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 symbol: LARP7
• Ensembl ID: ENSTBEG00000009188
• Aliases: None
• Description: La ribonucleoprotein domain family, member 7 [Source:HGNC Symbol;Acc:24912]

Sequence

>retro_tbel_2773
CTTCTAGCATCTTTTAATAAGATGAAAAAACTGACTACTGATAGGAAGTTAATAGCCGGAGCACTGAAAAGGCCAGCTGT
TGTAGAGTTGGATTTAGGAGGCACCAGGATCAGGAGAAAGCAGCCTCTGGGTTAAAGACCCAAGGACGAAGATGAGCAAA
CCATGTATGTGGAATTACTTCCCAAAAATGTTAACCACAGCTAGATTGAAAGGGTGTTTGGGAAATGTGGCGATGTTGTT
TATATAAGGATACCACATTACAAGCCTACTGGAGATCCGAACAGATTTGCACTTGTGGAATTTGAAACAAAAGAACAAGC
ACCAAAAGCTACTGAGTTTTTCAACAACCCACCAGAGAAGCACCAGGAAAACCAGGTACATTTTCTAAGAGAATGAAAAA
TAAGCCCATTCCAGCCTCAAGAATAGCTGAGGAAAAGAAAAAGAAGAAAGGCCAAGTGAAGAAGGAAGACAGTGCCCACG
CTAAGGAGTTAAATATGTACACAAGCAACACAACATCTGTTAAACCAAAAGACCAGGGACCACATCTGAGGGCTCGAAAG
TGGAAACTGTTGAACCCCAAAAGCAACCCTCAAAGAAAAGGCAAAAATGAGAGAGACCTGAAGTATCCAGCTTTCCTGAT
GTCAGGACAGCAAAGAAGCAGCTCTGCAGATGCAAGAGGCCTTGCCCCATGGCCAAATGTAAAGAAAATGGCTCAGAGGG
ACACTAAAAATGAAGCTGCAGAGGCCTCCAAAGAAAACAGAGATTTAGATGTCTCTACCGAAGAGGAGAAGGATACTGGT
GATATCAAAGATGGATCTCTCTTAAAAACAAAGAGAAAGCACAGAAAAAGCATAGAGAC

Alignment

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

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_2773 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2773 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000001643	1 retrocopy	retro_ogar_387,
Tupaia belangeri	ENSTBEG00000009188	1 retrocopy	retro_tbel_2773 ,