RetrogeneDB ID: retro_tsyr_261

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_6575:40845..41176(+)
• Located in intron of: ENSTSYG00000005198

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2V1
• Ensembl ID: ENSTSYG00000002511
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2 variant 1 [Source:HGNC Symbol;Acc:12494]

Sequence

>retro_tsyr_261
TATAAAATATATGATGTGGTGCAACAGCAACGCAAGATGACAGCCACCACGGGCTCAGGAGTAAAAGTCCCTTGCAATTT
CCGACTGTTGGAAGAACTCAAAGAAGGCCAGAAAGGAGAAGGAGATGGCACAGTTAGCTGGGGTCTAGAAGAGGATGAAG
ACATGACACTTACAAAATGGACAGAAATGACAACTGGGCCTCCAAGAACAAGTTATGGAAACCAAAATTATAGCCTTCAG
ACAGAATGTGGACCTAAATACCCAGAAGCACCCGCTTTGTAAGATTTGTAACAAAATTAATATAAGTGGAGCTAACAGTT
TTAATGCAGTG

Alignment

ORF - retro_tsyr_261 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.26 %
• Parental protein coverage: 55.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HRIHQVSPHKTYFCITTG--VKVPRNFRLLEELEEGQKGVGDGTVSWGLEDDEDMTLTRWTGMIIGPPRT
          ..I..V.........TTG..VKVP.NFRLLEEL.EGQKG.GDGTVSWGLE.DEDMTLT.WT.M..GPPRT
Retrocopy YKIYDVVQQQRKMTATTGSGVKVPCNFRLLEELKEGQKGEGDGTVSWGLEEDEDMTLTKWTEMTTGPPRT

Parental  IYENRIYSLKIECGPKYPEAPP-FVRFVT-KINMNGVNSSNGV
          .Y.N..YSL..ECGPKYPEAP..FVRFVT.KIN..G.NS.N.V
Retrocopy SYGNQNYSLQTECGPKYPEAPA<FVRFVT<KINISGANSFNAV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_261 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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 7 parental genes, and 51 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000012228	6 retrocopies	retro_mmul_1722, retro_mmul_2382, retro_mmul_351, retro_mmul_436, retro_mmul_629, retro_mmul_907,
Oryctolagus cuniculus	ENSOCUG00000026172	4 retrocopies	retro_ocun_1450, retro_ocun_1481, retro_ocun_454, retro_ocun_539,
Otolemur garnettii	ENSOGAG00000025894	12 retrocopies	retro_ogar_1381, retro_ogar_1391, retro_ogar_153, retro_ogar_1637, retro_ogar_1929, retro_ogar_2027, retro_ogar_2478, retro_ogar_2984, retro_ogar_3172, retro_ogar_3338, retro_ogar_620, retro_ogar_80,
Pan troglodytes	ENSPTRG00000013615	1 retrocopy	retro_ptro_64,
Rattus norvegicus	ENSRNOG00000025580	21 retrocopies	retro_rnor_1014, retro_rnor_1032, retro_rnor_1291, retro_rnor_1609, retro_rnor_1649, retro_rnor_1650, retro_rnor_1651, retro_rnor_2055, retro_rnor_2282, retro_rnor_2406, retro_rnor_2407, retro_rnor_2412, retro_rnor_2488, retro_rnor_2489, retro_rnor_2490, retro_rnor_2534, retro_rnor_2535, retro_rnor_2905, retro_rnor_819, retro_rnor_881, retro_rnor_991,
Ictidomys tridecemlineatus	ENSSTOG00000014322	6 retrocopies	retro_itri_1001, retro_itri_1002, retro_itri_1134, retro_itri_1452, retro_itri_1600, retro_itri_992,
Tarsius syrichta	ENSTSYG00000002511	1 retrocopy	retro_tsyr_261 ,