RetrogeneDB ID: retro_amel_1787

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL194326.1:252743..253189(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ABHD17B
• Ensembl ID: ENSAMEG00000007245
• Aliases: None
• Description: abhydrolase domain containing 17B [Source:HGNC Symbol;Acc:24278]

Sequence

>retro_amel_1787
AAGAATCTCTGTGCAGGTATAGAAGCTGCTCGGCTTGCTCTTATGACAAGATATGGCATTCACCCTGAAAATGTAAGTAT
ATATGGCCAAAGTAGAGGGACAGGACCATCTGTGGATCTTACTGCTCAGTCTGAGAGTGCTGCTGTTACTCTTCATTTTC
CTTTGACCTCGGGAATGGGAGCCACTTTTCCTGGTACTAAGAAGACCTGCTATTTGGATGCATTCCCAAACATTGACAAA
AACTCTAAGATAACATCTCCTGTATTAATAATTCATGGGACTGAAGATGAAGTCAGTGACTTCTCACATGGCCTCCATTG
TTTGAGCCTTGTCAAAGACCGGTGGAGACTCTGTGGGTGGAAGGGGCAGGTAACAATGATGTGGAACTTTATGGATGGTA
CCTTGAAAAACTGAACCAGTTTGTGTCACAGAAACTGCTAAATTTG

Alignment

ORF - retro_amel_1787 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.67 %
• Parental protein coverage: 51.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KNLYADIEAAWLALRTRYGIRPENVIIYGQSIGTVPSVDLAARYESAAVILHSPLTSGMRVAFPDTKKTY
          KNL.A.IEAA.LAL.TRYGI.PENV.IYGQS.GT.PSVDL.A..ESAAV.LH.PLTSGM...FP.TKKT.
Retrocopy KNLCAGIEAARLALMTRYGIHPENVSIYGQSRGTGPSVDLTAQSESAAVTLHFPLTSGMGATFPGTKKTC

Parental  CFDAFPNIDKISKITSPVLIIHGTEDEVIDFSHGL-ALFERCQRPVEPLWVEGAGHNDVELYGQYLERLK
          ..DAFPNIDK.SKITSPVLIIHGTEDEV.DFSHGL..LFE.CQRPVE.LWVEGAG.NDVELYG.YLE.L.
Retrocopy YLDAFPNIDKNSKITSPVLIIHGTEDEVSDFSHGL<PLFEPCQRPVETLWVEGAGNNDVELYGWYLEKLN

Parental  QFVSQELVNL
          QFVSQ.L.NL
Retrocopy QFVSQKLLNL

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_1787 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1787 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	ENSAMEG00000007245	1 retrocopy	retro_amel_1787 ,
Erinaceus europaeus	ENSEEUG00000013750	1 retrocopy	retro_eeur_688,