RetrogeneDB ID:

retro_amel_318

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192384.1:3011181..3011814(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL10A
Ensembl ID:ENSAMEG00000000670
Aliases:None
Description:ribosomal protein L10a [Source:HGNC Symbol;Acc:10299]


Retrocopy-Parental alignment summary:






>retro_amel_318
GTCTCCCACGACACCTCGTATGAGGTTGTGCAGGAAGTCCTGCCGCACAGCTGGTACAAGTGCCCAAAGTTTTTGGAGAT
GGTGGAGCTGCAGGTCAGCTTGAAGAACTATGACTCTTCAAAGACAAGTGCTTCTTGGGCACTGTCAGGCTTAAGTCCAC
TCTTCACCCCAAGTTCTCCATATGTGTTTTGGGGGACCAGCCGTGCTGCAATGAGTCCAAGGCTGTGGATATCCCCACAT
GGACATTGAGGCCCTGAAGAAACTCAACAAGAATAAAAAATGAGTTAAGAAGCTGGCCAAGAAGTATGATGCCTTTTTGG
CTTCAGAATCTCTGATTAAGCAGATCCCATGAATACTGGACCAAGGCCTGAATAAGCCTAGCAGTTTCCCTCCCTTGCTG
ACTCACAATGAGAACATGGTGGCCAGAGTGAATGAAGGGAAGTCCACGATCAAATTCCAGATGAAGAAGGTACTGTGCCT
GGCAGTGGCTGCTGGCCACATGAAGATGACAGATGATGAGCTCGTGTACAGCATCCACTTAGCTGTTAATTTCCTGGTGT
CATTTCTCAAGAGTTGGCAGAACATCCAGGCTTTATACATCAAGAGCACCATGGGCAACCCCAGCACCTGTAC

ORF - retro_amel_318 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.78 %
Parental protein coverage: 98.16 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalVSRDTLYEAVREVLHGNQRKRRKFLETVELQISLKNYDPQK-DKRFSGTVRLKSTPRPKFSVCVLGDQQH
VS.DT.YE.V.EVL.....K..KFLE.VELQ.SLKNYD..K.DK.F.GTVRLKST..PKFS.CVLGDQ..
RetrocopyVSHDTSYEVVQEVLPHSWYKCPKFLEMVELQVSLKNYDSSK<DKCFLGTVRLKSTLHPKFSICVLGDQPC
ParentalCDEAKAVDIP-HMDIEALKKLNKNKKLVKKLAKKYDAFLASESLIKQIPRILGPGLNKAGKFPSLLTHNE
C.E.KAVDIP.HMDIEALKKLNKNKK.VKKLAKKYDAFLASESLIKQIP.IL..GLNK...FP.LLTHNE
RetrocopyCNESKAVDIP<HMDIEALKKLNKNKK*VKKLAKKYDAFLASESLIKQIP*ILDQGLNKPSSFPPLLTHNE
ParentalNMVAKVDEVKSTIKFQMKKVLCLAVAVGHVKMTDDELVYNIHLAVNFLVSLLKKNWQNVRALYIKSTM-G
NMVA.V.E.KSTIKFQMKKVLCLAVA.GH.KMTDDELVY.IHLAVNFLVS.L.K.WQN..ALYIKSTM.G
RetrocopyNMVARVNEGKSTIKFQMKKVLCLAVAAGHMKMTDDELVYSIHLAVNFLVSFL-KSWQNIQALYIKSTM<G
ParentalKPQRLY
.PQ.LY
RetrocopyQPQHLY

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_318 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_318 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 14 parental genes, and 86 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000000670 13 retrocopies
Echinops telfairi ENSETEG000000133252 retrocopies
Felis catus ENSFCAG000000129047 retrocopies
Homo sapiens ENSG0000019875513 retrocopies
Gorilla gorilla ENSGGOG0000002814010 retrocopies
Macropus eugenii ENSMEUG000000057606 retrocopies
Macaca mulatta ENSMMUG000000159076 retrocopies
Monodelphis domestica ENSMODG000000137662 retrocopies
Nomascus leucogenys ENSNLEG0000000865013 retrocopies
Ornithorhynchus anatinus ENSOANG000000145741 retrocopy
Oryctolagus cuniculus ENSOCUG000000040652 retrocopies
Rattus norvegicus ENSRNOG000000005054 retrocopies
Sarcophilus harrisii ENSSHAG000000020471 retrocopy
Tursiops truncatus ENSTTRG000000094316 retrocopies



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