RetrogeneDB ID: retro_dmel_40

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 2L:17554438..17555611(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0032650
• 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_40
ATGGCAAAACAAGAAGCAACAAATGGGAAAGTTCGTAATGCATCTCTTCATCTGGAGAAGCTGTTGATCGGGGGAAAATA
TCGGCTGGTAAAGCCCATTGGGTCCGGGTCCTTCGGCGATATATATCTCGGACTAAGCATCACGGATGGATCCGAGGTGG
CCATTAAGGTGGAGAAGAACGATGCCAAGTACCCGCAGCTGATATACGAGGCGAAAGTGTACGAACAGCTGGCCCGCTGT
CCGGGCTTCCCGACTCTACTTCATTATGGATGCGAGAAGAACTATAATGCCATGGTTATGGACCTATTAGGTCCTTCCCT
AGAAGAACTTTTTAACCTCTGCAAACGCCGATTCTCGCTGAAGACCGTACTCATGTTGACAGACCAGCTGCTAATGCGAA
TTGAGTGTGTCCACGAACGTGGGTTCATTCATCGTGACATTAAACCAGATAACTTCCTAATGGGTCTGGATCGCCACTGC
AACAAGCTGTACCTCATCGATTTTGGCCTGTCCAAGAGATACAAGGACATAGAGTCAGAGATTCATATACCATACCGCAC
GGATCGGAATCTAACTGGTACTGTTCGCTATGCCTCTATAAATGCACAGATAGGCGTTGAGCAATCCCGTCGGGATGACA
TGGAGTCCATGTCCTATTGTTTGATGTACTTCAATCTGGGAAAGTTACCCTGGCAGGGTATTACGGCCGCCAACAAGAAG
CAAAAGTACGAGAAGATATTGGAGAAAAAGACAAGCGTCACGATCGCTCAGCTCTGCAAAGGATTTCCCTCCGAATTTTG
CCTGCTTATGACCTATGTCAGGAATCTTGGTTTCAAGGAGCCGCCGGATCACACTTATCTTCGCCAGATATTCCGCATAC
TTTTCCGCTCACTGAATCATCATTACGACTATATATATGACTGGACTGCCTTGCAGCAGCAAAAGGATCAAATCTGCCGC
AGCAGGGAACAGATTCTGGAATCGGAACGAGAAGAGGTCCGCAAACGGGATGGGGAACGGGGTTGTGAGCCTCAGCGGGA
CAAGGAGCGGCACAAGGATTTGGAGCTGGATCGACTGCACAAAACTTCCACCCAACAGGCAAAGTGCTCTAATGGACATC
TAACAAACCGATATGATCGCATTGGCGATGGAGGCATTAGCAAGCGAAAGTAA

Alignment

ORF - retro_dmel_40 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.62 %
• Parental protein coverage: 94.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EIIVGGKYRVIRKIGSGSFGDIYLGMSIQSGEEVAIKMESAHARHPQLLYEAKLYRILSGGVGFPRIRHH
          ....GGKYR....IGSGSFGDIYLG.SI..G.EVAIK.E...A..PQL.YEAK.Y..L....GFP...H.
Retrocopy KLLIGGKYRLVKPIGSGSFGDIYLGLSITDGSEVAIKVEKNDAKYPQLIYEAKVYEQLARCPGFPTLLHY

Parental  GKEKNFNTLVMDLLGPSLEDLFNFCTRHFTIKTVLMLVDQMIGRLEYIHLKCFIHRDIKPDNFLMGIGRH
          G.EKN.N..VMDLLGPSLE.LFN.C.R.F..KTVLML.DQ...R.E..H...FIHRDIKPDNFLMG..RH
Retrocopy GCEKNYNAMVMDLLGPSLEELFNLCKRRFSLKTVLMLTDQLLMRIECVHERGFIHRDIKPDNFLMGLDRH

Parental  CNKLFLIDFGLAKKFRDPHTRHHIVYREDKNLTGTARYASINAHLGIEQSRRDDMESLGYVMMYFNRGVL
          CNKL.LIDFGL.K...D.....HI.YR.D.NLTGT.RYASINA..G.EQSRRDDMES..Y..MYFN.G.L
Retrocopy CNKLYLIDFGLSKRYKDIESEIHIPYRTDRNLTGTVRYASINAQIGVEQSRRDDMESMSYCLMYFNLGKL

Parental  PWQGMKANTKQQKYEKISEKKMSTPIEVLCKGSPAEFSMYLNYCRSLRFEEQPDYMYLRQLFRILFRTLN
          PWQG..A..K.QKYEKI.EKK.S..I..LCKG.P.EF.....Y.R.L.F.E.PD..YLRQ.FRILFR.LN
Retrocopy PWQGITAANKKQKYEKILEKKTSVTIAQLCKGFPSEFCLLMTYVRNLGFKEPPDHTYLRQIFRILFRSLN

Parental  HQYDYIYDWTMLKQKTHQGQPNPAILLEQLDKDKEKQNGK
          H.YDYIYDWT.L.Q...Q........LE.......K..G.
Retrocopy HHYDYIYDWTALQQQKDQICRSREQILESEREEVRKRDGE

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_40 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_40 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.

---

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,