RetrogeneDB ID: retro_dmel_14

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3R:9978686..9979481(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0038209
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Nmda1
• Ensembl ID: FBgn0013305
• Aliases: None
• Description: N-methyl-D-aspartate receptor-associated protein [Source:FlyBase gene name;Acc:FBgn0013305]

Sequence

>retro_dmel_14
ATGCTGGATATTTTACAAGAACCAGTACATCAGTATGGAAATCGGAGCCACCAGGCGGAGTGTATTCCGCTGGGAAGATA
TACAGCTTACGGATCGGAAATCGGACAGGATGATCCAGACAAGGGCTTGGGATTCTGCAGCGCCAGCATCCGGCGAGGAT
TCATCCGGAAGGTGTACCTCATCCTGTTGGCCCAACTGATCACTTCCCTGGTGGTTATAGTTTCACTTACTGCTGATAAA
CGGGTGCGTCTGATGGTGGCAGAAAGCACCTGGATATTTGTGGTGGCCATACTAATAGTGGTCTTCTCTCTGGTGGCTCT
GGGCTGCAATGAGGATCTGCGTCGTCAGACCCCAGCTAACTTCATCTTCCTATCTGCCTTCACGATAGCCGAGTCCTTTC
TGCTGGGCGTGGCAGCCTGTCGTTATGCCCCAATGGAGATTTTCATGGCCGTGCTAATCACGGCGTCAGTTTGCCTTGGA
CTCACCCTTTTTGCTCTGCAGACGCGTTACGACTTTACCGTCATGGGTGGCCTCCTGGTGAGCTGCCTGATAATACTGCT
CTTCTTTGGAATTGTGACCATCTTCGTGGGCGGACATATGGTCACCACCATATATGCCTCATTGAGCGCTCTGCTCTTCT
CCGTTTATTTAGTTTACGATACACAATTGATGATGGGAGGCAAGCATAGGTACTCCATTAGTCCCGAGGAGTACATATTC
GCTGCCCTAAATATTTACATGGATGTAATGAACATATTCCTGGACATTTTGCAATTAATCGGAGGATCCGATTAG

Alignment

ORF - retro_dmel_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 74.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YGAYDDPESQPKNFSFDDQSIRRGFIRKVYLILMGQLIVTFGAVALFVYHEGTKTFARNNMWLFWVALGV
          YG.........K...F...SIRRGFIRKVYLIL..QLI.......................W.F.VA...
Retrocopy YGSEIGQDDPDKGLGFCSASIRRGFIRKVYLILLAQLITSLVVIVSLTADKRVRLMVAESTWIFVVAILI

Parental  MLVTMLSMACCESVRRQTPTNFIFLGLFTAAQSFLMGVSATKYAPKEVLMAVGITAAVCLALTIFALQTK
          .........C.E..RRQTP.NFIFL..FT.A.SFL.GV.A..YAP.E..MAV.ITA.VCL.LT.FALQT.
Retrocopy VVFSLVALGCNEDLRRQTPANFIFLSAFTIAESFLLGVAACRYAPMEIFMAVLITASVCLGLTLFALQTR

Parental  YDFTMMGGILIACMVVFLIFGIVAIFVKGKIITLVYASIGALLFSVYLIYDTQLMMGGEHKYSISPEEYI
          YDFT.MGG.L..C....L.FGIV.IFV.G...T..YAS..ALLFSVYL.YDTQLMMGG.H.YSISPEEYI
Retrocopy YDFTVMGGLLVSCLIILLFFGIVTIFVGGHMVTTIYASLSALLFSVYLVYDTQLMMGGKHRYSISPEEYI

Parental  FAALNLYLDIINIFMYILTIIGAS
          FAALN.Y.D..NIF..IL..IG.S
Retrocopy FAALNIYMDVMNIFLDILQLIGGS

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_14 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_14 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Drosophila melanogaster	FBgn0013305	1 retrocopy	retro_dmel_14 ,