RetrogeneDB ID: retro_amel_856

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192684.1:572464..572704(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000015254
• Aliases: None
• Description: None

Sequence

>retro_amel_856
GGGCCCCATGGGGACCCGGGCATGCCAGCAGAGGCGAGCGTGGGAGGCAAGGATGACAGCTTCCAGGAAGCAAAATATGT
TACTACCATCTCCATGTTGGACCAGATCAACTGCTGTCTGAACCACCTGGAGGAAAAGAAAGACCACGTCCATGCCCGCC
TCCAGGAGTTGCTTCAGTTCAACAGGCAAACACGCCTTGAGTTCCAGCAGCAGTTCCGGAAGGCCCCTATCAATCCCAGT

Alignment

ORF - retro_amel_856 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.25 %
• Parental protein coverage: 97.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GPNGDLGMPVEADAEGEKDGFGEAEYAAINSMLDQINSCLDHLEEKNDHLHARLQELLESNRQTRLEFQQ
          GP.GD.GMP.EA...G..D.F.EA.Y....SMLDQIN.CL.HLEEK.DH.HARLQELL..NRQTRLEFQQ
Retrocopy GPHGDPGMPAEASVGGKDDSFQEAKYVTTISMLDQINCCLNHLEEKKDHVHARLQELLQFNRQTRLEFQQ

Parental  QLGEAPSDAS
          Q...AP...S
Retrocopy QFRKAPINPS

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_856 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_856 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015254	6 retrocopies	retro_amel_100, retro_amel_1321, retro_amel_1561, retro_amel_1901, retro_amel_626, retro_amel_856 ,