RetrogeneDB ID: | retro_tbel_2343 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | scaffold_109225:44486..44913(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZNRF2 | ||
| Ensembl ID: | ENSTBEG00000015445 | ||
| Aliases: | None | ||
| Description: | zinc and ring finger 2 [Source:HGNC Symbol;Acc:22316] |
Retrocopy-Parental alignment summary:
>retro_tbel_2343
TCTTCCTTCAGCACTCCACCAGCAGCAGTGGCCTGTGGGGCTCACAGGACTCCATGCTCAGCAGCTCCAGGGATGACGGT
GTCAGTGGTAGAGAGAAGTTGGCCAGAGGTGACCCAACAGGCCATGCCCTGGTGATCAGTTCCTTACTAGTTCACCTCTC
ACTGCGTGTGTTTGGAGAACGTAAGTGTCTTGTGTGTGCAAAATTTGTACCTTTAGGTGACATGGATGTGCATCTTGTGA
TGTGTTGAAAGAAGCCAAGAATAACCTATAATGAGGATGTACTGAGTAAAGATGATGGGAATGTGCCATGTTCCTTGATG
AATTGCAGCAGGGGGATACTATAGAATGACAGCCTTGCCTGTGCATGTACCATAACATCTACCAAGGTGAATGGTTTGAA
GCAAATAGATCTTTCTCTGAGCACCCT
ORF - retro_tbel_2343 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.45 % |
| Parental protein coverage: | 60.17 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SSFSIP-NSSSGPYGSQDSV-HSSPEDGGGGRDRPAAGGPGGPRLVIGSLPAHLSPHMFGGFKCPVCSKF |
| SSFS.P..SSSG..GSQDS...SS..DG..GR...A.G.P.G..LVI.SL..HLS...FG..KC.VC.KF | |
| Retrocopy | SSFSTP<TSSSGLWGSQDSMLSSSRDDGVSGREKLARGDPTGHALVISSLLVHLSLRVFGERKCLVCAKF |
| Parental | VPSDEMDLHLVMCLTKPRITYNEDVLSKDAG-ECAICLEELQQGDTIARLPCLCIYHKGCIDEWFEVNRS |
| VP...MD.HLVMC..KPRITYNEDVLSKD.G.ECA..L.ELQQGDTI...PCLC.YH.....EWFE.NRS | |
| Retrocopy | VPLGDMDVHLVMC*KKPRITYNEDVLSKDDG<ECAMFLDELQQGDTIE*QPCLCMYHNIYQGEWFEANRS |
| Parental | CPEHP |
| ..EHP | |
| Retrocopy | FSEHP |
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_2343 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_2343 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 35 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Tupaia belangeri | ENSTBEG00000015445 | 35 retrocopies |
retro_tbel_1132, retro_tbel_1567, retro_tbel_1587, retro_tbel_1588, retro_tbel_1666, retro_tbel_2108, retro_tbel_2209, retro_tbel_2225, retro_tbel_2251, retro_tbel_2307, retro_tbel_2343 , retro_tbel_2360, retro_tbel_2387, retro_tbel_2401, retro_tbel_2405, retro_tbel_2438, retro_tbel_2451, retro_tbel_2556, retro_tbel_3161, retro_tbel_3366, retro_tbel_3730, retro_tbel_3769, retro_tbel_3771, retro_tbel_4080, retro_tbel_4106, retro_tbel_4153, retro_tbel_4166, retro_tbel_4233, retro_tbel_4410, retro_tbel_4485, retro_tbel_4511, retro_tbel_4528, retro_tbel_4587, retro_tbel_4686, retro_tbel_4716,
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