RetrogeneDB ID: retro_tbel_1821

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5828:167191..168108(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MNS1
• Ensembl ID: ENSTBEG00000004372
• Aliases: None
• Description: meiosis-specific nuclear structural 1 [Source:HGNC Symbol;Acc:29636]

Sequence

>retro_tbel_1821
GAAAACAGTAGCGAGCTCGTTGAATTGGAGAAGTTAAAAGCAGCTTACATGAACAAAGGAAGGGCAGCTCAGATTGCTGA
AAAAGATGCCATTAAATATGAGCAGATGAAACGTGATGCTGAAATCGCCAAAACCATGATGGAAGGGCAGGAGCGAGCAA
TAAGGAAGAGAGTGCCGCCGAAGACAGACGGAACGAAGTGAAGGCACAAAACTATTTTGACTTAGAGAAACACGTTGAAG
AGCAAGAGAGGAAAGAGCAGGAAGCTTATGAACAGTTGTTGAAAGAAAAACTCATGACTGATGAAATCGCTAGGAAAATC
TATGAAGAAGATCAACTAGAAAAACAACACAAATTAGAAAAAATGAATGCCACTCGAAGGTATATAGAGGAGTTTCAGAA
AGAGCGGGCTCTCTGGAGAAAGAAGAAACGTGAGGAGATGGAAGAAGAGAACAGAAGAATCATGGAATTTGCCCACCAGC
AGCAAAGAGGAGAAAATTGGATGGCAAAAATTCAAGAAAATGAAGAAAAAAGACGCCAGCTTCAGGATGCGCTGGCTCAG
AAATTGGAAGAAATGCTGCGGCAACGTGACGATCTGGAACAAGTACGGCAGGAATTATATAAGGAGGAACAAGCTGAGTT
ACACGCCAGAAAACTAAAAGAAGAAGCAGAAGAGAAATTGAGAAAGCAAAAAAAGATGAAGTAAGATTTTGAAGAACAAA
TGGCCTTGAAGGAACTAGTACTACAGGCTGCAAAAGAGGAAGAGGAGATCTTTAGGAAAACTATGCTAGCTAAACTTGCT
GAGGATGATCGAATAGAATTGATGAATGCTCAGAAACAAAGAATGAAGCAACTGGAACACAGGAGGGCTGTGGAAAAACT
TATTGAAGATCGCCACAACCAGTTCCTTGAAGACAAA

Alignment

ORF - retro_tbel_1821 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.76 %
• Parental protein coverage: 62.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ENSIELRELEKKLKAAYMNKERAAQIAEKDAIKYEQMKRDAEIAKTMMEEQERVI-KEESAAEDKRNKVK
          ENS.EL.ELEK.LKAAYMNK.RAAQIAEKDAIKYEQMKRDAEIAKTMME.QER.I.KEESAAED.RN.VK
Retrocopy ENSSELVELEK-LKAAYMNKGRAAQIAEKDAIKYEQMKRDAEIAKTMMEGQERAI<KEESAAEDRRNEVK

Parental  AQYYFDLEKQVEEQERKKQEAYEQLLKEKLMIDEIVRKIYEEDQLEKQHKLEKMNATRRYIEEFQKEQAL
          AQ.YFDLEK.VEEQERK.QEAYEQLLKEKLM.DEI.RKIYEEDQLEKQHKLEKMNATRRYIEEFQKE.AL
Retrocopy AQNYFDLEKHVEEQERKEQEAYEQLLKEKLMTDEIARKIYEEDQLEKQHKLEKMNATRRYIEEFQKERAL

Parental  WRKKKREEMEEENRKIIEFAHIQQQREENRMAKIQENEEKRRQLQDALAQKLEEILRQRDDLEQVRQELY
          WRKKKREEMEEENR.I.EFAH.QQQR.EN.MAKIQENEEKRRQLQDALAQKLEE.LRQRDDLEQVRQELY
Retrocopy WRKKKREEMEEENRRIMEFAH-QQQRGENWMAKIQENEEKRRQLQDALAQKLEEMLRQRDDLEQVRQELY

Parental  QEEQAELHARKLKEEAEEKLRKQKEMKQDFEEQMALKELVLQATKEEEEIFRKTMLAKLAEDDRIELMNA
          .EEQAELHA....................FEEQMALKELVLQA.KEEEEIFRKTMLAKLAEDDRIELMNA
Retrocopy KEEQAELHAXXXXXXXXXXXXXXXXXXXXFEEQMALKELVLQAAKEEEEIFRKTMLAKLAEDDRIELMNA

Parental  QKQRMKQLEHRRAVEKLIEDRRNQFLEDK
          QKQRMKQLEHRRAVEKLIEDR.NQFLEDK
Retrocopy QKQRMKQLEHRRAVEKLIEDRHNQFLEDK

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_1821 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1821 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016053	1 retrocopy	retro_cfam_1255,
Tupaia belangeri	ENSTBEG00000004372	3 retrocopies	retro_tbel_1821 , retro_tbel_2477, retro_tbel_2534,