RetrogeneDB ID: retro_tbel_1442

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4730:278604..278985(+)
• Located in intron of: ENSTBEG00000004113

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF5A2
• Ensembl ID: ENSTBEG00000000408
• Aliases: None
• Description: eukaryotic translation initiation factor 5A2 [Source:HGNC Symbol;Acc:3301]

Sequence

>retro_tbel_1442
AAAAGCGGCTTTGTGGTGCTGAAAGGATGACGGTACATAATAGTGGAGAAGTTAACTTCCACAACTGGAAAGCATGGCCA
TGCCAAGGTCCCCCTTGTTGGGATTGATATTTTCACTGGCAAAAAGTATGAAGATATTTGCCCTTCTACTCACAACATGG
ATGTTCCAAATATTAAGAGAAGTGATTATCAGCTGATATGCATTCAGGATGGTTCCCTTTCTCTGCTGACAGAAACTGGT
GAAGCTCGTGAGGATCTTAAGCTACCAGAGGGTGAACTGGACAAAGAAATTGAAGGAAAATACAATGCAGGTGAAGATAT
ACAGGTGTCTGTCATGTGTGCAATGAGTGAAGAATATGCTATAGCCATAAAGCCCTGCAAA

Alignment

ORF - retro_tbel_1442 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.04 %
• Parental protein coverage: 82.47 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KNGFVVLKGRPCKIVEMSTSKTGKHGHAKVHLVGIDIFTGKKYEDICPSTHNMDVPNIKRNDYQLICIQD
          K.GFVVLKG....IVE..TS.TGKHGHAKV.LVGIDIFTGKKYEDICPSTHNMDVPNIKR.DYQLICIQD
Retrocopy KSGFVVLKG*RYIIVEKLTSTTGKHGHAKVPLVGIDIFTGKKYEDICPSTHNMDVPNIKRSDYQLICIQD

Parental  GYLSLLTETGEVREDLKLPEGELGKEIEGKYNAGEDVQVSVLCAMSEEHAVAVEPCK
          G.LSLLTETGE.REDLKLPEGEL.KEIEGKYNAGED.QVSV.CAMSEE.A.A..PCK
Retrocopy GSLSLLTETGEAREDLKLPEGELDKEIEGKYNAGEDIQVSVMCAMSEEYAIAIKPCK

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_1442 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1442 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005363	1 retrocopy	retro_chof_1016,
Cavia porcellus	ENSCPOG00000012594	1 retrocopy	retro_cpor_1060,
Dasypus novemcinctus	ENSDNOG00000014801	2 retrocopies	retro_dnov_1133, retro_dnov_268,
Homo sapiens	ENSG00000163577	1 retrocopy	retro_hsap_1591,
Macropus eugenii	ENSMEUG00000007473	2 retrocopies	retro_meug_1619, retro_meug_641,
Oryctolagus cuniculus	ENSOCUG00000016657	1 retrocopy	retro_ocun_65,
Pan troglodytes	ENSPTRG00000015621	1 retrocopy	retro_ptro_1070,
Ictidomys tridecemlineatus	ENSSTOG00000008130	2 retrocopies	retro_itri_1400, retro_itri_689,
Tupaia belangeri	ENSTBEG00000000408	2 retrocopies	retro_tbel_1442 , retro_tbel_4419,