RetrogeneDB ID: retro_tbel_2455

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_110932:45263..45648(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SIKE1
• Ensembl ID: ENSTBEG00000007772
• Aliases: None
• Description: suppressor of IKBKE 1 [Source:HGNC Symbol;Acc:26119]

Sequence

>retro_tbel_2455
ATGAACTGCACCATGGAGAAGATCCTGACAGATGCCAAGATGCTAGAGAGGCTACAGGAGTATGATGTGGTTGCAGAGTT
GCTGGTGGCACTGCACTGGTGGGCAGCAGCTATGCGGGAGGCGGGGTCAGTGCTTCTGGACCAGTGTCAAGAAGATGCAT
CTGATATGAAGGACACATCCAGATACAAACCTCACATTCTGCTATCCCAAGAAAACACAGATTTAGAAATTTGCAACAGG
AAAACAGAGAACTTGGGCCTTGGAGGAACACCAAGATGCCTTGGAACTTATCATGAGCGAGTACTGGAAAAAGATGTTAA
AGCTAATGGTTACTAAAAAAGCAGTGAATGCTGAACCAGTCTTGAAAGCTCATCAGTCTCACTCT

Alignment

ORF - retro_tbel_2455 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.34 %
• Parental protein coverage: 65.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSCTIEKILTDAKTLLERLREHDAAAESLVDQSAALHRRVAAMREAGTALPDQVRQRYQEDASDMKDMSK
          M.CT.EKILTDAK..LERL.E.D..AE.LV....ALH...AAMREAG..L.DQ.....QEDASDMKD.S.
Retrocopy MNCTMEKILTDAK-MLERLQEYDVVAELLV----ALHWWAAAMREAGSVLLDQC----QEDASDMKDTSR

Parental  YKPHILLSQENTQI-RDLQQENREL-WVSLEEHQDALELIMSKYRKQMLQLMVAKKAVDAEPVLKAHQSH
          YKPHILLSQENT...R.LQQENREL.W..LEEHQDALELIMS.Y.K.ML.LMV.KKAV.AEPVLKAHQSH
Retrocopy YKPHILLSQENTDL<RNLQQENREL<W-ALEEHQDALELIMSEYWKKMLKLMVTKKAVNAEPVLKAHQSH

Parental  S
          S
Retrocopy S

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_2455 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2455 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012958	1 retrocopy	retro_chof_48,
Echinops telfairi	ENSETEG00000007805	1 retrocopy	retro_etel_615,
Loxodonta africana	ENSLAFG00000010502	1 retrocopy	retro_lafr_565,
Microcebus murinus	ENSMICG00000015446	1 retrocopy	retro_mmur_738,
Otolemur garnettii	ENSOGAG00000005952	2 retrocopies	retro_ogar_1794, retro_ogar_2028,
Ictidomys tridecemlineatus	ENSSTOG00000001684	1 retrocopy	retro_itri_1447,
Tupaia belangeri	ENSTBEG00000007772	1 retrocopy	retro_tbel_2455 ,
Tupaia belangeri	ENSTBEG00000011581	2 retrocopies	retro_tbel_3732, retro_tbel_4608,