RetrogeneDB ID:

retro_tbel_3987

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_48880:328..823(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TMA16
Ensembl ID:ENSTBEG00000017224
Aliases:None
Description:translation machinery associated 16 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:25638]


Retrocopy-Parental alignment summary:






>retro_tbel_3987
TTGAAGAATGAGAAGGCCTTATGTCTTAATCTTATTGGTGAAAAATTGCGGTGATCTCAAAGTCATCTTGATCCCCTAAA
GGGGGGATATTCAAAGAGATGCTGTGAGTTAATTGAAAGATATTTAAATTGATTTAGTGGCTAGCTGGAGCAGATTGAAT
TACACAACAGCATCAGACAGGCAGGGCCGGTGACACTGTTCCTGGGAGACAGAGTCATCAGGCAGACGGTGGCATGCGAG
TGGCAACAGTACGAGGGCTACGGCCTTGAGATATCAGATACCCTAAATGTAAGTAATCTGAAAACTTTTCGGGAATGGGA
TTTTGATTTGAAGAAACTGCCAAACATTAAAATGAGGAACATTTGTGCTAACGATGCAATTCCCAAGAAATGCAAGAAGT
CAACTGAGACTATTATAATGGTAAACAAAGATTTAGAAGAATTGGATCTAAAAGATAAATCCAGTGACTCAGATGAAGAA
ATAACTGTGGTGGAC

ORF - retro_tbel_3987 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.9 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLKNEKALRLNLIGEKLQWFQSHLDPHKGGYSKRDACELIERYLNRFSGELEQIELHNSIRDRQGRRHCSR
LKNEKAL.LNLIGEKL...QSHLDP.KGGYSKR..CELIERYLN.FSG.LEQIELHNSIR..........
RetrocopyLKNEKALCLNLIGEKLR*SQSHLDPLKGGYSKR-CCELIERYLN*FSG*LEQIELHNSIRQAGPVTLFLG
ParentalEAVIRQTVARERQQYEGYGLEIPDILNASNLKTFRXXDFDLKKSPNIKMRKICANDAIPKKCKKKTKTVV
..VIRQTVA.E.QQYEGYGLEI.D.LN.SNLKTFR..DFDLKK.PNIKMR.ICANDAIPKKCKK.T.T..
RetrocopyDRVIRQTVACEWQQYEGYGLEISDTLNVSNLKTFREWDFDLKKLPNIKMRNICANDAIPKKCKKSTETII
ParentalTVDKDLEELDLKGESSDSDEEMTAVD
.V.KDLEELDLK..SSDSDEE.T.VD
RetrocopyMVNKDLEELDLKDKSSDSDEEITVVD

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_3987 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_3987 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 19 parental genes, and 37 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000067022 retrocopies
Cavia porcellus ENSCPOG000000011191 retrocopy
Dasypus novemcinctus ENSDNOG000000068201 retrocopy
Echinops telfairi ENSETEG000000097341 retrocopy
Homo sapiens ENSG000001984982 retrocopies
Gorilla gorilla ENSGGOG000000253241 retrocopy
Macropus eugenii ENSMEUG000000011343 retrocopies
Macaca mulatta ENSMMUG000000044822 retrocopies
Monodelphis domestica ENSMODG000000021701 retrocopy
Mus musculus ENSMUSG000000255912 retrocopies
Nomascus leucogenys ENSNLEG000000064662 retrocopies
Otolemur garnettii ENSOGAG000000018601 retrocopy
Pongo abelii ENSPPYG000000151671 retrocopy
Pan troglodytes ENSPTRG000000236182 retrocopies
Rattus norvegicus ENSRNOG000000141883 retrocopies
Sorex araneus ENSSARG000000037801 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000247633 retrocopies
Tupaia belangeri ENSTBEG00000017224 7 retrocopies
Tarsius syrichta ENSTSYG000000082841 retrocopy



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