RetrogeneDB ID: retro_dmel_10

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3R:26882250..26883573(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0002413
• 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_10
ATGGAGCTGCGCGTGGGTAACAAATATCGCCTGGGCCGCAAGATAGGATCGGGATCGTTCGGCGACATCTACCTGGGCAC
CACGATCAACACTGGCGAGGAGGTGGCCATCAAGCTGGAGTGCATCCGCACCAAACACCCCCAGCTGCACATCGAGTCAA
AGTTCTACAAGACGATGCAGGGTGGCATAGGCATACCCCGCATAATCTGGTGCGGCAGCGAGGGCGACTACAATGTGATG
GTGATGGAGCTACTCGGACCCTCGCTGGAGGACCTCTTCAACTTTTGTTCACGCCGCTTTTCGTTGAAGACGGTTCTGCT
GCTGGCGGACCAGATGATCTCCCGCATCGATTACATACACTCGCGGGACTTCATCCATCGCGACATCAAGCCGGATAACT
TCCTCATGGGTCTTGGCAAAAAGGGCAACCTGGTGTACATCATTGACTTTGGCCTGGCCAAGAAATTCCGCGATGCCCGG
TCGCTGAAGCACATTCCCTATCGGGAAAACAAGAACCTCACGGGCACTGCCCGCTATGCCTCCATCAACACACATTTGGG
CATTGAGCAATCGCGTCGTGACGACCTGGAGTCCCTGGGCTACGTCCTAATGTACTTCAATCTGGGCGCCTTGCCCTGGC
AGGGCTTAAAGGCAGCCAACAAGAGGCAAAAGTACGAGAGGATCTCGGAGAAGAAGCTGTCCACCTCGATTGTGGTGCTG
TGCAAGGGCTTCCCCAGCGAGTTCGTCAACTATCTGAACTTCTGTCGCCAGATGCATTTCGACCAGCGTCCCGATTACTG
CCACCTGCGCAAACTCTTCCGCAACTTGTTCCACCGTTTGGGCTTCACTTACGACTATGTGTTTGACTGGAACCTGCTTA
AGTTTGGCGGACCTCGCAATCCCCAGGCGATTCAGCAGGCGCAGGACGGAGCGGACGGCCAGGCGGGTCATGATGCGGTG
GCCGCAGCAGCGGCGGTGGCAGCAGCGGCAGCCGCCTCCTCGCATCAACAACAGCAGCACAAGGTCAATGCGGCGCTGGG
TGGCGGAGGAGGCAGTGCAGCGCAACAGCAACTCCAGGGCGGCCAAACGCTGGCGATGCTGGGCGGCAATGGAGGCGGTA
ACGGCAGCCAACTGATCGGCGGCAACGGACTCAACATGGACGACTCGATGGCGGCCACCAACTCGTCGAGACCGCCGTAC
GACACGCCGGAGCGTCGGCCTTCGATACGGATGCGGCAGGGAGGCGGTGGTGGCGGCGGTGGAGTGGGCGTAGGCGGTAT
GCCGAGCGGCGGAGGGGGCGGTGGCGTGGGGAACGCCAAATAA

Alignment

ORF - retro_dmel_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.21 %
• Parental protein coverage: 86.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EIIVGGKYRVIRKIGSGSFGDIYLGMSIQSGEEVAIKMESAHARHPQLLYEAKLYRILSGGVGFPRIRHH
          E..VG.KYR..RKIGSGSFGDIYLG..I..GEEVAIK.E.....HPQL..E.K.Y....GG.G.PRI...
Retrocopy ELRVGNKYRLGRKIGSGSFGDIYLGTTINTGEEVAIKLECIRTKHPQLHIESKFYKTMQGGIGIPRIIWC

Parental  GKEKNFNTLVMDLLGPSLEDLFNFCTRHFTIKTVLMLVDQMIGRLEYIHLKCFIHRDIKPDNFLMGIGRH
          G.E...N..VM.LLGPSLEDLFNFC.R.F..KTVL.L.DQMI.R..YIH...FIHRDIKPDNFLMG.G..
Retrocopy GSEGDYNVMVMELLGPSLEDLFNFCSRRFSLKTVLLLADQMISRIDYIHSRDFIHRDIKPDNFLMGLGKK

Parental  CNKLFLIDFGLAKKFRDPHTRHHIVYREDKNLTGTARYASINAHLGIEQSRRDDMESLGYVMMYFNRGVL
          .N....IDFGLAKKFRD.....HI.YRE.KNLTGTARYASIN.HLGIEQSRRDD.ESLGYV.MYFN.G.L
Retrocopy GNLVYIIDFGLAKKFRDARSLKHIPYRENKNLTGTARYASINTHLGIEQSRRDDLESLGYVLMYFNLGAL

Parental  PWQGMKANTKQQKYEKISEKKMSTPIEVLCKGSPAEFSMYLNYCRSLRFEEQPDYMYLRQLFRILFRTLN
          PWQG.KA..K.QKYE.ISEKK.ST.I.VLCKG.P.EF..YLN.CR...F...PDY..LR.LFR.LF..L.
Retrocopy PWQGLKAANKRQKYERISEKKLSTSIVVLCKGFPSEFVNYLNFCRQMHFDQRPDYCHLRKLFRNLFHRLG

Parental  HQYDYIYDWTMLK
          ..YDY..DW..LK
Retrocopy FTYDYVFDWNLLK

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_10 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_10 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,