RetrogeneDB ID: retro_amel_1092

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192899.1:908131..908725(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000007720
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CYC1
• Ensembl ID: ENSAMEG00000006052
• Aliases: None
• Description: cytochrome c-1 [Source:HGNC Symbol;Acc:2579]

Sequence

>retro_amel_1092
GACTATGTGGCCTACCGCCACCTGGTGGGTGTTTGCTACACGGAAGAAGAAGCTAAGGCACTTGCCGAGGAGGTGGAGGT
TCAGGACGGCCCCAACGAGGACGGGGAAATGTTCATGCGGCCAGGGAAGCTGTCTGACTACTTCCCAAAACCATACCCCA
ACCCTGAGGCCGCTCGAGCAGCCAACAATGGAGCACTGCCCCCTGACCTCAGCTACATCACCCGAGCTAGGCATGGTGGT
GAGGACTACGTCTTCTCCCTGCTAACGGGCTACTGCGAGCCGCCTACCGGGGTGTCACTGCGAGAGGGCCTGTACTTCAA
CCCCTACTTTCCTGGCCAGGCCATTGGCATGGCTCCTCCCATCTATGATGAGGTCTTGGAGTTTGATGATGGCACCCCAG
CTACCATGTCCCAGGTGGCCAAGGATGTGTGTACCTTCCTGCGCTGGGCATCCGAGCCAGAGCACGACCATCGCAAACTC
ATGGGGCTCAAGATGTTGATGATGATGGGCTTGCTATTTCCTCTGATCTACGCCATGAAGCGGCGTAAGTGGTCAGTCCT
GAAGAGCCGGAAGCTGGCATATTGGCCACCCAAG

Alignment

ORF - retro_amel_1092 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.47 %
• Parental protein coverage: 58.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DYVAYRHLVGVCYTEEEAKALAEEVEVQDGPNEDGEMFMRPGKLSDYFPKPYPNPEAARAANNGALPPDL
          DYVAYRHLVGVCYTEEEAKALAEEVEVQDGPNEDGEMFMRPGKLSDYFPKPYPNPEAARAANNGALPPDL
Retrocopy DYVAYRHLVGVCYTEEEAKALAEEVEVQDGPNEDGEMFMRPGKLSDYFPKPYPNPEAARAANNGALPPDL

Parental  SYITRARHGGEDYVFSLLTGYCEPPTGVSLREGLYFNPYFPGQAIGMAPPIYDEVLEFDDGTPATMSQVA
          SYITRARHGGEDYVFSLLTGYCEPPTGVSLREGLYFNPYFPGQAIGMAPPIYDEVLEFDDGTPATMSQVA
Retrocopy SYITRARHGGEDYVFSLLTGYCEPPTGVSLREGLYFNPYFPGQAIGMAPPIYDEVLEFDDGTPATMSQVA

Parental  KDVCTFLRWASEPEHDHRKRMGLKMLMMMGLLLPLIYAMKQHKWSVLKSRKLAYRPPK
          KDVCTFLRWASEPEHDHRK.MGLKMLMMMGLL.PLIYAMK..KWSVLKSRKLAY.PPK
Retrocopy KDVCTFLRWASEPEHDHRKLMGLKMLMMMGLLFPLIYAMKRRKWSVLKSRKLAYWPPK

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_1092 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1092 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006052	1 retrocopy	retro_amel_1092 ,
Myotis lucifugus	ENSMLUG00000015182	1 retrocopy	retro_mluc_36,
Drosophila melanogaster	FBgn0035600	1 retrocopy	retro_dmel_62,