RetrogeneDB ID: retro_tbel_326

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1781:46263..46670(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL19
• Ensembl ID: ENSTBEG00000016470
• Aliases: None
• Description: mitochondrial ribosomal protein L19 [Source:HGNC Symbol;Acc:14052]

Sequence

>retro_tbel_326
CGGCAGTTCTTGAGTCCTGAGTTTATTCCTCCAAGGGGAAGAACAAATCCTCTGAAATTTCAACTAGAAAGAAAAGATAA
GTTAGAAAGGAGAAAAATACTCCATATTCTCGAGTTCTATGTTGGAAGCATACTTCACGTTACTATAGCCGACCCATATG
CCAGTGGAAAAATCAGCCAGTTTTGGGGGATTTGTATCCAGAGATCAGGAAAAGGACTTGGAGCCTCTTTTACTCTTAGG
AATACTATTGAAGGACAAGGTGTTGAGATTTGCTTTGAACTTTATAATCCTCGTATCCAGGAGATCAAAGTGGTCAAACT
AGAGAAACGGCTGGATGACGGCTTGCTTATCTACGAGATGCCCTCCCTGAATAGCGCACTTTGGATATGAGCATGAAGCC
AGTTGCT

Alignment

ORF - retro_tbel_326 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.05 %
• Parental protein coverage: 64.59 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RRFLSPEFIPPRGRTNPLKFQLERKDMLERRKILHIPEFYVG-ILRVTTADPYASGKISQFLGICIQRSG
          R.FLSPEFIPPRGRTNPLKFQLERKD.LERRKILHI.EFYVG.IL.VT.ADPYASGKISQF.GICIQRSG
Retrocopy RQFLSPEFIPPRGRTNPLKFQLERKDKLERRKILHILEFYVGSILHVTIADPYASGKISQFWGICIQRSG

Parental  KGLGATFTLRNTIEGQGVEICFELYNPRIQEIEVVKLEKRLDDSLL-YLRDALPEYSTFDMNMKPVA
          KGLGA.FTLRNTIEGQGVEICFELYNPRIQEI.VVKLEKRLDD.LL.YLRDALPE..T.DM.MKPVA
Retrocopy KGLGASFTLRNTIEGQGVEICFELYNPRIQEIKVVKLEKRLDDGLL<YLRDALPE*RTLDMSMKPVA

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_326 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_326 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000002266	1 retrocopy	retro_eeur_485,
Homo sapiens	ENSG00000115364	1 retrocopy	retro_hsap_2957,
Gorilla gorilla	ENSGGOG00000027896	1 retrocopy	retro_ggor_2048,
Loxodonta africana	ENSLAFG00000000146	1 retrocopy	retro_lafr_472,
Myotis lucifugus	ENSMLUG00000012774	1 retrocopy	retro_mluc_1308,
Pongo abelii	ENSPPYG00000012255	1 retrocopy	retro_pabe_2453,
Pan troglodytes	ENSPTRG00000012108	1 retrocopy	retro_ptro_2002,
Ictidomys tridecemlineatus	ENSSTOG00000002873	1 retrocopy	retro_itri_549,
Tupaia belangeri	ENSTBEG00000016470	1 retrocopy	retro_tbel_326 ,