RetrogeneDB ID: retro_dmel_28

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3R:5587932..5588571(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0028401
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Snap25
• Ensembl ID: FBgn0011288
• Aliases: None
• Description: Synapse protein 25 [Source:FlyBase gene name;Acc:FBgn0011288]

Sequence

>retro_dmel_28
ATGGCCGCCGTGGAGAATGCCGAGCCGCGCACTGAGCTCCAGGAGCTGCAGTTCAAGTCCGGACAGGTGGCCGATGAATC
CCTGGAGAGCACGCGTCGGATGCTCGCCCTCATGGACGAAAGCAAGGAGGCTGGAATCCGCACGCTGGTGGCCCTGGATG
ACCAGGGCGAGCAGTTGGACCGCATTGAGGAGGGCATGGACCGGATCAACGCGGACATGAGGGAGGCGGAGAAGAACTTG
AGTGGCATGGAAAAGTGCTGTGGCATCTGTGTGCTGCCGTGGAAGAAGGTGAACATCAAGGACGACGGTGAGAGCGCCTG
GAAGGCCAATGACGATGGCAAAATCGTGGCCAGCCAGCCGCAAAGGGTCATTGATGAGCGGGAACGCGGCGGCATGGGTG
CACCACCGCAGTCCGGCTATGTGGCCAGGATCACGAACGATGCGCGTGAGGATGAGATGGACGAGAATCTCGGGCAGGTG
AACTCGATGCTGGGCAACCTGCGCAACATGGCCCTGGACATGGGCTCCGAGCTGGAGAACCAAAACAAACAGGTTGATCG
CATCAATGCCAAGGGCGATGCCAACAACATTCGCATGGACGGCGTGAACAAGCGCGCCAACAATCTGCTCAAGAGTTAA

Alignment

ORF - retro_dmel_28 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.92 %
• Parental protein coverage: 93.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PKTELEELQINAQGVADESLESTRRMLALCEESKEAGIRTLVALDDQGEQLDRIEEGMDQINADMREAEK
          P.TEL.ELQ.....VADESLESTRRMLAL..ESKEAGIRTLVALDDQGEQLDRIEEGMD.INADMREAEK
Retrocopy PRTELQELQFKSGQVADESLESTRRMLALMDESKEAGIRTLVALDDQGEQLDRIEEGMDRINADMREAEK

Parental  NLSGMEKCCGICVLPCNKSQSFKEDDGTWKGNDDGKVVNNQPQRVMDDRN----GMMAQAGYIGRITNDA
          NLSGMEKCCGICVLP..K..........WK.NDDGK.V..QPQRV.D.R.....G...Q.GY..RITNDA
Retrocopy NLSGMEKCCGICVLPWKKVNIKDDGESAWKANDDGKIVASQPQRVIDERERGGMGAPPQSGYVARITNDA

Parental  REDEMEENMGQVNTMIGNLRNMALDMGSELENQNRQIDRINRKGESNEARIAVANQRAHQLLK
          REDEM.EN.GQVN.M.GNLRNMALDMGSELENQN.Q.DRIN.KG..N..R....N.RA..LLK
Retrocopy REDEMDENLGQVNSMLGNLRNMALDMGSELENQNKQVDRINAKGDANNIRMDGVNKRANNLLK

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_28 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_28 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000013388	1 retrocopy	retro_eeur_164,
Drosophila melanogaster	FBgn0011288	1 retrocopy	retro_dmel_28 ,