RetrogeneDB ID: retro_tbel_2820

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_120045:49587..49965(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000011647
• Aliases: None
• Description: None

Sequence

>retro_tbel_2820
GTCACTCACGTCGGACCTGTGGCTGAGGATATGCGATGGGCAGCTGTATTAAACACATTCCAGTCGCAGGAGGAGATTTA
ACATCCTTTATTCAGCAACTCCAAAGAGACAGGGAAGTTGGAATCCCTCCAGAATAGTCTCTGGGAACTGCTAAAGCAGT
GAAGAAGGGCTATAGTTATGTCTGCCCAGATTTATAGAAGAATCTAGTGAGTATGGCACAGACGGGCCAAGTGGATGAGA
TGGTATACTGGAATCAACGCTAGCTCAAAGAAAGAATTTTCCACTGACGTTGGTTATGAGAGATTTGGGGGACCTGAAAT
CTTTTTTCATCCTGAGTTTTCTAATCCAGACTTTACACGACCTATGTCAGAAGTTGTG

Alignment

ORF - retro_tbel_2820 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.38 %
• Parental protein coverage: 67.91 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VTHVIPVAE-GYVIGSCIKHIPIAGRDITYFIQQLLREREVGIPPEQSLETAKAIKEKYCYICPDI-VKE
          VTHV.PVAE.GY..GSCIKHIP.AG.D.T.FIQQL.R.REVGIPPE.SL.TAKA.K..Y.Y.CPD....E
Retrocopy VTHVGPVAE<GYAMGSCIKHIPVAGGDLTSFIQQLQRDREVGIPPE*SLGTAKAVKKGYSYVCPDL<IEE

Parental  FAKYDMD-PRKWIKQYTGINAINQKKFIIDVGYERFLGPEIFFHPEFANPDFMESISDVV
          ...Y..D...KW...YTGINA...K.F..DVGYERF.GPEIFFHPEF.NPDF....S.VV
Retrocopy SSEYGTD<RAKWMRWYTGINASSKKEFSTDVGYERFGGPEIFFHPEFSNPDFTRPMSEVV

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_2820 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2820 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 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007730	5 retrocopies	retro_chof_1134, retro_chof_1204, retro_chof_1899, retro_chof_208, retro_chof_2171,
Dasypus novemcinctus	ENSDNOG00000019288	2 retrocopies	retro_dnov_1143, retro_dnov_2539,
Homo sapiens	ENSG00000133627	7 retrocopies	retro_hsap_1676, retro_hsap_2126, retro_hsap_2540, retro_hsap_2966, retro_hsap_4334, retro_hsap_4921, retro_hsap_561,
Macropus eugenii	ENSMEUG00000004885	5 retrocopies	retro_meug_1340, retro_meug_1477, retro_meug_2105, retro_meug_330, retro_meug_899,
Tupaia belangeri	ENSTBEG00000011647	2 retrocopies	retro_tbel_2820 , retro_tbel_932,
Tursiops truncatus	ENSTTRG00000016334	2 retrocopies	retro_ttru_471, retro_ttru_93,