RetrogeneDB ID: retro_tbel_2562

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_112934:18929..19958(-)
• Located in intron of: None

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_2562
CAAGATGCTGAATTATCAGGGACACTTTCACTTGTTTTGACGCAGTGCTGTAAAAGAATAAAGGATACTGTTCAGAAATT
GGCCTCAGACCACAAAGACATCCACAGCAGTGTTTCTCGGGTTGGAAAAGCCATTGATAAGAATTTCGATTCTGACATCA
GCAGTGTTGGCAGAGATGGCTGCTGGCAGGCAGACAGCCAAAGGCTTCCCAAGGAGGTGATGGTGGAGCACGTCTTTCGA
CAAGGAATGCTGGATGTAGCCGAGGAGCTCTGCCAGGAATCTGGCCTTTCTGTAGACCCAAGTCAGAAAGAACCATTTGT
GGAGTTAAATCGAATATTAGAAGCATTAAAAGTAAGAGTTCTGAGACCTGCTCTGGAGTGGGCAGTATCAAACCGAGAAA
TGCTTATAGCCCAAAACAGCTCCCAGGAATTTAAGCTTCACAGACTGTATTTTATTAGCTTATTAATGGGTGGAACTACA
AATCAGTGAGAGGCATTACAATATGCTAAACATTTCCAGCCATTTGCCCTAAATCATCAAAAAGACATTCAGGTTTTGAT
GGGAAGCCTTGTGTACCTGAGACAAGGGATTGAGAACTCACCGTATGTTCACCTACTTGATGCAAACCAGTGGGCTGACA
TCTGTGACATCTTTACACGAGATGCCTGTGCCCTCCTGGGGCTCTCTGTGGAGTCTCCTCTCAGTGTCAGTTTCTCAGCA
GGTTGTGTGGCGCTGCCAGCTCTAATTAACATCAAAGCTGTGATTGAACAGAGACAGTGCACTGGAGTCTGGAACCAGAA
AGATGAATGGCCTATTGAAGTGGACCTTGGTAAAAAGTGCTGGTATCACTCCATATTTGCCTGTCCTATTCTTCGTCAGC
AAACCACAGATAACAGCCCTCCCATGAAATTGGTCTGTGGTCATATTATATCAAGAGATGCCCTGAATAAAGTGTTCAAT
GGCAGCAAATTAAAATGTCCGTATTGTCCAATGGAGCAAAGTCCAGGAGATGCCAAACAGATATTTTTC

Alignment

ORF - retro_tbel_2562 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.08 %
• Parental protein coverage: 91.22 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QDAELSGTLSLVLTQCCKRIKDTVQKLASDHKDIHSSVSRVGKAIDKNFDSDISSVGIDGCWQADSQRLL
          QDAELSGTLSLVLTQCCKRIKDTVQKLASDHKDIHSSVSRVGKAIDKNFDSDISSVG.DGCWQADSQRL.
Retrocopy QDAELSGTLSLVLTQCCKRIKDTVQKLASDHKDIHSSVSRVGKAIDKNFDSDISSVGRDGCWQADSQRLP

Parental  NEVMVEHFFRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEALKVRVLRPALEWAVSNREMLIAQNS
          .EVMVEH.FRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEALKVRVLRPALEWAVSNREMLIAQNS
Retrocopy KEVMVEHVFRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEALKVRVLRPALEWAVSNREMLIAQNS

Parental  SLEFKLHRLYFISLLMGGTTNQREALQYAKNFQPFALNHQKDIQVLMGSLVYLRQGIENSPYVHLLDANQ
          S.EFKLHRLYFISLLMGGTTNQ.EALQYAK.FQPFALNHQKDIQVLMGSLVYLRQGIENSPYVHLLDANQ
Retrocopy SQEFKLHRLYFISLLMGGTTNQ*EALQYAKHFQPFALNHQKDIQVLMGSLVYLRQGIENSPYVHLLDANQ

Parental  WADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQKDELPIEVDLGKKC
          WADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQKDE.PIEVDLGKKC
Retrocopy WADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQKDEWPIEVDLGKKC

Parental  WYHSIFACPILRQQTTDNNPPMKLVCGHIISRDALNKMFNGSKLKCPYCPMEQSPGDAKQIFF
          WYHSIFACPILRQQTTDN.PPMKLVCGHIISRDALNK.FNGSKLKCPYCPMEQSPGDAKQIFF
Retrocopy WYHSIFACPILRQQTTDNSPPMKLVCGHIISRDALNKVFNGSKLKCPYCPMEQSPGDAKQIFF

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_2562 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2562 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,