RetrogeneDB ID: retro_amel_1647

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193839.1:260255..260609(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: URAHP
• Ensembl ID: ENSAMEG00000001449
• Aliases: None
• Description: urate (hydroxyiso-) hydrolase, pseudogene [Source:HGNC Symbol;Acc:43695]

Sequence

>retro_amel_1647
ATGGAGCTGGTAAGCAGCCCACTGACCACGCACGTGCTGGACACTCCCTCAGGGTTCCCAGCCCAGGGCCCCTACCTCCA
TCTCTTCAGGTTTGAGAACCATGGCCAGTAGAGGACAGAGCTGAGGAAAAGCTACACCGACTATGATGGCTGCTGCCCAA
GTCTCCTGGCACCAGGCCCTTTGAAGGCAGGCAATTACAAGCTATCCTTTGACACCAAGGGCTACTGGAAGAAGAGGGGG
GCGGAGAGTTTCTATTCATATGTGGAAGTAGCTTTCACCATCACCAATGAGACCCATAGATTCTGTGCATCCCTGCTGCT
GAGCCTGTGGTCCTATATCACATATCAAGGGAGC

Alignment

ORF - retro_amel_1647 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.73 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MESTSSPLTTHVLDTASGLPAQGLCLCLSRLEDHGQQWMELRKSYTDSDGRCPGLLPPGPVKAGTYKLSF
          ME..SSPLTTHVLDT.SG.PAQG..L.L.R.E.HGQ...ELRKSYTD.DG.CP.LL.PGP.KAG.YKLSF
Retrocopy MELVSSPLTTHVLDTPSGFPAQGPYLHLFRFENHGQ*RTELRKSYTDYDGCCPSLLAPGPLKAGNYKLSF

Parental  DTEGYWKKRGQESFYPYVEVVFTITDETRRFHVPLLLSPWSYTTYRGS
          DT.GYWKKRG.ESFY.YVEV.FTIT.ET.RF...LLLS.WSY.TY.GS
Retrocopy DTKGYWKKRGAESFYSYVEVAFTITNETHRFCASLLLSLWSYITYQGS

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_1647 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1647 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	ENSAMEG00000001449	1 retrocopy	retro_amel_1647 ,