RetrogeneDB ID:

retro_amel_221

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192356.1:1540072..1540420(-)
Located in intron of:ENSAMEG00000015654
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PFDN6
Ensembl ID:ENSAMEG00000001576
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_amel_221
ATGGCTGAGCTAATCCAGAAGAAGCTACAGGAAAAAGGGGAGAAACAGCAGCAGCTACAGAAGGTCTTGAGTAAATCCAT
GTCAAGGCAGCAGAAGCTTGAGGTGTGACTAACAGAAAGTAATATTGTGAAGGAGGAGTTGGCCCTTTTAGATGGGTCCA
ACATGGTCTTTAAACTTCTGGGTCCTGTGCTGATCAAACAGGAGCTGGGAGAGGCTCAGGCCACAGTGGAGAAGAGGTTG
GACTATATCACAGCTGAAATTAAGTGATATGAATCCCAGCTCTGGGACCTCGAAGGGCAGTCAGAGCAACAGAGGGAGAC
CCTGGCTCAGCTACAGCAGGAGTTCCAG

ORF - retro_amel_221 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.34 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAELIQKKLQGEVEKYQQLQKDLSKSMSGRQKLEAQLTENNIVKEELALLDGSNVVFKLLGPVLVKQELG
MAELIQKKLQ...EK.QQLQK.LSKSMS..QKLE..LTE.NIVKEELALLDGSN.VFKLLGPVL.KQELG
RetrocopyMAELIQKKLQEKGEKQQQLQKVLSKSMSRQQKLEV*LTESNIVKEELALLDGSNMVFKLLGPVLIKQELG
ParentalEARATVGKRLDYITAEIKRYESQLRDLEQQSEQQRETLAQLQQEFQ
EA.ATV.KRLDYITAEIK.YESQL.DLE.QSEQQRETLAQLQQEFQ
RetrocopyEAQATVEKRLDYITAEIK*YESQLWDLEGQSEQQRETLAQLQQEFQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_221 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_221 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 17 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000001576 2 retrocopies
retro_amel_221 , retro_amel_824,
Bos taurus ENSBTAG000000107231 retrocopy
Canis familiaris ENSCAFG000000009562 retrocopies
Cavia porcellus ENSCPOG000000195201 retrocopy
Dipodomys ordii ENSDORG000000138281 retrocopy
Felis catus ENSFCAG000000281991 retrocopy
Macropus eugenii ENSMEUG000000167781 retrocopy
Microcebus murinus ENSMICG000000009221 retrocopy
Mustela putorius furoENSMPUG000000023641 retrocopy
Mus musculus ENSMUSG000000243091 retrocopy
Oryctolagus cuniculus ENSOCUG000000105591 retrocopy
Otolemur garnettii ENSOGAG000000283414 retrocopies
Ochotona princeps ENSOPRG000000009831 retrocopy
Pteropus vampyrus ENSPVAG000000019101 retrocopy
Rattus norvegicus ENSRNOG000000004732 retrocopies
Sorex araneus ENSSARG000000063302 retrocopies
Tupaia belangeri ENSTBEG000000132801 retrocopy



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