RetrogeneDB ID: | retro_tbel_2773 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | scaffold_118782:42591..43450(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LARP7 | ||
| Ensembl ID: | ENSTBEG00000009188 | ||
| Aliases: | None | ||
| Description: | La ribonucleoprotein domain family, member 7 [Source:HGNC Symbol;Acc:24912] |
Retrocopy-Parental alignment summary:
>retro_tbel_2773
CTTCTAGCATCTTTTAATAAGATGAAAAAACTGACTACTGATAGGAAGTTAATAGCCGGAGCACTGAAAAGGCCAGCTGT
TGTAGAGTTGGATTTAGGAGGCACCAGGATCAGGAGAAAGCAGCCTCTGGGTTAAAGACCCAAGGACGAAGATGAGCAAA
CCATGTATGTGGAATTACTTCCCAAAAATGTTAACCACAGCTAGATTGAAAGGGTGTTTGGGAAATGTGGCGATGTTGTT
TATATAAGGATACCACATTACAAGCCTACTGGAGATCCGAACAGATTTGCACTTGTGGAATTTGAAACAAAAGAACAAGC
ACCAAAAGCTACTGAGTTTTTCAACAACCCACCAGAGAAGCACCAGGAAAACCAGGTACATTTTCTAAGAGAATGAAAAA
TAAGCCCATTCCAGCCTCAAGAATAGCTGAGGAAAAGAAAAAGAAGAAAGGCCAAGTGAAGAAGGAAGACAGTGCCCACG
CTAAGGAGTTAAATATGTACACAAGCAACACAACATCTGTTAAACCAAAAGACCAGGGACCACATCTGAGGGCTCGAAAG
TGGAAACTGTTGAACCCCAAAAGCAACCCTCAAAGAAAAGGCAAAAATGAGAGAGACCTGAAGTATCCAGCTTTCCTGAT
GTCAGGACAGCAAAGAAGCAGCTCTGCAGATGCAAGAGGCCTTGCCCCATGGCCAAATGTAAAGAAAATGGCTCAGAGGG
ACACTAAAAATGAAGCTGCAGAGGCCTCCAAAGAAAACAGAGATTTAGATGTCTCTACCGAAGAGGAGAAGGATACTGGT
GATATCAAAGATGGATCTCTCTTAAAAACAAAGAGAAAGCACAGAAAAAGCATAGAGAC
ORF - retro_tbel_2773 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.71 % |
| Parental protein coverage: | 50.78 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | LLVSFNKMKKLTTDGKLIARALKSSAVVELDLEGTRIRRKQPLGERPKDEDERTVYVELLPKNVNHSWIE |
| LL.SFNKMKKLTTD.KLIA.ALK..AVVELDL.GTRIRRKQPLG.RPKDEDE.T.YVELLPKNVNHS.IE | |
| Retrocopy | LLASFNKMKKLTTDRKLIAGALKRPAVVELDLGGTRIRRKQPLG*RPKDEDEQTMYVELLPKNVNHS*IE |
| Parental | RVFGKCGNVVYISIPHYKSTGDPKGFAFVEFETKEQAAKAIEFLNNPPE-EAPRKPGIFPKTVKNKPIPA |
| RVFGKCG.VVYI.IPHYK.TGDP..FA.VEFETKEQA.KA.EF.NNPPE.EAP.KPG.F.K..KNKPIPA | |
| Retrocopy | RVFGKCGDVVYIRIPHYKPTGDPNRFALVEFETKEQAPKATEFFNNPPE<EAPGKPGTFSKRMKNKPIPA |
| Parental | LRVAEEKKKKKKKKGRVKKEDSAQAKEPSADSSSASA-CKTRRPRTTSEGSEVGTAEPQKQPSKKKKKRE |
| .R.AEE...KKKKKG.VKKEDSA.AKE.....S.....C.T.RP.TTSEGS.V.T.EPQKQPS...KKR. | |
| Retrocopy | SRIAEE---KKKKKGQVKKEDSAHAKELNMYTSNTTS<C*TKRPGTTSEGSKVETVEPQKQPS---KKRQ |
| Parental | RPEVSSL-PEARAAKRRRSSSADAVGLAPRPKAKKVAPKDTAREAAEVSKESRDVEVSTEEEKDPGDTKE |
| ..E.....P........RSSSADA.GLAP.P..KK.A..DT..EAAE.SKE.RD..VSTEEEKD.GD.K. | |
| Retrocopy | K*ERPEV>PAFLMSGQQRSSSADARGLAPWPNVKKMAQRDTKNEAAEASKENRDLDVSTEEEKDTGDIKD |
| Parental | GSLLKTKRKHK-KKHKE |
| GSLLKTKRKH..KKH.. | |
| Retrocopy | GSLLKTKRKHR<KKHRD |
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_2773 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_2773 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Otolemur garnettii | ENSOGAG00000001643 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000009188 | 1 retrocopy |
retro_tbel_2773 ,
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