RetrogeneDB ID: retro_tbel_4249

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_7324:26963..27992(-)
• 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_4249
CAAGATGCTGAATTATCAGGGACACTTTCACTTGTTTTGACGCAGTGCTGTAAAAGAATAAAGGATACTGTTCAGAAATT
GGCCTCAGACCACAAAGACATCCACAGCAGTGTTTCTCGGGTTGGAAAAGCCATTGATAAGAATTTCGATTCTGACATCA
GCAGTGTTGGCAGAGATGGCTGCTGGCAGGCAGACAGCCAAAGGCTTCTCAAGGAGGTGATGGTGGAGCACGTCTTTCGA
CAAGGAATGCTGGATGTAGCCGAGGAGCTCTGCCAGGAATCTGGCCTTTCTGTAGACCCAAGTCAGAAAGAACCATTTGT
GGAGTTAAATCGAATATTAGAAGCATTAAAAGTAAGAGTTCTGAGACCTGCTCTGGAGTGGGCAGTATCAAACCGAGAAA
TGCTTATAGCCCAAAACAGTTCCCTGGAATTTAAGCTTCACAGACTGTATTTTATTAGCTTATTAATGGGTGGAACTACA
AATCAGTGAGAGGCATTACAATATGCTAAACATTTCCAGCCATTTGCCCTAAATCATCAAAAAGACATTCAGGTTTTCAT
GGGAAGCCTTGTGTACCTAAGACAAGGGATTGAGAACTCACCGTATGTTCACCTACTTGATGCAAACCAGTGGGCTGACA
TCTGTGACATCTTTACATGAGATGCCTGTGCCCTCCTGGGGCTCTCTGTGGAGTCTCCTCTCAGTGTCAGTTTCTCAGCA
GGTTGTATGGCGCTGCCAGCTCTAATTAACATCAAAGCTGTGATTGAACAGAGACAGTGCACTGGAGTCTGGAACCAGAA
AGATGAATGGCCTATTGAAGTGGACCTTGGTAAAAAGTGCTGGTATCACTCCATATTTGCCTGTCCTATTCTTCGTCAGC
AAACCACAGATAACAGCCCTCCCATGAAATTGGTCTGTGGTCATATTATATCAAGAGATGCCCTGAATAAAGTGTTCAAT
GGCAGCAAATTAAAATGTCCGTATTGTCCAATGGAGCAAAGTCCAGGAGATGCCAAACAGATATTTTTC

Alignment

ORF - retro_tbel_4249 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.79 %
• Parental protein coverage: 91.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QDAELSGTLSLVLTQCCKRIKDTVQKLASDHKDIHSSVSRVGKAIDKNFDSDISSVGIDGCWQADSQRLL
          QDAELSGTLSLVLTQCCKRIKDTVQKLASDHKDIHSSVSRVGKAIDKNFDSDISSVG.DGCWQADSQRLL
Retrocopy QDAELSGTLSLVLTQCCKRIKDTVQKLASDHKDIHSSVSRVGKAIDKNFDSDISSVGRDGCWQADSQRLL

Parental  NEVMVEHFFRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEALKVRVLRPALEWAVSNREMLIAQNS
          .EVMVEH.FRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEALKVRVLRPALEWAVSNREMLIAQNS
Retrocopy KEVMVEHVFRQGMLDVAEELCQESGLSVDPSQKEPFVELNRILEALKVRVLRPALEWAVSNREMLIAQNS

Parental  SLEFKLHRLYFISLLMGGTTNQREALQYAKNFQPFALNHQKDIQVLMGSLVYLRQGIENSPYVHLLDANQ
          SLEFKLHRLYFISLLMGGTTNQ.EALQYAK.FQPFALNHQKDIQV.MGSLVYLRQGIENSPYVHLLDANQ
Retrocopy SLEFKLHRLYFISLLMGGTTNQ*EALQYAKHFQPFALNHQKDIQVFMGSLVYLRQGIENSPYVHLLDANQ

Parental  WADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQKDELPIEVDLGKKC
          WADICDIFT.DACALLGLSVESPLSVSFSAGC.ALPALINIKAVIEQRQCTGVWNQKDE.PIEVDLGKKC
Retrocopy WADICDIFT*DACALLGLSVESPLSVSFSAGCMALPALINIKAVIEQRQCTGVWNQKDEWPIEVDLGKKC

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_4249 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4249 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,