RetrogeneDB ID: retro_amel_1608

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193727.1:371537..371858(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000000251
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000001122
• Aliases: None
• Description: None

Sequence

>retro_amel_1608
GCCAATGAGCCGGGTATTGATACGGGCCATGCAAAGACTGGCAAACCCCTGGAAGTTGTTTTCTTCTGGAATGACTCTGA
CTCTCTCCGTCTTCTAAACATTCTGTAAGGGGATGATCAGTCCTGTCAGCTGGGTAGCCAATTTGAGTTCTTCAGCAGCA
CTGTCTGCCTTCTTGGGGGCCGAGGGCTTCCTGGGGAAGAGGATGAGCTTGGAGCGGTTGGCCTTCAGTTTCAGTCCTGC
ACATCAGCCTGCAGGGACTCGGTGGACTTGTTCTGCCTTCTTGGAGCCACTGAGATCCCAATGGTCCATGCCACCTTCTT
G

Alignment

ORF - retro_amel_1608 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.48 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AKEPGIGTGHAKTGECLKVLLLLCD-DSGFLL-TFRMGMTGPVSWVANLSSSA-LSPFLGAEGFLGKRMS
          A.EPGI.TGHAKTG..L.V.....D.DS..LL.TF..GM..PVSWVANLSSSA.LS.FLGAEGFLGKRMS
Retrocopy ANEPGIDTGHAKTGKPLEVVFFWNDSDSLRLL>TFCKGMISPVSWVANLSSSAALSAFLGAEGFLGKRMS

Parental  LER--YSFS-RCTLACRDSVDLFRRLGSTEIPMVRATFL
          LER...SFS..CT.ACRDSVDLF..LG.TEIPMV.ATFL
Retrocopy LERLAFSFS<SCTSACRDSVDLFCLLGATEIPMVHATFL

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_1608 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1608 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001122	3 retrocopies	retro_amel_1320, retro_amel_1608 , retro_amel_183,