RetrogeneDB ID: retro_amel_441

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192444.1:1019136..1019640(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000002650
• Aliases: None
• Description: None

Sequence

>retro_amel_441
GTCATCAGGGCGACCCTCATTTTCAACAACCATGGGAAGCAGTGGCTGTCCGCATATTACCTGCCCGACTGTGAAGACCC
ACAACAGCAAACCATCAGGGAGACTTTCCATTTAGTACCCAAGAAAGATGAAACTGTAAACCTCCTAGAAGGAGGGCTAT
TAATTGGAGGATCTGACCACAAACTGACTTATGGACATTACACACAGCATTATATTTTGTCTTCATGTGGATTCTTTAGA
GAGCGAAGTTGGTATTTTAGATCTAATTCAGGTATTCTTAGAAACATTTGACAAGTATTTTTGAAAATGTCTGAACTGGA
TTTAATTCTCCCTGTAGACAAGGTTGACAGTATTTTGCAGAAATGGTGCTGGGGGAATGGTATTGGAGACCGACACGAAT
GAGATTGTTATATATACTGATGCACAAAATACCCTGAAGACACCGGAGACTGACGTAGCAGGAGGTCCAGTACATGCTGA
TCCACTGTAAAGAATATGAATCTT

Alignment

ORF - retro_amel_441 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.57 %
• Parental protein coverage: 85.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MIQAILVFNNHGKPRLVRFYQRFPEEIQQQIVRETFHLVLKRDDNICNFLEGGSLIGGSDYKLIYRHYAT
          .I.A.L.FNNHGK..L...Y....E..QQQ..RETFHLV.K.D....N.LEGG.LIGGSD.KL.Y.HY..
Retrocopy VIRATLIFNNHGKQWLSAYYLPDCEDPQQQTIRETFHLVPKKDETV-NLLEGGLLIGGSDHKLTYGHYTQ

Parental  LY-FVFCVDSSESELGILDLIQVFVETLDK-CFENVCELDLIFHMDKVHYILQ-EVVM-GGMVLETNMNE
          .Y.F...VDS.ESE.GILDLIQVF.ET.DK..F....ELDLI...DKV..ILQ.E.V..GGMVLET..NE
Retrocopy HY>FCLHVDSLESEVGILDLIQVFLETFDK<VFLKMSELDLILPVDKVDSILQ<EMVL<GGMVLETDTNE

Parental  IVAQIEAQNRLEKSEGGLSAAPARAV-SAVKNINL
          IV....AQN.L...E......P..A..S.VKN.NL
Retrocopy IVIYTDAQNTLKTPETDVAGGPVHAD<STVKNMNL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_amel_441 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_441 was not experimentally validated.

Homology

Retrocopy orthology:

Ailuropoda melanoleuca 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
Ailuropoda melanoleuca	ENSAMEG00000002650	1 retrocopy	retro_amel_441 ,