RetrogeneDB ID: retro_tbel_551

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_2416:270176..271067(-)
• Located in intron of: ENSTBEG00000000959

Retrocopy information

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

Parental gene information

• Parental gene symbol: RMND5A
• Ensembl ID: ENSTBEG00000016987
• Aliases: None
• Description: required for meiotic nuclear division 5 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:25850]

Sequence

>retro_tbel_551
AAGAGTTTCGATTCTGACATCAGCAGTGTTGGCAGAGATGGCTGCTGGCAGGCAGACAGCCAAAGGCTTCTCAAGGAGGT
GATGGTGGAGCACGTCTTTCGACAAGGAATGCTGGATGTAGCCGAGGAGCTCTGCCAGGAATCTGGCCTTTCTGTAGACC
CAAGTCAGAAAGAACCATTTGTAGAGTTAAATCGAATATTAGAAGCATTAAAAGTAAGAGTTCTGAGACCTGCTCTGGAG
TGGGCAGTATCAAACCGAGAAATGCTTATAGCCCAAAACAGCTCCCTGGAATTTAAGCTTCACAGACTGTATTTTATTAG
CTTATTAATGGGTGGAACTACAAATCAGTGAGAGGCATTACAATATGCTAAACATTTCCAGCCATTTGCCCTAAATCATC
AAAAAGACATTCAGGTTTTGATGGGAAGCCTTGTGTACCTGAGACAAGGGATTGAGAACGCACCGTATGTTCACCTACTT
GATGCAAACCAGTGGGCTGACATCTGTGACATCTTTACACGAGATGCCTGTGCCCTCCTGGGGCTCTCTGTGGAGTCTCC
TCTCAGTGTCAGTTTCTCAGCAGGTTGTGTGGCGCTGCCAGCTCTAATTAACATCAAAGCTGTGATTGAACAGAGACAGT
GCACTGGAGTCTGGAACCAGAAAGATGAATGGCCTATTGAAGTGGACCTTGGTAAAAAGTGCTGGTATCACTCCATATTT
GCCTGTCCTATTCTTCGTCAGCAAACCACAGATAATAGCCCTCCCATGAAATTGGTCTGTGGTCATATTATATCAAGAGA
TGCCCTGAATAAAGTGTTCAATGGCAGCAAATTAAAATGTCCGTATTGTCCAATGGAACAAAGTCCAGGAGATGCCAAAC
AGATATTTTTC

Alignment

ORF - retro_tbel_551 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.63 %
• Parental protein coverage: 78.99 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KNFDSDISSVGIDGCWQADSQRLLNEVMVEHFFRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEAL
          K.FDSDISSVG.DGCWQADSQRLL.EVMVEH.FRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEAL
Retrocopy KSFDSDISSVGRDGCWQADSQRLLKEVMVEHVFRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEAL

Parental  KVRVLRPALEWAVSNREMLIAQNSSLEFKLHRLYFISLLMGGTTNQREALQYAKNFQPFALNHQKDIQVL
          KVRVLRPALEWAVSNREMLIAQNSSLEFKLHRLYFISLLMGGTTNQ.EALQYAK.FQPFALNHQKDIQVL
Retrocopy KVRVLRPALEWAVSNREMLIAQNSSLEFKLHRLYFISLLMGGTTNQ*EALQYAKHFQPFALNHQKDIQVL

Parental  MGSLVYLRQGIENSPYVHLLDANQWADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIE
          MGSLVYLRQGIEN.PYVHLLDANQWADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIE
Retrocopy MGSLVYLRQGIENAPYVHLLDANQWADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIE

Parental  QRQCTGVWNQKDELPIEVDLGKKCWYHSIFACPILRQQTTDNNPPMKLVCGHIISRDALNKMFNGSKLKC
          QRQCTGVWNQKDE.PIEVDLGKKCWYHSIFACPILRQQTTDN.PPMKLVCGHIISRDALNK.FNGSKLKC
Retrocopy QRQCTGVWNQKDEWPIEVDLGKKCWYHSIFACPILRQQTTDNSPPMKLVCGHIISRDALNKVFNGSKLKC

Parental  PYCPMEQSPGDAKQIFF
          PYCPMEQSPGDAKQIFF
Retrocopy PYCPMEQSPGDAKQIFF

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_551 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_551 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012571	2 retrocopies	retro_dnov_1868, retro_dnov_35,
Tupaia belangeri	ENSTBEG00000016987	3 retrocopies	retro_tbel_2562, retro_tbel_4249, retro_tbel_551 ,