RetrogeneDB ID: retro_amel_333

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192389.1:3320428..3320704(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000015497
• Aliases: None
• Description: None

Sequence

>retro_amel_333
CAAGACCAAGCAAAGGTGAAGAAAGAACACGCAAAGAAGTTCATAAAATATCTAAAAGAGCGTCAGAGTAAAATCTGCTT
TCTGGTGACTAAGAGGTCTGACATAGAGTACTGGGGAACTGACCGGCAAGCTATAGTGATTGCTCTGGAGGTGGAAAAGA
TGTTACACAAGCTCCTGCATGACCTGAAGAGCTTGGCTTTTAAGAATAGTGAAACTGATCTCTTAGAATTTCTGAAAAAG
TTCTTGGGTAAACAGAAAAGAAACATAAAGTATCTG

Alignment

ORF - retro_amel_333 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.35 %
• Parental protein coverage: 64.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QDQAEVKRQQAKQFIKYLKERQSKVCLPVTKRPDVGSWGTDLQAIVIALELEKGLHKHLQDLKSLASKNS
          QDQA.VK...AK.FIKYLKERQSK.C..VTKR.D...WGTD.QAIVIALE.EK.LHK.L.DLKSLA.KNS
Retrocopy QDQAKVKKEHAKKFIKYLKERQSKICFLVTKRSDIEYWGTDRQAIVIALEVEKMLHKLLHDLKSLAFKNS

Parental  ETDLLEFLKKFLDKQKRNIKYL
          ETDLLEFLKKFL.KQKRNIKYL
Retrocopy ETDLLEFLKKFLGKQKRNIKYL

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_333 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_333 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 3 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015497	1 retrocopy	retro_amel_333 ,
Canis familiaris	ENSCAFG00000028564	9 retrocopies	retro_cfam_1158, retro_cfam_1163, retro_cfam_1432, retro_cfam_1901, retro_cfam_365, retro_cfam_448, retro_cfam_567, retro_cfam_715, retro_cfam_746,
Ictidomys tridecemlineatus	ENSSTOG00000022867	1 retrocopy	retro_itri_1495,