RetrogeneDB ID: retro_dmel_19

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:1860656..1861211(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0004636
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Rap2l
• Ensembl ID: FBgn0025806
• Aliases: None
• Description: Ras-associated protein 2-like [Source:FlyBase gene name;Acc:FBgn0025806]

Sequence

>retro_dmel_19
ATGCGTGAGTACAAAATCGTGGTCCTTGGAAGCGGCGGCGTGGGCAAATCCGCGCTGACAGTCCAGTTTGTCCAGTGCAT
CTTCGTGGAGAAGTACGATCCCACCATCGAGGACAGTTACAGGAAGCAGGTGGAGGTGGACGGACAGCAGTGCATGCTGG
AGATCCTGGACACGGCGGGTACGGAGCAGTTCACGGCCATGCGGGATTTGTACATGAAGAACGGCCAGGGATTCGTGCTG
GTCTACTCGATCACGGCGCAATCGACGTTTAACGATCTGCAGGACCTGCGCGAGCAGATACTCCGGGTGAAGGACACGGA
CGATGTGCCCATGGTGCTCGTGGGCAACAAGTGCGACCTCGAAGAGGAGCGCGTCGTCGGCAAGGAGCTGGGCAAGAACC
TGGCCACCCAGTTCAACTGCGCCTTCATGGAGACCTCAGCCAAAGCCAAAGTGAATGTGAACGATATTTTCTACGACCTG
GTCCGGCAGATCAACAAGAAGTCGCCCGAGAAGAAACAGAAGAAGCCGAAAAAGTCCCTATGTGTTCTGCTATAA

Alignment

ORF - retro_dmel_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.14 %
• Parental protein coverage: 95.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MREFKVVVLGSGGVGKSALTVQFVSGCFIEKYDPTIEDFYRKEIEVDSSPCVLEILDTAGTEQFASMRDL
          MRE.K.VVLGSGGVGKSALTVQFV...F.EKYDPTIED.YRK..EVD...C.LEILDTAGTEQF..MRDL
Retrocopy MREYKIVVLGSGGVGKSALTVQFVQCIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDL

Parental  YIKNGHGFIVMYSLTNHQTFQDISSMKNVITRVKGSQPAPILLVANKFDLDCQREVSTAEGNALAQLWDC
          Y.KNG.GF...YS.T...TF.D.......I.RVK.....P..LV.NK.DL...R.V....G..LA....C
Retrocopy YMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTDDVPMVLVGNKCDLEEERVVGKELGKNLATQFNC

Parental  PFIEASAKDRINVNEVFATIVREMN-LTQENRQKK
          .F.E.SAK...NVN..F...VR..N....E..QKK
Retrocopy AFMETSAKAKVNVNDIFYDLVRQINKKSPEKKQKK

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_19 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_19 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Pelodiscus sinensis	ENSPSIG00000017641	1 retrocopy	retro_psin_3,
Drosophila melanogaster	FBgn0025806	1 retrocopy	retro_dmel_19 ,