RetrogeneDB ID: retro_tbel_471

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_217:178975..180144(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000011602
• Aliases: None
• Description: None

Sequence

>retro_tbel_471
AACCTGCTGATCTTTGACTTGGGAGGTGGCACTTTTGATGTGTCCATCCTCATTACTGAGGAGAGCATCTTTGAGGTCAA
ATCTACATCTGGAGATACACACTTGGGTAGAGAAGACTTTGATAATTGCATGATCAACCATTTCATCACTGCGTTCAAGC
ACAAGCATAAGAAGGACATCAGCGAGAACAAGAGAGCGGTCCAGCACTTCCGTACTCTTGTGAACATGCTAAGCATACCC
TCTCCTCTAGAACCCAGGCCAGTATTGAGATCGATTCCCTCTGTGAAGGAATCGACTTCTATACCTCCATTACCTGTGCC
CAATTTGAAGAGTTGAACACAGACCTATTCCATGGCACCCTAGACCCTGTAGAGAAAGCCCTTTAGGACGCCAAACTAGA
CAAGTCACAGATCCATGACATTGTCCTGGTGGGTGGCTTTACTCATATCCCCAAGATTCAGAAGCTGCTACAAGACTTTG
TCAATGGAAAGGAACTGAATAAGAGCATCAACCATGATGAGGCTGTTGCTTATAGTGCAGCTGTCCAGGCAGCCATCTTA
TCAAGAGACAAGTCTGAAAATGTCCAAGATCTCTGCTCTTGGATGTCACGCCTCTCTCGCTTGGCATTAAAACTGCTGGT
GGAGTAATGATTGTCCTCATCAAACAATACCACCTTTCCTACCAAGCAGACACAGACCTTCACTGCCTACTCCAACAACC
AGCCCATGGTGCTCATTCAGGTTGATGAAGGTGAGCGTGCCATGACCAAGGATATCAACCTGCTGGGCAAGTTTGAACTC
ACAGGCACACCTCCTGTACCCTGTGGTGTTCTTCACATTGAAGTCACTTTCAATATCAATGCCAATGGCATCATGAATGT
CTCTGCTGTGGATAAGAGTACCAGAAAAGAGAACAAGATTGCTATCCCTAACGATAAGGGTTGTCTGAGCAAGGAGGACA
CTGAGCGCATGGTCCAGGAGGCTGAGAAGTACAAGGCTGAAGACGAGAAGCAGAGGGACAAGGTGTCTTCCAAGAATTCA
CTAGAGTCCTACACATTCAACATGAAAGCAACTATGGAAGATGAGAAACTTTAAGGCAAGATCAATGCTGAGGACAAACA
GAAGATTCTTGACTAATGTAATGAAATCAACTGGCTTGACAAGAACCAG

Alignment

ORF - retro_tbel_471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.53 %
• Parental protein coverage: 67.01 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  NVLIFDLGGGTFDVSILTIEDGIFEVKSTAGDTHLGGEDFDNRMVNHFIAEFKRKHKKDISENKRAVRRL
          N.LIFDLGGGTFDVSIL..E..IFEVKST.GDTHLG.EDFDN.M.NHFI..FK.KHKKDISENKRAV...
Retrocopy NLLIFDLGGGTFDVSILITEESIFEVKSTSGDTHLGREDFDNCMINHFITAFKHKHKKDISENKRAVQHF

Parental  RT-ACERAKRTLSSSTQASIEIDSLYEGIDFYTSITRARFEELNADLFRGTLDPVEKALRDAKLDKSQIH
          RT..CE.AK.TLSS.TQASIEIDSL.EGIDFYTSIT.A.FEELN.DLF.GTLDPVEKAL.DAKLDKSQIH
Retrocopy RT<SCEHAKHTLSSRTQASIEIDSLCEGIDFYTSITCAQFEELNTDLFHGTLDPVEKAL*DAKLDKSQIH

Parental  DIVLVGGSTRIPKIQKLLQDFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENVQDL-LLLDVTPLSL
          DIVLVGG.T.IPKIQKLLQDF.NGKELNKSIN.DEAVAY.AAVQAAILS.DKSENVQDL.LLLDVTPLSL
Retrocopy DIVLVGGFTHIPKIQKLLQDFVNGKELNKSINHDEAVAYSAAVQAAILSRDKSENVQDL<LLLDVTPLSL

Parental  GIETAGGVMTVLI-KRNTTIPTKQTQTFTTYSDNQPGVLIQVYEGERAMTKDNNLLGKFELTGIPPAPRG
          GI.TA.G.........NTT.PTKQTQTFT.YS.NQP.VLIQV.EGERAMTKD.NLLGKFELTG.PP.P.G
Retrocopy GIKTA-GGVMIVL>SNNTTFPTKQTQTFTAYSNNQPMVLIQVDEGERAMTKDINLLGKFELTGTPPVPCG

Parental  VPQIEVTFDIDANGILNVSAVDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDKVSSKN
          V..IEVTF.I.ANGI.NVSAVDKST.KENKI.I.NDKG.LSKED.ERMVQEAEKYKAEDEKQRDKVSSKN
Retrocopy VLHIEVTFNINANGIMNVSAVDKSTRKENKIAIPNDKGCLSKEDTERMVQEAEKYKAEDEKQRDKVSSKN

Parental  SLESYAFNMKATVEDEKLQGKINDEDKQKILDKCNEIINWLDKNQ
          SLESY.FNMKAT.EDEKL.GKIN.EDKQKILD.CNE.INWLDKNQ
Retrocopy SLESYTFNMKATMEDEKL*GKINAEDKQKILD*CNE-INWLDKNQ

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_471 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_471 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.

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000012704	1 retrocopy	retro_eeur_8,
Microcebus murinus	ENSMICG00000004702	1 retrocopy	retro_mmur_7,
Sorex araneus	ENSSARG00000000161	1 retrocopy	retro_sara_31,
Tupaia belangeri	ENSTBEG00000011602	8 retrocopies	retro_tbel_1764, retro_tbel_344, retro_tbel_3488, retro_tbel_3524, retro_tbel_4348, retro_tbel_4412, retro_tbel_4490, retro_tbel_471 ,