RetrogeneDB ID: retro_tbel_932

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_3342:340994..341537(-)
• Located in intron of: ENSTBEG00000012166

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_932
TTCGAGTCCTTCAATGTTCCAGGCTTGTACATTGCTGTGCTGGCTGTTCTTGCCTTAGCTGCATCCTGGACCTCACGGAT
GTTGACTGGTACGGTAATAGACAACGGAGATGGTGTCACTCATGTCATCCCTGTGGCTGAAGGACATGTGATTGGCAGCT
GTATTAAACACATTCCAATCACAGGACGAGACATAACATATTTTACTCAGCAACTATGAAGAGGCCGAGAAGTAGGAATC
CCTCCAGAACAATCTCTGGAAACTGCTAAAGCAGTAAAGGAGCGCTATAGCTATGTCCGCCCAGATTCAGTAAAAGAATT
TAATAAGTATGACACAGATGGGTCAAAGTGGATTAAACAGTGTACTGGAATTAATGCTATCTCAAAGAAAGAATTTTCCC
CTGATATTGGTTACGAGAGATTTTTGGGACCTGAAATCTTTTTCCATCCTGAGTTTGCTAATCCAGACTTTACACAACCT
ATCTCAGAAGTTGTAGATGAAGTAATTCAGAATTGTCCTATTGATGTCAGATGTCCTCTTTAT

Alignment

ORF - retro_tbel_932 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.88 %
• Parental protein coverage: 99.47 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGIVIDSGDGVTHVIPVAEGYVIGSCIKHIPIAGRDI
          FESFNVPGLYI...AVLA..A...S.....R.LTG.VID.GDGVTHVIPVAEG.VIGSCIKHIPI.GRDI
Retrocopy FESFNVPGLYI---AVLAVLALAASWT--SRMLTGTVIDNGDGVTHVIPVAEGHVIGSCIKHIPITGRDI

Parental  TYFIQQLLREREVGIPPEQSLETAKAIKEKYCYICPDIVKEFAKYDMDPRKWIKQYTGINAINQKKFIID
          TYF.QQL.R.REVGIPPEQSLETAKA.KE.Y.Y..PD.VKEF.KYD.D..KWIKQ.TGINAI..K.F..D
Retrocopy TYFTQQL*RGREVGIPPEQSLETAKAVKERYSYVRPDSVKEFNKYDTDGSKWIKQCTGINAISKKEFSPD

Parental  VGYERFLGPEIFFHPEFANPDFMESISDVVDEVIQNCPIDVRRPLY
          .GYERFLGPEIFFHPEFANPDF...IS.VVDEVIQNCPIDVR.PLY
Retrocopy IGYERFLGPEIFFHPEFANPDFTQPISEVVDEVIQNCPIDVRCPLY

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_932 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_932 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 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,