RetrogeneDB ID: retro_dmel_49

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3L:11725323..11726547(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0052087
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Tango5
• Ensembl ID: FBgn0052675
• Aliases: None
• Description: Transport and Golgi organization 5 [Source:FlyBase gene name;Acc:FBgn0052675]

Sequence

>retro_dmel_49
ATGGCTGCTAGCAATGACACTGAAGCAGGACACTCTTCATTGCCCAGTGAAATAGATCGCTTGGCTGAACTGGTACAGGA
GCGGCTGGAATGGAAGTCTCTGGTTCTTTGGCGTCGTCCTGTGCAGACTTTGAAGTATGGTGGCCTGGAGGCCGGGCATT
TGTTGCTATCCTTCATCGAAAAGCTGTTGAATCTGTGGCTAGTGGGCGGTCTGCTGCTGTTGGGCATGTTTTGTTTACTG
CCAGGACCTCATGCGGATTTCGTGATTTTCTGCAAGCATAGGTTTGGATTTGCGGTCTACTGGCTGGGCCTGGGCGTGCT
CTCATCTGTGGGCTTTGGCACTGGGTTGCACACCTTTCTGCTCTACCTGGGCCCTCACCTAGCAGCAGTCACTCTGGCCG
CCTACGAGTGTCAAACGCTGGACTTTCCCACTCCTCCGTATCCGGACATAAAAGTCTGCCCACAGGAGCCGTACAAGCGC
AATTACCCAGATGTATGGCAAATTTTGGCAAAGGTGCGTCCGGAGGCGCTACTCTGGGGCATTGGCACTGCTCTTGGTGA
GCTGCCGCCATACTTTATGACACGTAGAGCACGGCTCTCTGGCAAGGAGTTGGATGGAGCGGAGGAGGAAAAGTTATTGG
ATGAAAGGCGAAGGTGCGGAAAGCTAGGCATGCTCGACCATGCCAAGCTGTTCATGGAACGGGTGATGCGAAGAGTGGGC
TTCATGGGAATACTATTCTGCGCCAGCGTACCCAATCCTCTGTTCGACCTGGCCGGCATAACGTGCGGACATTTTCTGGT
GCCCTTTTGGAAGTTCTTTGTGGCCACCCTGATCGGCAAGGCGTTAATCAAGGCCACCATACAGCAGTTGTTTGTTATTG
CGTCCCTAACCGAGAGTCTAGTCGATAGGTTTGTGGTCGGTCTGGGGAAGCTACCCTATTTGGGACCTCCAATGCAGCGC
ATGATCAGGGAACTGCTGCAGTCGACGAAGCAGCAGATGCATGGAACAGTAAATTCCAATTCCCTGGCCTATCTAAGCCA
TCTGGTTCGTGCTTTCGAGCTGTGTGCCTTCATCATGGTCACCTGTTTCGTAGTATCTTCGCTGAACTGCCTCGCGCAAA
TCCATTGCAAGCGCCAGCAGGAGAAGAAGCGTAAGATGCGAAACCTGGAGATGATACTGTATGCCGATACGGAGACATCC
TCGTCGGAGGAGTTCAGCGTCTAA

Alignment

ORF - retro_dmel_49 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.55 %
• Parental protein coverage: 64.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QRLLLATLIVLSIVFSVIYKIDGPHQLAIEFVRRNTWFFVYWLGLGVLSSVGLGTGLHTFLLYLGPHIAS
          ..LL...L..............GPH.....F......F.VYWLGLGVLSSVG.GTGLHTFLLYLGPH.A.
Retrocopy EKLLNLWLVGGLLLLGMFCLLPGPHADFVIFCKHRFGFAVYWLGLGVLSSVGFGTGLHTFLLYLGPHLAA

Parental  VTLAAYECNSLRFPQPPYPDDIICPEEPYDKHVPNIWSIMSKVRLEAFLWGAGTALGELPPYFMAKAARL
          VTLAAYEC..L.FP.PPYPD...CP.EPY....P..W.I..KVR.EA.LWG.GTALGELPPYFM...ARL
Retrocopy VTLAAYECQTLDFPTPPYPDIKVCPQEPYKRNYPDVWQILAKVRPEALLWGIGTALGELPPYFMTRRARL

Parental  SGYDPEDAEELAEFEALNAKRHQKNLSMMDRGKLFMERVVERVGFFGILACASIPNPLFDLAGITCGHFL
          SG.....AEE......L...R....L.M.D..KLFMERV..RVGF.GIL.CAS.PNPLFDLAGITCGHFL
Retrocopy SGKELDGAEE---EKLLDERRRCGKLGMLDHAKLFMERVMRRVGFMGILFCASVPNPLFDLAGITCGHFL

Parental  VPFWTFFGATLIGKAVIKMHIQKIFVIIAFNETLIERAVDLLATLPVLGHKLQEPFKSFLKNQKQRLH
          VPFW.FF.ATLIGKA.IK..IQ..FVI....E.L..R.V..L..LP.LG...Q......L...KQ..H
Retrocopy VPFWKFFVATLIGKALIKATIQQLFVIASLTESLVDRFVVGLGKLPYLGPPMQRMIRELLQSTKQQMH

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

5 EST(s) were mapped to retro_dmel_49 retrocopy

EST ID	Start	End	Identity	Match	Mis-match	Score
BF491013	11725279	11725944	98.8	656	8	648
BF496052	11725279	11725732	99.2	449	4	445
BF497495	11725254	11725885	99.9	629	1	627
BF502420	11725279	11725758	98.4	471	8	463
EC055292	11725343	11725831	99.2	484	4	480

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_49 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000014339	1 retrocopy	retro_mdom_2,
Mus musculus	ENSMUSG00000018171	1 retrocopy	retro_mmus_2640,
Nomascus leucogenys	ENSNLEG00000000724	1 retrocopy	retro_nleu_818,
Rattus norvegicus	ENSRNOG00000003967	1 retrocopy	retro_rnor_527,
Sarcophilus harrisii	ENSSHAG00000016264	1 retrocopy	retro_shar_52,
Drosophila melanogaster	FBgn0052675	1 retrocopy	retro_dmel_49 ,