RetrogeneDB ID: | retro_tbel_4518 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | scaffold_87526:776..1667(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RARS2 | ||
| Ensembl ID: | ENSTBEG00000003580 | ||
| Aliases: | None | ||
| Description: | arginyl-tRNA synthetase 2, mitochondrial [Source:HGNC Symbol;Acc:21406] |
Retrocopy-Parental alignment summary:
>retro_tbel_4518
TCAATATCTGCAGTTCCAATTTCCAAAAAAGAAGAAGTAGCTGATATTCAGCTTTCCATGGATTCTTTATTGGAAAGCAA
CAATGACCATTCAAAACAAGCTATTCAAATTCAAGCCAAGAGACTGACAGAGAAGCTAAAATGTGATACAGTGGTCAGTG
AGATCAGCATTGGTCAAGGGAATGTAAATTTCAAAATAAACAGAGAACTATTAACAAAGACAGTGCTACAACAAGTAATT
GAAGATAGCTCAACATATGGATTAAAAAGTGAGCTTTTCTCTGGACTTCTGCAGAAGATTTTGGTTGGATTTAGTTCACC
TAATGTCACCAAAAAATTTCACATTGGACATTTGCACTCTTCCACCACAGGAAATTTTATAGCAAATCTCAAAGAAGCTT
TAGGGCATAAAGTAACAAGAATAAATTACCTTGGAGATTGGGGTATGGAGTTTGGTCTTCTGGGAACTGGATACCAGCTG
TTTGGCTATGAAGAAAAACTCTAGTCCAATCCTTTATAGCATCTCTTTGAAGTTTAGGTACAAGTTAATCAAGAAGCAGC
AGATGATAGAAGTGTAGCAAAATCAGCACACAAATTCTTCCAGCGACTGGAACTGCGTCATGTGCAAGCACTTTCATTAT
GGCAAAAATTTCAGGACTTGAGCATTGAAGAGTACATTTGGATATACAAGCGTATAGGGGAATACTTTGATGAATATTCA
GGAGAATCATTTTACTGTGAAAAATCTCAAGAAGTCTTAATGTTGCTGGACAGTAAAGGACTCCTACAGAAAACAATAAA
AGTAACTACTGTAGTGGATCTCTCTTGGAATGGTGACCACTCCTCAGTGTGTACTGTAATACAAAGTGATTGGCTTTCTC
TCTATGTAACC
ORF - retro_tbel_4518 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.21 % |
| Parental protein coverage: | 51.56 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SISAVPISKKEEVADFQLSVDSLLESSNDHSRQDIQVQAERLAEKLKCDTVVSEISTGQGTVNFKINREL |
| SISAVPISKKEEVAD.QLS.DSLLES.NDHS.Q.IQ.QA.RL.EKLKCDTVVSEIS.GQG.VNFKINREL | |
| Retrocopy | SISAVPISKKEEVADIQLSMDSLLESNNDHSKQAIQIQAKRLTEKLKCDTVVSEISIGQGNVNFKINREL |
| Parental | LTKTVLQQVIEDGSKYGLKSELFAGLPQKKIVVEFSSGMVRKDILVGHMRPSLIGNFIANLKEALGHQVT |
| LTKTVLQQVIED.S.YGLKSELF.GL.QK.I.V.FSS..V.K....GH...S..GNFIANLKEALGH.VT | |
| Retrocopy | LTKTVLQQVIEDSSTYGLKSELFSGLLQK-ILVGFSSPNVTKKFHIGHLHSSTTGNFIANLKEALGHKVT |
| Parental | RINYLGDWGMQFGLLGTGYQLFGYEEKLQSNPLQHLFEVYVQVNKEAADDKSVAKAAHEFFRQLELGDVQ |
| RINYLGDWGM.FGLLGTGYQLFGYEEKL.SNPL.HLFEV.VQVN.EAADD.SVAK.AH.FF..LEL..VQ | |
| Retrocopy | RINYLGDWGMEFGLLGTGYQLFGYEEKL*SNPL*HLFEV*VQVNQEAADDRSVAKSAHKFFQRLELRHVQ |
| Parental | ALSLWQKFRDLSIEEYIRIYKRIGVYFDEYSGESFYREKSQEVLKLLDSKGLLQKTIKGTAVVDLSGNGD |
| ALSLWQKF.DLSIEEYI.IYKRIG.YFDEYSGESFY.EKSQEVL.LLDSKGLLQKTIK.T.VVDLS.NGD | |
| Retrocopy | ALSLWQKFQDLSIEEYIWIYKRIGEYFDEYSGESFYCEKSQEVLMLLDSKGLLQKTIKVTTVVDLSWNGD |
| Parental | PSSVCTVMRSDGTSLYAT |
| .SSVCTV..SD..SLY.T | |
| Retrocopy | HSSVCTVIQSDWLSLYVT |
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_4518 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_4518 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 | ENSTBEG00000003580 | 1 retrocopy |
retro_tbel_4518 ,
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