RetrogeneDB ID: retro_dmel_12

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 3R:21612419..21612944(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0039371
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CG8331
• Ensembl ID: FBgn0033906
• Aliases: None
• Description: None

Sequence

>retro_dmel_12
ATGGCCGCCCAGGTAAGTCAGGTGCAGCGGTTCTTCAACGGCTACAAGCAGGACATTAACCGATCACTGCGCGATGCGTC
CAAGCCGTGGACCAAAGCCTTTGATAGCCTGGAAGAGAAGACCGGTGTGGAGAGGGTGAATATTTTCGTGGGTAGTATTT
TGTTTTGCGCTTTCTACCTGGTCTTTGGCTGGTGCGCTCAGCTATTGTGCAACATCATTGGGGTTCTTTACCCTGCTTAC
ATTTCCATCCATGGCATCGAGTCCAGTACGAAGCAGGACGACATCAGGTGGCTGATCTACTGGGTCACTTTTGGCATCTT
CACTGTGATTGAATTCTATCCAAGTCTGCTAACTTCGATGATTCCCTTCTACTGGCTGTTGAAGTGTACTTTCCTCATCT
GGTGCATGCTGCCCACCGAACGGAATGGTTCTACCCTTATCTACCACAAGCTGGTCCGACCATACTTCCTGAAGCTTCAC
GATCCCGTCGACATGATGTCCGCTGGAGTGCCAAAGGACGACTAG

Alignment

ORF - retro_dmel_12 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.87 %
• Parental protein coverage: 89.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TQVKQFLNGYKDDVSKSLRDASKPWTKVFDTVEEKTGVDRVNIFVGAVGLCAIYLIFGWGAQLLCNIIGV
          .QV..F.NGYK.D...SLRDASKPWTK.FD..EEKTGV.RVNIFVG....CA.YL.FGW.AQLLCNIIGV
Retrocopy SQVQRFFNGYKQDINRSLRDASKPWTKAFDSLEEKTGVERVNIFVGSILFCAFYLVFGWCAQLLCNIIGV

Parental  LYPAYISIHAIESSTKQDDTKWLIYWVTFGIFTVIEFFSSLLTSVIPFYWLLKCAFLIWCMLPTEQNGST
          LYPAYISIH.IESSTKQDD..WLIYWVTFGIFTVIEF..SLLTS.IPFYWLLKC.FLIWCMLPTE.NGST
Retrocopy LYPAYISIHGIESSTKQDDIRWLIYWVTFGIFTVIEFYPSLLTSMIPFYWLLKCTFLIWCMLPTERNGST

Parental  IIYNKLVRPYFLKHHESVD
          .IY.KLVRPYFLK.H..VD
Retrocopy LIYHKLVRPYFLKLHDPVD

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_12 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_12 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 7 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000010270	1 retrocopy	retro_etel_2208,
Macropus eugenii	ENSMEUG00000006088	4 retrocopies	retro_meug_1110, retro_meug_1625, retro_meug_293, retro_meug_747,
Microcebus murinus	ENSMICG00000003588	1 retrocopy	retro_mmur_1072,
Monodelphis domestica	ENSMODG00000005050	1 retrocopy	retro_mdom_1574,
Sarcophilus harrisii	ENSSHAG00000012645	1 retrocopy	retro_shar_657,
Tursiops truncatus	ENSTTRG00000001691	1 retrocopy	retro_ttru_1155,
Drosophila melanogaster	FBgn0033906	1 retrocopy	retro_dmel_12 ,