RetrogeneDB ID: retro_amel_61

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL194116.1:327906..328692(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000018653
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: GJB2
• Ensembl ID: ENSAMEG00000014072
• Aliases: None
• Description: gap junction protein, beta 2, 26kDa [Source:HGNC Symbol;Acc:4284]

Sequence

>retro_amel_61
ATGGACTGGGGTACCCTACACACTTTCATCGGGGGTGTAAACAAGCACTCCACCAGCATCGGGAAGGTATGGATCACCGT
CATCTTCATTTTCCGTGTCATGATTCTTGTAGTGGCTGCTCAGGAAGTGTGGGGTGATGAACAGGAAGATTTTGTCTGCA
ACACTCTGCAACCAGGGTGCAAAAATGTGTGCTATGACCACTTTTTTCCTGTGTCCCACATCCGGCTGTGGGCCCTGCAA
CTCATCTTTGTCTCCACCCCAGCCCTGCTGGTAGCGATGCATGTCGCCTACTACAGACACGAGGCTGCCCGCAAATTTAG
GCGAGGAGAGAAAAGAAATGAATTCAAAGACTTAGAAGACATTAAAAAGCAGAAGGTTCGAATAGAGGGGTCCCTGTGGT
GGACATACACCAGCAGTATCTTTTTCCGAATCATCTTTGAAGCCTCCTTTATGTACGTGTTTTACTTCCTTTACAATGGG
TACCACCTGCCCTGGGTGTTGAAATGTGGGATTGACCCTTGCCCCAACTTGGTCGACTGCTTTATCTCTAGACCTACTGA
GAAAACCGTGTTTACCATTTTTATGATTTCTGCGTCTGTGATTTGCATGCTGCTTAATGTGGCCGAGTTGTGTTACCTGC
TGCTGAAAGTATGTTTTAGGCGATCAAAAAGAATGCAAACACAAAGAAATCATCCCAATCACGCCCTAAAAGAGAGTAAG
CAAAATGAAATGAATGAGCTGATTTCAGATAGTGGTCAAAATGCCATCACAGGCTTTCCAAGTTAA

Alignment

ORF - retro_amel_61 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.5 %
• Parental protein coverage: 83.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDWSTLQTILGGVNKHSTSIGKIWLTVLFIFRIMILVVAAKEVWGDEQADFVCNTLQPGCKNVCYDHYFP
          MDW.TL.T..GGVNKHSTSIGK.W.TV.FIFR.MILVVAA.EVWGDEQ.DFVCNTLQPGCKNVCYDH.FP
Retrocopy MDWGTLHTFIGGVNKHSTSIGKVWITVIFIFRVMILVVAAQEVWGDEQEDFVCNTLQPGCKNVCYDHFFP

Parental  ISHIRLWALQLIFVSTPALLVAMHVAYRRHEKKRKFIKGEIKSEFKDIEEIKSQKVRIEGSLWWTYTSSI
          .SHIRLWALQLIFVSTPALLVAMHVAY.RHE..RKF..GE...EFKD.E.IK.QKVRIEGSLWWTYTSSI
Retrocopy VSHIRLWALQLIFVSTPALLVAMHVAYYRHEAARKFRRGEKRNEFKDLEDIKKQKVRIEGSLWWTYTSSI

Parental  FFRVIFEAVFMYVFYIMYDGFSMQRLVKCNAWPCPNTVDCFVSRPTEKTVFTVFMIAVSGICILLNVTEL
          FFR.IFEA.FMYVFY..Y.G.......KC...PCPN.VDCF.SRPTEKTVFT.FMI..S.IC.LLNV.EL
Retrocopy FFRIIFEASFMYVFYFLYNGYHLPWVLKCGIDPCPNLVDCFISRPTEKTVFTIFMISASVICMLLNVAEL

Parental  CYLLIRYCSACFGREKERLFLPNHMLTSNR
          CYLL...C.....R.......PNH.L....
Retrocopy CYLLLKVCFRRSKRMQTQRNHPNHALKESK

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_61 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_61 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014072	1 retrocopy	retro_amel_61 ,