RetrogeneDB ID: retro_amel_1811

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL194505.1:121238..121508(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PTMA
• Ensembl ID: ENSAMEG00000016287
• Aliases: None
• Description: None

Sequence

>retro_amel_1811
AAGGACTTAAAGGAGAGGGAGGAGTGGTGGAGGAGGCAGAGGACACGAGAGGCGCACCTGCTAACAGGGACGCTGATGGA
GGAAGATGGGGAGCAGGAGGCGGACAATGCGGTGGATGAAGGGGAAGATGGGCAGGAGGAGAAAGAAGGCGACGGTGAGG
AGGAGAATGGCGAGGAAGACGAGAAGGCTGAGGCAGCTATGGGCTCAAGGGCAGCTGAAGATGAGGAGGAGGATGCCGAC
ACCAAGAAACAGAAGACCAACCAGGATGAC

Alignment

ORF - retro_amel_1811 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.27 %
• Parental protein coverage: 98.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KDLKEKKE-VVEEAENGRDAPAN-GNANEENGEQEAENEVDEEEEEGGEEEEEEEEGDGEEEDGDEDEEA
          KDLKE..E.VVEEAE..R.APAN.G...EE.GEQ....E.D....EG.E...EE.EGDGEEE.G.EDE.A
Retrocopy KDLKEREE<VVEEAEDTRGAPAN>GTLMEEDGEQ----EADNAVDEG-EDGQEEKEGDGEEENGEEDEKA

Parental  EAATGKRAAEDDEDDDVDTKKQKTDEDD
          EAA.G.RAAE.DE..D.DTKKQKT..DD
Retrocopy EAAMGSRAAE-DEEEDADTKKQKTNQDD

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_1811 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1811 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016287	1 retrocopy	retro_amel_1811 ,
Choloepus hoffmanni	ENSCHOG00000006234	1 retrocopy	retro_chof_60,
Cavia porcellus	ENSCPOG00000022634	1 retrocopy	retro_cpor_916,