RetrogeneDB ID: retro_tbel_4031

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_5569:7223..7785(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BLVRB
• Ensembl ID: ENSTBEG00000015357
• Aliases: None
• Description: biliverdin reductase B (flavin reductase (NADPH)) [Source:HGNC Symbol;Acc:1063]

Sequence

>retro_tbel_4031
ACCCTGGCGCAGGCGGTGCAAGCAGGTTATGAAGTGACGGTGCTGGTGCGGGACCCCTCTAGACTGCCGTCAGAGGGGCC
CCAGCCAGCCCTCGTGGTGGTGGGTGATGTCCGGAAGGCAGCTGACGTGGACAAGGCTGTGACTGGGCAGGATGCTGTCA
TCGTGCTGCTGGGCACCGGCAATGACCTCAGTCCCACAACAGTGATGTCCGAGGGTGCCCGGAACATTGTGGCAGCCATG
AAGGCCCATGGCGTGGACAAGGTCGTGGCCTGCACCTCGGCCTTCCTGCTATGGGACCCCACCAAGGTGCCCCCACGACT
GCAGGACGTGACAGATGACCACATTCGAATGCACAAGGTGTTGCAGGAGTCGGGCCTGAAGTAGGCGGTGATGCCACCGC
ACATAGGAGACCAGCAGCTAACCGGGGCCTACACAGTGACCCTGGATGGACGAGGGCCCTCCAGGGTCATCTCGAAACAT
GACCTGGGTCACTTCATGCTGTCGCTGCCTCACCACCGACGAGTATGACGGGCATAGAACCTACTCCTCCCACCAGTATG
AG

Alignment

ORF - retro_tbel_4031 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.06 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SLCSSLPPGYEVTVLVRDPSRLPSEGPQPAHVVVGDVRKAADVDKTVTGQDAVIVLLGTGNDLSPTTVMS
          .L......GYEVTVLVRDPSRLPSEGPQPA.VVVGDVRKAADVDK.VTGQDAVIVLLGTGNDLSPTTVMS
Retrocopy TLAQAVQAGYEVTVLVRDPSRLPSEGPQPALVVVGDVRKAADVDKAVTGQDAVIVLLGTGNDLSPTTVMS

Parental  EGARNIVAAMKAHGVDKVVACTSAFLLWDPAKVPPRLQDVTDDHIRMHKVLQESGLKYVAVMPPHIGDQP
          EGARNIVAAMKAHGVDKVVACTSAFLLWDP.KVPPRLQDVTDDHIRMHKVLQESGLK..AVMPPHIGDQ.
Retrocopy EGARNIVAAMKAHGVDKVVACTSAFLLWDPTKVPPRLQDVTDDHIRMHKVLQESGLK-*AVMPPHIGDQQ

Parental  LTGAYTVTLDGRGPSRVISKHDLGHFML-RCLTTDEYDGHRTYPSHQYE
          LTGAYTVTLDGRGPSRVISKHDLGHFML.RCLTTDEYDGHRTY.SHQYE
Retrocopy LTGAYTVTLDGRGPSRVISKHDLGHFML>RCLTTDEYDGHRTYSSHQYE

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_4031 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4031 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010508	2 retrocopies	retro_btau_289, retro_btau_718,
Rattus norvegicus	ENSRNOG00000024410	1 retrocopy	retro_rnor_1341,
Ictidomys tridecemlineatus	ENSSTOG00000002958	1 retrocopy	retro_itri_1079,
Tupaia belangeri	ENSTBEG00000015357	2 retrocopies	retro_tbel_2799, retro_tbel_4031 ,