4 retrocopies	retro_mluc_1531, retro_mluc_2134, retro_mluc_2215, retro_mluc_597,
Macaca mulatta	ENSMMUG00000001758	2 retrocopies	retro_mmul_2207, retro_mmul_295,
Monodelphis domestica	ENSMODG00000009937	1 retrocopy	retro_mdom_2005,
Oryctolagus cuniculus	ENSOCUG00000006669	7 retrocopies	retro_ocun_1068, retro_ocun_1098, retro_ocun_1506, retro_ocun_500, retro_ocun_502, retro_ocun_506, retro_ocun_644,
Otolemur garnettii	ENSOGAG00000003253	2 retrocopies	retro_ogar_1195, retro_ogar_825,
Sorex araneus	ENSSARG00000011446	1 retrocopy	retro_sara_518,
Sarcophilus harrisii	ENSSHAG00000015356	1 retrocopy	retro_shar_834,
Sus scrofa	ENSSSCG00000014435	1 retrocopy	retro_sscr_560,
Ictidomys tridecemlineatus	ENSSTOG00000022141	1 retrocopy	retro_itri_1378,
Drosophila melanogaster	FBgn0015024	4 retrocopies	retro_dmel_10, retro_dmel_32 , retro_dmel_40, retro_dmel_67,