RetrogeneDB ID:

retro_tbel_1663

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:GeneScaffold_5414:330930..331437(+)
Located in intron of:ENSTBEG00000011067
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX1
Ensembl ID:ENSTBEG00000014931
Aliases:None
Description:chromobox homolog 1 [Source:HGNC Symbol;Acc:1551]


Retrocopy-Parental alignment summary:






>retro_tbel_1663
ATGGGTAAGAAACAGAATGGAAAGAGTAAAAAAGCTGAAGAGGCAGAGCCTGAAGAATTTGTGGTGGAAAAAGTACTGGA
CCGACGCGTAGTGAATGGGAAGGTGGAATATTTCCTGAAGTGGGAGGGATTTACAGATGCTGACAATACTTGGGAACCAG
AAGAAAATTTAGATTGTCCAGAGTTAATTGAAGCATTTCTTAATTCTCAAAAAGCTGGTAAAGAGAAAGATCGTACAAAG
AGAAAATCTTTATCTGACAGTGAATCTGATGATAGCAAATCAAAGAAGAGAGATGCTGCTGATAAACCAAGAGGCTTTGC
CAGAGGTCTTGATCCTGAACGAATAATTGGTGCCACAGACAGTGGAGAGTTGATGTTTCTCATGAAATGGAAAGATTCAG
ATGAGGCAGACTTGGTACTGGCAAAAGAAGCAAATATGAAGTGTCCTCAAATTGTAATTGCTTTTTATGAAGAGAGACTA
ACTTGGCATTCTTGTCCAGAAGATGAA

ORF - retro_tbel_1663 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.06 %
Parental protein coverage: 95.68 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMGKKQNKKKVEEVLEEEEEEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQS
MGKKQN.K......E.E.EE.VVEKVLDRRVV.GKVEY.LKW.GF.D.DNTWEPEENLDCP.LI..FL.S
RetrocopyMGKKQNGKS-KKAEEAEPEEFVVEKVLDRRVVNGKVEYFLKWEGFTDADNTWEPEENLDCPELIEAFLNS
ParentalQKTAHETDKTEGGKRKADSDSEDKGEESKPKKKKEESEKPRGFARGLEPERIIGATDSSGELMFLMKWKN
QK...E.D.T...KRK..SDSE.....SK...K.....KPRGFARGL.PERIIGATD.SGELMFLMKWK.
RetrocopyQKAGKEKDRT---KRKSLSDSESDDSKSK---KRDAADKPRGFARGLDPERIIGATD-SGELMFLMKWKD
ParentalSDEADLVPAKEANVKCPQVVISFYEERLTWHSYPSED
SDEADLV.AKEAN.KCPQ.VI.FYEERLTWHS.P...
RetrocopySDEADLVLAKEANMKCPQIVIAFYEERLTWHSCPEDE

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_1663 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_1663 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 16 parental genes, and 70 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000048902 retrocopies
Canis familiaris ENSCAFG000000168321 retrocopy
Choloepus hoffmanni ENSCHOG000000119572 retrocopies
Callithrix jacchus ENSCJAG000000075322 retrocopies
Felis catus ENSFCAG000000060561 retrocopy
Homo sapiens ENSG000001084683 retrocopies
Gorilla gorilla ENSGGOG000000240633 retrocopies
Microcebus murinus ENSMICG000000095104 retrocopies
Mustela putorius furoENSMPUG000000153021 retrocopy
Nomascus leucogenys ENSNLEG000000024354 retrocopies
Oryctolagus cuniculus ENSOCUG000000080213 retrocopies
Procavia capensis ENSPCAG000000023812 retrocopies
Pongo abelii ENSPPYG000000088911 retrocopy
Sarcophilus harrisii ENSSHAG000000081921 retrocopy
Sus scrofa ENSSSCG000000175291 retrocopy
Tupaia belangeri ENSTBEG00000014931 39 retrocopies



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