RetrogeneDB ID:

retro_tbel_2663

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_115909:5930..6462(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFB9
Ensembl ID:ENSTBEG00000006895
Aliases:None
Description:NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9, 22kDa [Source:HGNC Symbol;Acc:7704]


Retrocopy-Parental alignment summary:






>retro_tbel_2663
ATGAAGTTCTCAGTGCCAGGGACCTACCTGACCCACCAGCAGAAGGTAATGTGCCTTTATAAGCAGGCACTGCGCCACCT
TGAGTCATGGTTCATCCACAGGGACAAATACCAGTACCTTGCATGCTTGTTAAGAGCTTGATTTGATGAACATAAAGATG
AAAAGGAAATGATGAAGGCCACCCAGCTGCTGAGAGAGGCAGAGAAGGAATTCTGGTACAACCAGCACCCCCAGCCATAC
ATCTCTGGCTCTCCTGGGGGTACCTCCTATGAAAGGTACGAGTGCTACAAGGTTTTGGATTGGTGCTTAGATGACTGGCA
TCCTTCTGAGAAGACAATGTATCCTGACTACTTTGTAAAGAGAGAACAGTGGAAGAAGCTGCGAAGGAAAGCTGGGAGTG
AGAGATTCAGCAGCTGAGTGCGGAAACCGCCCCCTGGTGGTCCCAAGAGTGAAGCTTTGGACCCCTGCCCGAAAGGAAGG
TGATTTGCCCCCAGTGTGGTGGCATATCGTGATCAGACCCCGGAAATGGCCC

ORF - retro_tbel_2663 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.11 %
Parental protein coverage: 99.44 %
Number of stop codons detected: 2
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalMAFSAPGAYLTHQQKVIRLYKRALRHLESWCIHRDKYRYFACLLRARFDEHKDEKDMMKATQLLREAEKE
M.FS.PG.YLTHQQKV..LYK.ALRHLESW.IHRDKY.Y.ACLLRA.FDEHKDEK.MMKATQLLREAEKE
RetrocopyMKFSVPGTYLTHQQKVMCLYKQALRHLESWFIHRDKYQYLACLLRA*FDEHKDEKEMMKATQLLREAEKE
ParentalFWYNQHPQPYIFPDSPGGTSFERYECYKVPEWCLDDWHPSEKAMYPDYFAKREQWKKLR-KESWEREXXX
FWYNQHPQPYI...SPGGTS.ERYECYKV..WCLDDWHPSEK.MYPDYF.KREQWKKLR.KESWE.E...
RetrocopyFWYNQHPQPYI-SGSPGGTSYERYECYKVLDWCLDDWHPSEKTMYPDYFVKREQWKKLR<KESWE*EIQQ
ParentalLREE-PPT-GLKSEAL-SPARKEGDLPPLWWHIVTRPRERP
L..E.PP..G.KSEAL..PARKEGDLPP.WWHIV.RPR..P
RetrocopyLSAE>PPPGGPKSEAL>TPARKEGDLPPVWWHIVIRPRKWP

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






RNA-Seq - click to see more details

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tupaia belangeri was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_tbel_2663 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_2663 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 18 parental genes, and 30 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000100221 retrocopy
retro_acar_132,
Ailuropoda melanoleuca ENSAMEG000000158522 retrocopies
retro_amel_1680, retro_amel_553,
Callithrix jacchus ENSCJAG000000128181 retrocopy
retro_cjac_2125,
Equus caballus ENSECAG000000182381 retrocopy
retro_ecab_541,
Felis catus ENSFCAG000000046781 retrocopy
retro_fcat_689,
Homo sapiens ENSG000001476842 retrocopies
retro_hsap_3905, retro_hsap_4112,
Gorilla gorilla ENSGGOG000000158832 retrocopies
retro_ggor_2632, retro_ggor_2759,
Microcebus murinus ENSMICG000000174811 retrocopy
retro_mmur_1494,
Myotis lucifugus ENSMLUG000000037651 retrocopy
retro_mluc_1339,
Macaca mulatta ENSMMUG000000154931 retrocopy
retro_mmul_1736,
Monodelphis domestica ENSMODG000000018313 retrocopies
retro_mdom_1176, retro_mdom_1193, retro_mdom_1582,
Nomascus leucogenys ENSNLEG000000054842 retrocopies
retro_nleu_1141, retro_nleu_578,
Otolemur garnettii ENSOGAG000000307722 retrocopies
retro_ogar_1654, retro_ogar_925,
Pongo abelii ENSPPYG000000188693 retrocopies
retro_pabe_2643, retro_pabe_3182, retro_pabe_3366,
Pan troglodytes ENSPTRG000000205692 retrocopies
retro_ptro_2656, retro_ptro_2791,
Pteropus vampyrus ENSPVAG000000091531 retrocopy
retro_pvam_243,
Ictidomys tridecemlineatus ENSSTOG000000219551 retrocopy
retro_itri_611,
Tupaia belangeri ENSTBEG00000006895 3 retrocopies
retro_tbel_1901, retro_tbel_2663 , retro_tbel_610,


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