RetrogeneDB ID: | retro_tbel_2111 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | scaffold_100649:3605..4501(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC38A2 | ||
| Ensembl ID: | ENSTBEG00000016388 | ||
| Aliases: | None | ||
| Description: | solute carrier family 38, member 2 [Source:HGNC Symbol;Acc:13448] |
Retrocopy-Parental alignment summary:
>retro_tbel_2111
CTGCTGGTGTCACAGATGCCCAGAAATTTAGTATAATTGGGATATACCGGTGGCCTTTCGTTAGTGTGTATGATGTTCTT
TCTGACTGCGCTAATTTGCAAGAAATTTCAGATTCCTTGTCCTCTGGAAGTTGCTTTGACGATCAATGAAACAAGGAATG
GCACTTTAACACAGCCAGCACTGTCTGCATCTGGTCTGTCTTTTAACATGACTGTTGATGATTCTTGCAAACCGTGCTAT
TTTATCTTCAACTCCCAGAACGTCTATGCTGTACTGATCCTGACCTTTTCCTTTGTCTGTCATCCGGCTACTATCCCATC
TATGAAGAGCTGAAAGGCTGCAGCTGTAGAAGAATGATGAATGTGTCCAAGATGTCATGTTTTTGCTGTTTCTCATGCAT
CTGCTTGCCGTCTTCTTTGGATACTTAACATTTTCCAAACACGTTGAGTCAGAATTGCTTCATACCTGCTCTACTGTCCT
GGGAGCCGATGTTCTTCTCATCGTCCGTTTGGCTATGTTAGTGGCTGTCATCCAGATAGTACCAGTTGCTATTTTCCCCA
ACCGGCGTTCCATAACTCATTTGTCTGTTCATTAAAAGATTTCAGTTGGTGGCATCATAGTCTCATTATGGTATCTATCT
TGGCATTTACCGATTTGCTTGTCATCTTCATTCCAACTATTGGGGAGATCTTTGGCTTCGTTGGTGCATCTGCTGCTGCT
ATGTTGATTTTTATTCTTCCATCTGCCTTCTCTGTCAAGTTAGTGAAGAAAGAAACTATGTAATCTATACAAAAGATCGG
GGCAACGTTCTTCCTGTTAGGAGGCATAGTGGTGGTGACGAGAAGCATGGCTTTGATTGTTTGGATTGGGTACACAATGC
TCCTGGAGGTGGTCAT
ORF - retro_tbel_2111 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.79 % |
| Parental protein coverage: | 59.33 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | ILPLSLLRNLGYLGYTSGLSLLCMMFFLIVVICKKFQIPCPMEVAFLINETMNGTLTQPTAFASDSTFNM |
| .L.....RNL..LGYT.GLSL.CMMFFL...ICKKFQIPCP.EVA..INET.NGTLTQP...AS...FNM | |
| Retrocopy | LLVSQMPRNLV*LGYTGGLSLVCMMFFLTALICKKFQIPCPLEVALTINETRNGTLTQPALSASGLSFNM |
| Parental | TGDDSCRPRYFIFNSQTVYAVPIPDLSFVC-PANPP-IYEELKR-SRKRMMNVSKIS-FFAMFLMYLLAA |
| T.DDSC.P.YFIFNSQ.VYAV.I...SFVC.PA..P.IYEELK..S..RMMNVSK.S..F..FLM.LLA. | |
| Retrocopy | TVDDSCKPCYFIFNSQNVYAVLILTFSFVCHPATIP<IYEELKGCSCRRMMNVSKMS<MFLLFLMHLLAV |
| Parental | LFGYLTFYKNVESELLHTYSTVLGTDILLLIVRLAVLMAVVLTVPVVIFPIRSSVTHL-LCSSKDFSWWR |
| .FGYLTF.K.VESELLHT.STVLG.D.LL.IVRLA.L.AV...VPV.IFP.R.S.THL..CS.KDFSWW. | |
| Retrocopy | FFGYLTFSKHVESELLHTCSTVLGADVLL-IVRLAMLVAVIQIVPVAIFPNRRSITHL<VCSLKDFSWWH |
| Parental | HSLITVSILAFTNLLVIFVPTIRDIFGFIGASAAAMLIFILPSAFYIKLVKKEPMKSIQKIGAMFFLFCG |
| HSLI.VSILAFT.LLVIF.PTI..IFGF.GASAAAMLIFILPSAF..KLVKKE.M.SIQKIGA.FFL..G | |
| Retrocopy | HSLIMVSILAFTDLLVIFIPTIGEIFGFVGASAAAMLIFILPSAFSVKLVKKETM*SIQKIGATFFLLGG |
| Parental | VVVMTGSMALIV-LDWVHNAPGGGH |
| .VV.T.SMALIV.LDWVHNAPGGGH | |
| Retrocopy | IVVVTRSMALIV<LDWVHNAPGGGH |
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_2111 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_2111 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 | ENSTBEG00000016388 | 1 retrocopy |
retro_tbel_2111 ,
|