RetrogeneDB ID: retro_amel_508

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192481.1:73659..73921(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf21
• Ensembl ID: ENSAMEG00000013468
• Aliases: None
• Description: chromosome 1 open reading frame 21 [Source:HGNC Symbol;Acc:15494]

Sequence

>retro_amel_508
GATGAGTATAGGATTAAACTGGTGGAAGAGGTCAAATACATGAAAAACAGGGCAGAAAAGGAGCAGAAAATAGCAGCCAC
AGGAACCAAGAAAACTTGGGGAAAAGTACCAGTTCAAATGTGAGCCTTATAACTAATAAGACATTCCAGGCTTAGTTCAT
GAATTCAGAGAAAACACTCACATCTGTGAAAACCAACAAGAATTCTTTAGAATGCTGGATGAAAAAACTGAAAAGGGTCA
AGATTATTGTTTGGAAGAGGAT

Alignment

ORF - retro_amel_508 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.22 %
• Parental protein coverage: 71.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DEYRIKPVEEVKYMKNGAE-EEQKIAA-RNQENLEKSASSNVRLKTNK-EIPGLVHQPRANMHISESQQE
          DEYRIK.VEEVKYMKN.AE.E....A..RNQENL.KS.SSNV.L.TNK..IPGLVH..R.N.HI.E.QQE
Retrocopy DEYRIKLVEEVKYMKNRAEKEQKIAAT<RNQENLGKSTSSNVSLITNK<DIPGLVHEFRENTHICENQQE

Parental  FFRMLDEKIEKGRDYCSEEE
          FFRMLDEK.EKG.DYC.EE.
Retrocopy FFRMLDEKTEKGQDYCLEED

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_508 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_508 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013468	2 retrocopies	retro_amel_508 , retro_amel_590,
Bos taurus	ENSBTAG00000038079	3 retrocopies	retro_btau_1219, retro_btau_1661, retro_btau_18,
Canis familiaris	ENSCAFG00000013460	1 retrocopy	retro_cfam_1069,
Mustela putorius furo	ENSMPUG00000011816	1 retrocopy	retro_mputfur_1583,
Sorex araneus	ENSSARG00000013999	1 retrocopy	retro_sara_185,