RetrogeneDB ID: retro_amel_1472

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193456.1:121953..122145(-)
• Located in intron of: ENSAMEG00000001821

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYRM7
• Ensembl ID: ENSAMEG00000017776
• Aliases: None
• Description: LYR motif containing 7 [Source:HGNC Symbol;Acc:28072]

Sequence

>retro_amel_1472
AAACCAACCCAGAAACCCACAGAAATTTTGTCTTTACCTAAGCTAATAGAAATAGATTCCAATGTTGAATTGTTACTCAG
AACATCTGTTATACAAGGTATTCAGACAGACCATGATACGCTGAAATTGGTCCCTAGGAAAGAACTCCTTACACAAAATG
TGCTATATTGTGATGCACCAACTCAGAAGCAA

Alignment

ORF - retro_amel_1472 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.75 %
• Parental protein coverage: 65.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KSNKSETSPKKIEELIKIGSDVELLLRTSVIQGIHTDHNTLKLVPRKELLIENVPYCDAPTQKQ
          K.....T.......LI.I.S.VELLLRTSVIQGI.TDH.TLKLVPRKELL..NV.YCDAPTQKQ
Retrocopy KPTQKPTEILSLPKLIEIDSNVELLLRTSVIQGIQTDHDTLKLVPRKELLTQNVLYCDAPTQKQ

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_1472 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1472 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 7 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017776	1 retrocopy	retro_amel_1472 ,
Canis familiaris	ENSCAFG00000000736	1 retrocopy	retro_cfam_1279,
Choloepus hoffmanni	ENSCHOG00000006766	6 retrocopies	retro_chof_1440, retro_chof_2015, retro_chof_2366, retro_chof_2681, retro_chof_488, retro_chof_688,
Echinops telfairi	ENSETEG00000010130	1 retrocopy	retro_etel_1126,
Oryctolagus cuniculus	ENSOCUG00000000166	1 retrocopy	retro_ocun_1740,
Ochotona princeps	ENSOPRG00000015568	4 retrocopies	retro_opri_1182, retro_opri_212, retro_opri_361, retro_opri_611,
Rattus norvegicus	ENSRNOG00000045961	1 retrocopy	retro_rnor_552,