RetrogeneDB ID: retro_tsyr_494

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_127758:1565..2017(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2R2
• Ensembl ID: ENSTSYG00000013265
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2R 2 [Source:HGNC Symbol;Acc:19907]

Sequence

>retro_tsyr_494
GCGCATATTAAATTTCCTATTGACTACCCCTATTCACCACCTACCTTCAGATTCTTGACCAAAATGTGGCACCTCAACAT
TTATGAGAATGGAGATGTATGCATTTCGATTCTTCATCCGCCTGTAGATGACCCACAGAGTGGAGAGCTGCCTCTGAAAG
GTGGAATCCTACTCAGAATGTGAGGACTATCCTGTTAAGTGTAATCTCACTGCTTAATGAGCCCAATGCCTTCTCCCCAG
CCAATGTGGATGCTTCAGTTATGTTCAGGAAATGGAGAGACAGTAAAGGAAAAGACAAAGAATTTGCTGAGATCATCAGG
AAACAGGTTTCGGCCACTAAGGCCGAAGCAGAAAAGGATGGAGTGAAGTTCCCCACGACCCTGGCGGAATACTGCATCAA
AACTAAAGTACCTTCCAATGACAACAGCTCAGATTTGCTTTGTGACGACTTG

Alignment

ORF - retro_tsyr_494 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.37 %
• Parental protein coverage: 84.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AHIKFPIDYPYSPPTFRFLTKMWHPNIYENGDVCISILHPPVDDPQSGELP-SERWNPTQNVRTILLSVI
          AHIKFPIDYPYSPPTFRFLTKMWH.NIYENGDVCISILHPPVDDPQSGELP.SERWNPTQNVRTILLSVI
Retrocopy AHIKFPIDYPYSPPTFRFLTKMWHLNIYENGDVCISILHPPVDDPQSGELP<SERWNPTQNVRTILLSVI

Parental  SLLNEPNAFSPANVDASVMFRKWRDSKGKDKECAEIIRKQVSATKAEAEKDGVKFPMTLAEYCIKTKVPS
          SLLNEPNAFSPANVDASVMFRKWRDSKGKDKE.AEIIRKQVSATKAEAEKDGVKFP.TLAEYCIKTKVPS
Retrocopy SLLNEPNAFSPANVDASVMFRKWRDSKGKDKEFAEIIRKQVSATKAEAEKDGVKFPTTLAEYCIKTKVPS

Parental  NDNSSDLLCDDL
          NDNSSDLLCDDL
Retrocopy NDNSSDLLCDDL

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_494 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.

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011574	1 retrocopy	retro_etel_1226,
Myotis lucifugus	ENSMLUG00000006793	1 retrocopy	retro_mluc_2175,
Oryctolagus cuniculus	ENSOCUG00000023588	3 retrocopies	retro_ocun_131, retro_ocun_1719, retro_ocun_1793,
Sorex araneus	ENSSARG00000005734	1 retrocopy	retro_sara_528,
Tarsius syrichta	ENSTSYG00000013265	7 retrocopies	retro_tsyr_1118, retro_tsyr_1526, retro_tsyr_1527, retro_tsyr_1819, retro_tsyr_432, retro_tsyr_494 , retro_tsyr_830,
Tursiops truncatus	ENSTTRG00000010587	1 retrocopy	retro_ttru_724,