RetrogeneDB ID: retro_amel_1468

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193443.1:186729..187044(-)
• Located in intron of: ENSAMEG00000017204

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPX1
• Ensembl ID: ENSAMEG00000008487
• Aliases: None
• Description: None

Sequence

>retro_amel_1468
ATGTCATTCTGCAGCTTCTCTGGGAATGAGGTTTTCCAGAATCACTTGGAGCCACTTGTCTATGTATGCACCAAGTAAGA
CTATGAGCTTTTCTTTAGCTGCTCAAAGTATGAACACACAGCCACTTTCACTGAGACCATGCATGCTGAGCGTGTGGCCA
AGCATCAGGAGCACAATACACCTGAAGCCTTAAAAGTGTCCTGTGGCCGGTGTGGCCCTGGGCTGGGCCGTGAGTTCCTG
AATGATGGCCCCAACCCAGAGCAGTCCTGCTTCTGAATATTTAGTCACTTGCTGAAGTTCAACTGGAAAGGCAAA

Alignment

ORF - retro_amel_1468 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.59 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSFCSFFGGEVFQNHFEPGVYVCAKCGYELFSSRSKYAHSSPWPAFTETIHADSVAKRPERNSPTALKVS
          MSFCSF.G.EVFQNH.EP.VYVC.K..YELF.S.SKY.H......FTET.HA..VAK..E.N.P.ALKVS
Retrocopy MSFCSFSGNEVFQNHLEPLVYVCTK*DYELFFSCSKYEHTA---TFTETMHAERVAKHQEHNTPEALKVS

Parental  CGRCGNGLGHEFLNDGPKPGQSRF-IFSSSLKFIPKGE
          CGRCG.GLG.EFLNDGP.P.QS.F.IFS..LKF..KG.
Retrocopy CGRCGPGLGREFLNDGPNPEQSCF*IFSHLLKFNWKGK

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_1468 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1468 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008487	1 retrocopy	retro_amel_1468 ,
Homo sapiens	ENSG00000198736	1 retrocopy	retro_hsap_2057,
Microcebus murinus	ENSMICG00000011349	1 retrocopy	retro_mmur_1267,
Macaca mulatta	ENSMMUG00000007936	1 retrocopy	retro_mmul_1402,
Pan troglodytes	ENSPTRG00000024355	1 retrocopy	retro_ptro_1372,