RetrogeneDB ID: retro_dmel_33

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: X:12070927..12072640(-)
• Located in intron of: FBgn0259240

Retrocopy information

• Ensembl ID: FBgn0030377
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Cnx99A
• Ensembl ID: FBgn0015622
• Aliases: None
• Description: Calnexin 99A [Source:FlyBase gene name;Acc:FBgn0015622]

Sequence

>retro_dmel_33
ATGGCATGGAAAATTGGAGGAAATCAGTACGCAACACTGTCGATGCTCTTCGCCAGCAGTTTGCTATTGCTGAGTGCGGT
CAAAGCCATCGATTCGGATCTAGAGTGGGATGACTTCGAGGACGTTGATGTAGAGGATGTGCAGCAGGAGGATGTCGATG
AGAAGCCTACCTATAAGAGCCCGGTGATCGATGCCAAGAAATTCCACTTCGCGGACCACTTCGACGACATGGAGGCATCC
ACAAGGAGGTGGGTACTCTCGCAGGCCAAGAAGGACGACATCGCCGATGAGATCTCCAAGTACGATGGCATCTGGAATTG
GGAGCCGCCGCAGCGCATGGTTTGGGCAAACGATCTGGGTCTGGTGCTCAAGTCGAAGGCCAAACATGCGGCCATAGCAG
CCCACCTTCATCAGCCGTTCGATTTCAAGTCGGAGAAGCCACTGGTGGTGCAGTATGAGATTACGATTCAGAAGGGTCAG
GAGTGCGGCGGCTCGTATCTAAAGCTTTTGTCCGCCGGAAAAGAGACGGAACAACTACAGACCTTCAATGACAAGACACC
CTATACCATTATGTTTGGACCGGACAAGTGCGGCAAAGATGTGACAATTCACTTTATATTCAAGCACGTCAATCCAATTA
ATGGCACCATCACCGAGAAGCATTGCAACAAGCCAAATAATAGTTTTGAAGAGCCATTCAAGGATAAGTTACCCCATCTC
TATCAGCTGGTGGTTCGTCCAGATAACAGCTTTGAAATTCGCATTGACCACAAGATCATCAAAGAGGGTTCCCTGCTAAC
CGATTTCAAGCCACCAGTCAATCCGCCGGCAGAGATCGATGACCCCAATGACCATAAGCCAGATTCGTGGGATGAGCGAG
AGAAGATCCCAGACCCCACTGTTCACAAGCCCGAGGATTGGGACGAGAATGAAACACTAAAGCTGCCAGATGCCGACATG
ATTTTTGATCCAACTGCCACGAAACCTGAAGATTGGGATGACGAAATCGATGGCGAGTGGCAGGCTCCAATGGTAGACAA
CCCAGTGTGCAAGAAGGACCAAACCTGTGGCATCATCCGCAATCCCAACTACAAGGGCAAGTGGATTGCACCGATGATCG
ATAACCCAAACTACCAGGGCAAGTGGGCACCCAGAAAGATTGCCAATCCAGACTTCTTTGAGGATCTCAAGCCCTTTCAA
ATGACGCCCATCAGCGCTGTGGGTCTGGAGCTGTGGTCCATGTCCAGTGATATTCTCTTCGACAACCTGATCATCACAGA
CGACGTGGAGGTGGCCCGTGACTTTGCGGCCAACAGCTTTGACATCAAGCGTCGCTACATCGATCGTGAACGGGACTCAA
TCGTGAATAAGGTAGTCGAGCTAGTCAAGGACTATCCCTCGATTTGGGCCATTGGCCTGGTGGCCATTGTGGCGTTGGTT
GCCCTCACTAAATGCTGTAGATTTGGTACCACTAAGATTCAGGAATCGGCTGCTGCCGAGTCCAAGAAGACCGACGATCC
TCAGCCCCATGAGCCGAGGCCGTGGGGGAGTAGGATGAGCAGAGCGAAGAAATGGAAGTTGACGATACCACCAAGAAGAG
CATATAGCTGTCCGTTACCACCCAAAAAGAAATTAGATGACAACGAATGGAAGTTCAAGGCGGCGAAGAAACAAAAGCAC
ACACAGACTAAGGAATCTAACACTGAGGAGTAA

Alignment

ORF - retro_dmel_33 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.54 %
• Parental protein coverage: 53.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAWKMGGNRAATLALLFASSLLLLSAANAADLDTESDDFEDGYVEDVQEEPAVIGGDEKLAYESPVIDAK
          MAWK.GGN..ATL..LFASSLLLLSA..A.D.D.E.DDFED..VEDVQ.E......DEK..Y.SPVIDAK
Retrocopy MAWKIGGNQYATLSMLFASSLLLLSAVKAIDSDLEWDDFEDVDVEDVQQEDV----DEKPTYKSPVIDAK

Parental  KFHFADHFDDVEESRKRWVLSQAKKDDIAEEISKYDGIWNWESPQRIVWANDLGLVLKSKAKHAAIAAPL
          KFHFADHFDD.E.S..RWVLSQAKKDDIA.EISKYDGIWNWE.PQR.VWANDLGLVLKSKAKHAAIAA.L
Retrocopy KFHFADHFDDMEASTRRWVLSQAKKDDIADEISKYDGIWNWEPPQRMVWANDLGLVLKSKAKHAAIAAHL

Parental  RKPFEFKSDKPLVVQYEVTLQEGQECGGSYLKLLSAGKDTEQLKAFNDKTPYTIMFGPDKCGNDVKMHFI
          ..PF.FKS.KPLVVQYE.T.Q.GQECGGSYLKLLSAGK.TEQL..FNDKTPYTIMFGPDKCG.DV..HFI
Retrocopy HQPFDFKSEKPLVVQYEITIQKGQECGGSYLKLLSAGKETEQLQTFNDKTPYTIMFGPDKCGKDVTIHFI

Parental  FRHVNPINGTITEKHCNKPKNRLEEPFKDKLPHLYQLVVRPDNSFEIRVDHKIINEGSLLTDFKPPVNPP
          F.HVNPINGTITEKHCNKP.N..EEPFKDKLPHLYQLVVRPDNSFEIR.DHKII.EGSLLTDFKPPVNPP
Retrocopy FKHVNPINGTITEKHCNKPNNSFEEPFKDKLPHLYQLVVRPDNSFEIRIDHKIIKEGSLLTDFKPPVNPP

Parental  AEIDDPNDHKPESWDEREKIPDPTAHKPEDWDEDAPPQLPDTDAV
          AEIDDPNDHKP.SWDEREKIPDPT.HKPEDWDE.....LPD.D..
Retrocopy AEIDDPNDHKPDSWDEREKIPDPTVHKPEDWDENETLKLPDADMI

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_33 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_33 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000003708	2 retrocopies	retro_mdom_1933, retro_mdom_747,
Drosophila melanogaster	FBgn0015622	2 retrocopies	retro_dmel_33 , retro_dmel_50,