RetrogeneDB ID: | retro_tbel_606 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | GeneScaffold_2536:236857..237834(-) | ||
| Located in intron of: | ENSTBEG00000014118 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GABRQ | ||
| Ensembl ID: | ENSTBEG00000005215 | ||
| Aliases: | None | ||
| Description: | gamma-aminobutyric acid (GABA) A receptor, theta [Source:HGNC Symbol;Acc:14454] |
Retrocopy-Parental alignment summary:
>retro_tbel_606
GCCCCTGTGCCTATGAGATTATCTATCTATGTCTCCAGCATTGAACAGATTTCAGAAATGAATATGGACTATACAATCAT
GATGTTTTTCCATCAAACCTGGAAAGACTCATGTTTAGCATACCACGAGACCAACCTGAACCTGAGCCTGGACTCTCGGG
CTGCATGAGAAGTTGTAGGTCCCCGACTGCTACTTTCTGAATAGCAAGGATGCTTTCGTGCATGAGGTGACCATGGACAA
TTGCATGTTTCAGCTTCACCCAGATGGGACGGTGCAGTATGGCATCCAACTCACCACCACAGCAGCTTGTTCCCTGCATC
TGCGCAAATTCCCTCTGGACAAGGAGGACTGCAAGCTAGAGGTGGAAACCTTCGGCTACACAGTTGAAGACATCATATTA
TTCTGGGAAGACAATGGGGATGCTGTCCAGATGACTGAAGAGCTATAGATCCCTCAGTTCACCTTCCTGGGGAGGACAGT
TACTAGCAAGGAGTGTATTTCTACACAGGTTCCTACATGCACCTGATACTGAAGTTCCAGGTCCAAAGGGAAGTTAACAG
CTACCTAGTGTAGGTCTATTGGCCCACTGTTCTCACCACAATTCTCTCCTGGATATCACTTTGGATGAACTATGATTCCT
CTGCAGCGAGGGTGACACTTGGCCTGTCTTCAATGCCTGTCCTGACCACCATCAACTCCCATCTGCAGGATAGACTCCCC
ACGTTTCCTGTATCAAGGCCATCGACATTTATATCCTGGTGTGCTTGTTCTCTGTGTTCATGTCCTTGCTGGAGTACGTC
TATATCAACTACCTTTTCTACAGCCAAAGACCTCGGCGTCATAGGTGACGTAGGAGATCCTGACGAAGAGTCATCGCCGG
CTACTGCTACCAGGAAGTGGTGGTGAGAAACGTGCAGGTTTGACTTTTTGACTGACGATCGGCTTTCCCTGAGCACTTCT
CAAGCCCAGGCATAGCA
ORF - retro_tbel_606 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.72 % |
| Parental protein coverage: | 51.26 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | APVPVKVSIYVSSIEQISEKNMDYTITMFFHQTWKDSRLAYYETNLNLSLDSR-LHEMLWVPDCYFLNSK |
| APVP...SIYVSSIEQISE.NMDYTI.MFFHQTWKDS.LAY.ETNLNLSLDSR.LHE.L.VPDCYFLNSK | |
| Retrocopy | APVPMRLSIYVSSIEQISEMNMDYTIMMFFHQTWKDSCLAYHETNLNLSLDSR>LHEKL*VPDCYFLNSK |
| Parental | NAFLHEVTTENRMFRLHPDGTVRYGIRLTATAACSLDLRKFPLDKQDCKLEVESYGYTVEDIILFWEDNE |
| .AF.HEVT..N.MF.LHPDGTV.YGI.LT.TAACSL.LRKFPLDK.DCKLEVE..GYTVEDIILFWEDN. | |
| Retrocopy | DAFVHEVTMDNCMFQLHPDGTVQYGIQLTTTAACSLHLRKFPLDKEDCKLEVETFGYTVEDIILFWEDNG |
| Parental | DAVQMTEELLIPQFTFLGRTVTSKE-VYFYTGSYKRLILKFQVQREVHGYLVQVYWPTVLTTIFSWISFW |
| DAVQMTEEL.IPQFTFLGRTVTSKE.VYFYTGSY..LILKFQVQREV..YLV.VYWPTVLTTI.SWIS.W | |
| Retrocopy | DAVQMTEEL*IPQFTFLGRTVTSKE<VYFYTGSYMHLILKFQVQREVNSYLV*VYWPTVLTTILSWISLW |
| Parental | MDYDSSAARVTLGLSSMLILTTINSHLRERL-PHVSYIKAIDVYILVCLFFVFLSLLEYVYINYLFYNRR |
| M.YDSSAARVTLGLSSM..LTTINSHL..RL.PHVS.IKAID.YILVCLF.VF.SLLEYVYINYLFY..R | |
| Retrocopy | MNYDSSAARVTLGLSSMPVLTTINSHLQDRL<PHVSCIKAIDIYILVCLFSVFMSLLEYVYINYLFYSQR |
| Parental | PRRHRRRRRPRRRVVARYHYEEAVVGNVQDGLINVEDGIGSLPTSPALA |
| PRRHR.RRR..RRV.A.Y.Y.E.VV.NVQ..L............SP..A | |
| Retrocopy | PRRHR*RRRS*RRVIAGYCYQEVVVRNVQV*LFD*RSAFPEHFSSPGIA |
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_606 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_606 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Tupaia belangeri | ENSTBEG00000005215 | 1 retrocopy |
retro_tbel_606 ,
|