RetrogeneDB ID:

retro_tbel_3514

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_143231:241291..241806(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NSA2
Ensembl ID:ENSTBEG00000012978
Aliases:None
Description:NSA2 ribosome biogenesis homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:30728]


Retrocopy-Parental alignment summary:






>retro_tbel_3514
ATGCCACAAAACAAATATATTGAATTACATCGTAAATGCTATAGATACCATTTGGATTTCCATGAGAAAAAGAGAAAGAA
GGAAAGTCAGGAGGCTCATGAACGTTCAAAGAAGGCAAAAAAGATGATTGGTCTGAAGGCTAAGCTCTGTCATAAACAGC
ACATGCTGAGAAAATACAAATGAAAAAGACTATCAAGATGCATGAAAAGAGGAACACCAAACAGAAGAATGATGAGAAGA
CTCCACAAGGAGCAGTACCTGCCTACCTACAGAGAAGGACAGTCCCAAGCTAAAGTACTTCCCAATGTGAGTAAACAAAA
ATGGAAAGAGAAAGTAAGAAAATGGGAAGTCTCTCTACCCAAAGTTTGAGCCCAGGGAGAAACAAAGGATGAAAAGTTAT
TCGAACAGGAAAGAGAAAAGAGAAGGCATGAAAGAGGAGAGTTATCAAAGTCTGCTTTGTTGAAGATGACTTTACTAGAA
AACCACCTAAATGTGAAAGCTTCATTAGGCCAATG

ORF - retro_tbel_3514 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.4 %
Parental protein coverage: 66.41 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMPQNEYIELHRKRYGYRLDYHEKKRKKESREAHERSKKAKKMIGLKAKLYHKQR-HAEKIQMKKTIKMHE
MPQN.YIELHRK.Y.Y.LD.HEKKRKKES.EAHERSKKAKKMIGLKAKL.HKQ..HAEKIQMKKTIKMHE
RetrocopyMPQNKYIELHRKCYRYHLDFHEKKRKKESQEAHERSKKAKKMIGLKAKLCHKQH<HAEKIQMKKTIKMHE
ParentalKRNTKQKNDEKTPQGAVPAYLLDR-EGQSRAKVLSNMIKQKRKEKAGKWEVPLPKVRAQGETEVLK-VIR
KRNTKQKNDEKTPQGAVPAYL..R...Q....VL.N..KQK.KEK..KWEV.LPKV.AQGET...K.VIR
RetrocopyKRNTKQKNDEKTPQGAVPAYLQRR>QSQAK--VLPNVSKQKWKEKVRKWEVSLPKV*AQGETKDEK<VIR
ParentalTGKR-EKAWKRMVTKVCF--GDFT-KPPKYERFIRPM
TGKR.EKA.KR.V.KVCF...DFT.KPPK.E.FIRPM
RetrocopyTGKRKEKA*KRRVIKVCFVEDDFTRKPPKCESFIRPM

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






Tupaia belangeri was not studied using RNA-Seq expression data.
Tupaia belangeri was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_tbel_3514 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_3514 was not experimentally validated.

Retrocopy orthology:
Tupaia belangeri 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 34 parental genes, and 223 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000005935 retrocopies
Bos taurus ENSBTAG000000030663 retrocopies
Canis familiaris ENSCAFG000000083114 retrocopies
Choloepus hoffmanni ENSCHOG000000121262 retrocopies
Callithrix jacchus ENSCJAG000000168741 retrocopy
Cavia porcellus ENSCPOG000000066481 retrocopy
Dasypus novemcinctus ENSDNOG000000106151 retrocopy
Equus caballus ENSECAG000000055281 retrocopy
Echinops telfairi ENSETEG0000000409513 retrocopies
Felis catus ENSFCAG000000119781 retrocopy
Homo sapiens ENSG000001643464 retrocopies
Gorilla gorilla ENSGGOG000000143656 retrocopies
Loxodonta africana ENSLAFG000000099104 retrocopies
Macropus eugenii ENSMEUG000000157983 retrocopies
Microcebus murinus ENSMICG000000007523 retrocopies
Myotis lucifugus ENSMLUG000000144644 retrocopies
Macaca mulatta ENSMMUG000000111966 retrocopies
Monodelphis domestica ENSMODG000000019004 retrocopies
Mustela putorius furoENSMPUG000000057955 retrocopies
Mus musculus ENSMUSG0000006073925 retrocopies
Nomascus leucogenys ENSNLEG0000000504610 retrocopies
Oryctolagus cuniculus ENSOCUG000000065366 retrocopies
Ochotona princeps ENSOPRG000000018677 retrocopies
Pongo abelii ENSPPYG000000259268 retrocopies
Pan troglodytes ENSPTRG000000169906 retrocopies
Pteropus vampyrus ENSPVAG000000053962 retrocopies
Rattus norvegicus ENSRNOG0000001653015 retrocopies
Sorex araneus ENSSARG000000094244 retrocopies
Sarcophilus harrisii ENSSHAG000000176545 retrocopies
Sus scrofa ENSSSCG000000140752 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000079593 retrocopies
Tupaia belangeri ENSTBEG00000012978 56 retrocopies
Tursiops truncatus ENSTTRG000000052191 retrocopy
Vicugna pacos ENSVPAG000000073682 retrocopies



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