RetrogeneDB ID: retro_dmel_67

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3R:1251465..1252899(-)
• Located in intron of: FBgn0037326

Retrocopy information

• Ensembl ID: FBgn0037325
• 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_67
ATGGCGGAACGGGAAAAGGGGCGTGCCAAGGACGACAGACGTTGGCAAGGCCGTTCCGATGTTCACCAATCCAAGCCGCA
GATCCGAAAGGAGCGCCGCCATCCGCCACAGCCAAATCATCCTCATGAGAAGGACCAGCGACAAGATCGTCGGTTCTCAG
AGGAGAAGCAATCCCTACCGGAAATTATAGTGGCGGGAAAGTACCGTTTATTGAAGCGTATTGGAAACGGATCCTTCGGC
GAACTATTCCAGGCCGAGGGCCTCAAGTACCACGAGAAGGTGGCCATAAAGCTGGAGAGCTCCACGGTCAAGCACCCATT
GCTGCCACGCGAGGCCAGGATCTATGGCATCCTGCAGGGCGGACTGGGCATCCCGCATGTGAAGCACTATGCCACCGAGG
GGGCGTACAATGTCATGGTGATGGACCTCCTGGGGCCCACGCTGGAGGATCTGCTAAACCTCTGCTCGCGCTCCTTTAGC
ATGAAGACCACCCTGATGCTGGCCGACCAGATCCTTGCCCGCGTGGAGCTGCTCCACCGGAGATGCTTTATCCACCGGGA
CATCAAGCCGGACAACTTCCTGATGGGCCTGAACCGCCACCAGACTCAGGTGTACATGATTGACTTCGGACTGGCCAAAA
AGTTCTACAGCCTGCGCACCCAGAAGCACATCGGCTACACGGAGAACCGGGACCTGGTAGGTACGGCCCGGTACGCCAGT
GTGCGGGCCCATTACGCGGAGCAGAGTCGTCGGGATGACCTAGAGTCCGTGGGCTACCTGCTGCTCTACTTCCAGCGGGG
TCGTCTTCCCTGGCAGGGAATCCGGGCGCAGTCGCAGGCCCAGAAGTACGAGAAGATAGCTGAGTACAAGGCCAACATCC
CACTCCAGCAACTCTGCTCCGGATTGCCTGTCGAGTTCTTCATGTATCTGAAGTACTGCCGCAAGCTGCACTTCGCCGAG
AAGCCGGATTACGTGTATCTGCAGCAGCTGTTCAAGGTGCTCTTCCGGAACCAGTACAAGGTGTGTGACTTCCTCTTCGA
CTGGGTCGTTTTGAAGCGAGAGTCGCCGGAGCAACAATCGCAGCAAAAGGGTAGGGAAAGGGACAGGGGTGGAAAAAGGA
ACGTGGTGGTGCAGAAGGAGAGGCATCGAAACAAGGATAGGGATAGTGATACGCAGAGGTGTCGAATTAAGAATGGGGGA
GATCTGCTCGAGATCGAGGAAAATGAAAGTACCACTGGGGAAGACCCAAACGAAGATAAGCCTCAAAAAAAGCATGGCAA
GGCCTGCTCCTGCAGCTACCACCTCCAGAAGAAGCGCCTCCAGGATCGGGATAGGAGGGCGCCTCTGATGACCGAGCGGA
GGATCCTTTCGGGGGAGCAGGAGCAGGAGCTGGAGCTGGAGCTGCGGGGGTCCCCTCAGATGCCCTGTCTTTGA

Alignment

ORF - retro_dmel_67 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.75 %
• Parental protein coverage: 90.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KESRPEIIVGGKYRVIRKIGSGSFGDIYLGMSIQSGEEVAIKMESAHARHPQLLYEAKLYRILSGGVGFP
          K.S.PEIIV.GKYR....IG.GSFG...........E.VAIK.ES....HP.L..EA..Y.IL.GG.G.P
Retrocopy KQSLPEIIVAGKYRLLKRIGNGSFGELFQAEGLKYHEKVAIKLESSTVKHPLLPREARIYGILQGGLGIP

Parental  RIRHHGKEKNFNTLVMDLLGPSLEDLFNFCTRHFTIKTVLMLVDQMIGRLEYIHLKCFIHRDIKPDNFLM
          ...H...E...N..VMDLLGP.LEDL.N.C.R.F..KT.LML.DQ...R.E..H..CFIHRDIKPDNFLM
Retrocopy HVKHYATEGAYNVMVMDLLGPTLEDLLNLCSRSFSMKTTLMLADQILARVELLHRRCFIHRDIKPDNFLM

Parental  GIGRHCNKLFLIDFGLAKKFRDPHTRHHIVYREDKNLTGTARYASINAHLGIEQSRRDDMESLGYVMMYF
          G..RH......IDFGLAKKF....T..HI.Y.E...L.GTARYAS..AH...EQSRRDD.ES.GY...YF
Retrocopy GLNRHQTQVYMIDFGLAKKFYSLRTQKHIGYTENRDLVGTARYASVRAHYA-EQSRRDDLESVGYLLLYF

Parental  NRGVLPWQGMKANTKQQKYEKISEKKMSTPIEVLCKGSPAEFSMYLNYCRSLRFEEQPDYMYLRQLFRIL
          .RG.LPWQG..A....QKYEKI.E.K...P...LC.G.P.EF.MYL.YCR.L.F.E.PDY.YL.QLF..L
Retrocopy QRGRLPWQGIRAQSQAQKYEKIAEYKANIPLQQLCSGLPVEFFMYLKYCRKLHFAEKPDYVYLQQLFKVL

Parental  FRTLNHQYDYIYDWTMLKQKTHQGQ
          FR......D...DW..LK......Q
Retrocopy FRNQYKVCDFLFDWVVLKRESPEQQ

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_67 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_67 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 ,