RetrogeneDB ID: retro_tbel_2432

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_110615:10622..11018(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000005834
• Aliases: None
• Description: None

Sequence

>retro_tbel_2432
CCCAAACAGCTTCCCCACAAGGGGCAGCACCTTTCCTACAGCGGCTTCAGGAGTGGGTTGGTGGGGTGGGAGAGGGTGGT
AGGCAACCTGCTGCTGTCAAATCTGGATTTTGGAGTGTCAGACGCTAATATCCAGGAGCTCTTTGGGGAATTTGGAACGC
TGAAGACGGCCGCCTTGCACTACAACCCTTCTGGCCACAGCTTGGGGACAGCAGATGTGCACTTTGATGCCCTGAAGGCC
ATGAAACAGTACAACGGGGTCCCTCTGGACGGCCGCCCCATGAGCATCCAGCTCGTCACGTCACAGATCGACACACAGCG
GAGGTCTGTGCAAAGTGTGAACAGAGGCGGCGTGACCGGAACCCCAGGCTCTGGCGGCTGCGAGGGCGGGGCCGGG

Alignment

ORF - retro_tbel_2432 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.79 %
• Parental protein coverage: 75.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PKQLPDKWQHDLFDSGFGGGAGVE-TGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGT
          PKQLP.K.QH........G..G.E...G.LL.SNLDFGVSDA.IQELF.EFGTLK.AA.HY..SG.SLGT
Retrocopy PKQLPHKGQHLSYSGFRSGLVGWERVVGNLLLSNLDFGVSDANIQELFGEFGTLKTAALHYNPSGHSLGT

Parental  ADVHFERKADALKAMKQYNGVPLDGRPMNIQLVTSQIDTQRRPVQSVNRGGMTRTRGSGGFGGGGG
          ADVHF....DALKAMKQYNGVPLDGRPM.IQLVTSQIDTQRR.VQSVNRGG.T.T.GSGG..GG.G
Retrocopy ADVHF----DALKAMKQYNGVPLDGRPMSIQLVTSQIDTQRRSVQSVNRGGVTGTPGSGGCEGGAG

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_2432 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2432 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005877	1 retrocopy	retro_cfam_1395,
Gorilla gorilla	ENSGGOG00000013935	1 retrocopy	retro_ggor_2523,
Macaca mulatta	ENSMMUG00000012884	1 retrocopy	retro_mmul_1679,
Mus musculus	ENSMUSG00000025134	1 retrocopy	retro_mmus_286,
Sarcophilus harrisii	ENSSHAG00000010459	1 retrocopy	retro_shar_332,
Tupaia belangeri	ENSTBEG00000005834	7 retrocopies	retro_tbel_237, retro_tbel_2432 , retro_tbel_251, retro_tbel_2690, retro_tbel_2918, retro_tbel_3933, retro_tbel_3934,