RetrogeneDB ID: retro_dmel_60

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 2L:9696504..9697566(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0000273
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Pka-C3
• Ensembl ID: FBgn0000489
• Aliases: None
• Description: cAMP-dependent protein kinase 3 [Source:FlyBase gene name;Acc:FBgn0000489]

Sequence

>retro_dmel_60
ATGGGCAACAACGCCACCACGTCGAATAAGAAGGTCGATGCCGCCGAGACGGTGAAGGAGTTCCTCGAGCAGGCCAAGGA
GGAGTTCGAGGACAAGTGGCGACGCAATCCGACCAACACCGCCGCCCTCGATGACTTCGAACGGATCAAGACCCTGGGCA
CCGGCTCCTTTGGCCGTGTCATGATCGTCCAGCACAAGCCCACGAAAGACTATTATGCCATGAAGATCCTCGACAAGCAG
AAGGTGGTCAAGCTGAAGCAGGTGGAGCACACGCTGAACGAGAAGCGAATCCTGCAGGCCATTCAGTTCCCCTTCCTCGT
CTCGCTGCGCTACCACTTCAAGGACAACTCCAACCTTTACATGGTGCTGGAGTATGTTCCCGGTGGCGAGATGTTCTCCC
ACCTGCGCAAGGTGGGCCGCTTCTCGGAGCCGCACTCGCGCTTCTACGCGGCGCAAATCGTGCTGGCCTTCGAGTACCTG
CACTACTTGGACCTCATCTACCGTGATCTGAAGCCGGAGAATCTGCTGATTGACTCGCAGGGCTACCTCAAGGTGACGGA
CTTCGGTTTTGCCAAGCGGGTCAAGGGACGCACCTGGACACTGTGCGGCACGCCCGAATACCTGGCCCCGGAGATCATTC
TGTCCAAGGGCTATAACAAGGCCGTGGACTGGTGGGCGTTGGGCGTACTCGTCTACGAAATGGCCGCCGGCTATCCGCCG
TTCTTTGCGGATCAGCCGATTCAGATCTACGAGAAGATCGTCTCCGGCAAGGTGCGCTTCCCATCGCACTTTGGCTCCGA
TCTGAAGGACCTACTGCGCAACCTGCTGCAGGTGGATCTGACCAAGCGCTACGGCAATCTGAAGGCGGGCGTCAATGATA
TTAAGAACCAGAAGTGGTTCGCCTCCACCGACTGGATTGCGATCTTCCAAAAGAAAATCGAGGCGCCGTTCATTCCGCGG
TGTAAGGGTCCCGGCGACACGAGCAATTTCGATGACTACGAGGAGGAGGCGCTGCGGATCTCCAGCACCGAGAAGTGTGC
CAAGGAGTTTGCTGAATTCTAG

Alignment

ORF - retro_dmel_60 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.8 %
• Parental protein coverage: 66.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HDSSESIEEDDGNETDDEEDDDESEESSSVQTAKGVRKYHLDDYQIIKTVGTGTFGRVCLCRDRISEKYC
          .....S....D..ET..E......EE..............LDD...IKT.GTG.FGRV..........Y.
Retrocopy NNATTSNKKVDAAETVKEFLEQAKEEFEDKWRRNPTNTAALDDFERIKTLGTGSFGRVMIVQHKPTKDYY

Parental  AMKILAMTEVIRLKQIEHVKNERNILREIRHPFVISLEWSTKDDSNLYMIFDYVCGGELFTYLRNAGKFT
          AMKIL....V..LKQ.EH..NE..IL..I..PF..SL....KD.SNLYM...YV.GGE.F..LR..G.F.
Retrocopy AMKILDKQKVVKLKQVEHTLNEKRILQAIQFPFLVSLRYHFKDNSNLYMVLEYVPGGEMFSHLRKVGRFS

Parental  SQTSNFYAAEIVSALEYLHSLQIVYRDLKPENLLINRDGHLKITDFGFAKKLRDRTWTLCGTPEYIAPEI
          ...S.FYAA.IV.A.EYLH.L...YRDLKPENLLI...G.LK.TDFGFAK....RTWTLCGTPEY.APEI
Retrocopy EPHSRFYAAQIVLAFEYLHYLDLIYRDLKPENLLIDSQGYLKVTDFGFAKRVKGRTWTLCGTPEYLAPEI

Parental  IQSKGHNKAVDWWALGVLIYEMLVGYPPFYDEQPFGIYEKILSGKIEWERHMDPIAKDLIKKLLVNDRTK
          I.SKG.NKAVDWWALGVL.YEM..GYPPF...QP..IYEKI.SGK.....H.....KDL...LL..D.TK
Retrocopy ILSKGYNKAVDWWALGVLVYEMAAGYPPFFADQPIQIYEKIVSGKVRFPSHFGSDLKDLLRNLLQVDLTK

Parental  RLGNMKNGADDVKRHRWFKHLNWNDVYSKKLKPPILPDVHHDGDTKNFDDYPEK
          R.GN.K.G..D.K...WF....W.....KK...P..P.....GDT.NFDDY.E.
Retrocopy RYGNLKAGVNDIKNQKWFASTDWIAIFQKKIEAPFIPRCKGPGDTSNFDDYEEE

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_60 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_60 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000000005	1 retrocopy	retro_mdom_1224,
Nomascus leucogenys	ENSNLEG00000008541	1 retrocopy	retro_nleu_1293,
Drosophila melanogaster	FBgn0000489	1 retrocopy	retro_dmel_60 ,