RetrogeneDB ID: retro_amel_593

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192515.1:2105640..2106033(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000010618
• Aliases: None
• Description: None

Sequence

>retro_amel_593
GAAGAAGAGGTGAGAACGACCCATGTACCGACCAAAGCCCACATACTGCTGCACGCCCGTGTCCAGCACCTATGTCCCCC
GCTGTCACCACCATGCCCAAGAAAGGCTGGAAAGAGAATGTTAAAGGAGATAAAACCGAGGTGAAAGATGAGCCACAGAG
AAGATCTGCAAGATTATCTCCTAAACGTGCTCCTCCAAAGCCAGAGCCCAAACCTAAAAAGGCCCCTTCAAAGAAGGGAG
GGAAGGTACCCAAAGGGAAAAGGGGGAAAGCTGATGTTGGCAAGGATGGGAATAACCCTGCAAAACAGAGATGATTTGCA
GACCAGACACAGAAAGCTGATGGTGCTGGAGATGCCAAGTGAAGCATGAGCAGGTTTGATAACTGTGTACTTC

Alignment

ORF - retro_amel_593 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.15 %
• Parental protein coverage: 99.21 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEEARTTPGPAKARAPLHPRVQRLVP---PPSPPCPRERLKGMLK---EIKPREDLQGYLLNLLLQSQSP
          EEE.RTT..P.KA...LH.RVQ.L.P...PP.P.....R.....K.......REDLQ.YLLN.LLQSQSP
Retrocopy EEEVRTTHVPTKAHILLHARVQHLCPPLSPPCPRKAGKRMLKEIKPR*KMSHREDLQDYLLNVLLQSQSP

Parental  SLKRPLQRRERRYPKGKRGKLMLARMGITLQKTETPKQTRHRKLKVLEMPSELCAFLITVYF
          .LKRPLQRRE.RYPKGK.GKLMLARMGITLQ......QTRHRKL.VLEMPSE..A.LITVYF
Retrocopy NLKRPLQRREGRYPKGKGGKLMLARMGITLQNRD-DLQTRHRKLMVLEMPSEA*AGLITVYF

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_593 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_593 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010618	7 retrocopies	retro_amel_1286, retro_amel_1287, retro_amel_1351, retro_amel_1557, retro_amel_1780, retro_amel_416, retro_amel_593 ,