RetrogeneDB ID: retro_amel_14

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193486.1:499022..499571(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000018754
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000017816
• Aliases: None
• Description: None

Sequence

>retro_amel_14
ATGGGCTTGCTCTCAATTTTGCGCAAATTGAAAAGTGCACCAGACCAGGAGGTGAGAATCCTTCTCCTGGGCTTGGATAA
TGCTGGCAAGACCACTCTTCTGAAACAGCTTGCATCTGAAGACATCAGCCACATTACACCTACACAGGGTTTTAACATCA
AAAGTGTACAATCACAAGGTTTTAAACTGAATGTATGGGACATTGGTGGACAAAGAAAAATCAGACCATACTGGAGAAAT
TATTTTGAAAATACCGATATTCTCATTTATGTAATTGACAGTGCAGACAGAAAAAGATTTGAAGAGACGGGTCAGGAACT
AGCTGAATTACTGGAGGAAGAAAAACTAAGTTGTGTGCCAGTGCTCATCTTTGCTAACAAGCAGGATTTGCTCACGGCAG
CCCCTGCCTCCGAAATCGCAGAAGGACTAAACTTGCACACCATCCACGACTGCATCTGGCAGATCCAGTCCTGCTCAGCT
CTCACAGGAGAGGGCGTTCAGGACGGCATGAACTGGGTCTGCAAAAATGTCAATGCAAAGAAGAAATAA

Alignment

ORF - retro_amel_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.34 %
• Parental protein coverage: 97.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GLLSILRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQ
          GLLSILRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQ
Retrocopy GLLSILRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQ

Parental  RKIRPYWRNYFENTDILIYVIDSADRKRFEETGQELAELLEEEKLSCVPVLIFANKQDLLTAAPASEIAE
          RKIRPYWRNYFENTDILIYVIDSADRKRFEETGQELAELLEEEKLSCVPVLIFANKQDLLTAAPASEIAE
Retrocopy RKIRPYWRNYFENTDILIYVIDSADRKRFEETGQELAELLEEEKLSCVPVLIFANKQDLLTAAPASEIAE

Parental  GLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAKKK
          GLNLHTI.D..WQIQSCSALTGEGVQDGMNWVCKNVNAKKK
Retrocopy GLNLHTIHDCIWQIQSCSALTGEGVQDGMNWVCKNVNAKKK

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_14 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_14 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017816	1 retrocopy	retro_amel_14 ,
Rattus norvegicus	ENSRNOG00000019973	1 retrocopy	retro_rnor_2672,