RetrogeneDB ID: retro_tbel_3219

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_134109:16761..17137(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL51
• Ensembl ID: ENSTBEG00000000936
• Aliases: None
• Description: mitochondrial ribosomal protein L51 [Source:HGNC Symbol;Acc:14044]

Sequence

>retro_tbel_3219
ATGGCAGGAAGCCTCTCTGGGGCGGTAACTAGGAGCCTGTGGGGCTGTGTGCCTGCTGCCTGCAGAAGCTTCCGCCTCAG
TGTTCCCAGACTGACCCGAGTAAGGCTCTCTGTCTGCCGCACTAAGTGGTTGATCGTGGGAATGAGAAGAGGGCTGTGTT
CAGTGAATATGGCGTTATCAGGATCCTAGGAAATTTTGAAAAGCCTGGAAAAGAACTGATCAAAGGTCCCACATGGCTTG
GAGGCTGGAAAGGGAATGAATTGCAGCTTTGTATCCAGAAGAAGAAAATGGATGGAGATCAATGTTCTTTGATGACCTGT
ACAACCTGAACAAACCTATCAGTTATACTTTACACTTTCAACGACATGGGAAGTAT

Alignment

ORF - retro_tbel_3219 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.87 %
• Parental protein coverage: 99.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAGSLSWGVGRSLWGCVPLACRSFSLGVPGLTRVRLTVPPPK-VVDRWNEKRAMFGVYDNIGILGNFEKH
          MAGSLS..V.RSLWGCVP.ACRSF.L.VP.LTRVRL.V...K.VVDR.NEKRA.F..Y..I.ILGNFEK.
Retrocopy MAGSLSGAVTRSLWGCVPAACRSFRLSVPRLTRVRLSVCRTK<VVDRGNEKRAVFSEYGVIRILGNFEKP

Parental  PKELIKGPRWLRGWKGNELQRCIRKKKMVGDR-MFSDDLHNLNKRISYLYKHFNRHGKY
          .KELIKGP.WL.GWKGNELQ.CI.KKKM.GD..MF.DDL.NLNK.ISY...HF.RHGKY
Retrocopy GKELIKGPTWLGGWKGNELQLCIQKKKMDGDQ<MFFDDLYNLNKPISYTL-HFQRHGKY

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_3219 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3219 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014729	1 retrocopy	retro_btau_1609,
Callithrix jacchus	ENSCJAG00000018232	1 retrocopy	retro_cjac_548,
Cavia porcellus	ENSCPOG00000008478	1 retrocopy	retro_cpor_1082,
Loxodonta africana	ENSLAFG00000002106	2 retrocopies	retro_lafr_1157, retro_lafr_845,
Mus musculus	ENSMUSG00000030335	2 retrocopies	retro_mmus_1967, retro_mmus_2607,
Pteropus vampyrus	ENSPVAG00000012566	1 retrocopy	retro_pvam_534,
Rattus norvegicus	ENSRNOG00000019165	2 retrocopies	retro_rnor_2582, retro_rnor_926,
Tupaia belangeri	ENSTBEG00000000936	2 retrocopies	retro_tbel_3219 , retro_tbel_3408,