RetrogeneDB ID: retro_tsyr_537

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_135543:1048..1525(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DERL2
• Ensembl ID: ENSTSYG00000000394
• Aliases: None
• Description: derlin 2 [Source:HGNC Symbol;Acc:17943]

Sequence

>retro_tsyr_537
TATCGTTACTGCTGAATGCTAGAAGGCTCTTTCCAAAGTTCGACAGCAGATTTTGTATTTATGATCCTTTTTGGTGGACT
CTTAATGACTCTTTTTGGTTTGCTTGTGAGCTCAATTTTCTTGGGCCAGGTCTTTATAATAATGCTCGCCCATGTGTGGT
GCCGAAGGAACCCATATGTCTGCATGCACTTCTTTGGCCTTCCCTTCCAGGGCCCCTTTCTGCCCTGGGTGCTCATGGGG
TTTTCCTTGTTGTTGGGGAACTCAATCATTGTGGACCTCTTGCGTATTCCAGTTAGACACATTTTTTTCTTGGAAGACGT
ATGTCCCAATCAGCCTGGTGGAACACTAAGAATTCTGAAAACATCATCTCTTTTGAAAGTTATTTTTGCTATACCAGATG
AGGATCCAAATTACAATCCACTACCTAAAGAGCAGTCAAGAGGCTTTGCCTGGGGTGAGGGCCAGCGCCCTGGAGGT

Alignment

ORF - retro_tsyr_537 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.78 %
• Parental protein coverage: 67.36 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YRYCRMLEEGSFRGRTADFVFMFLFGGLLMTLFGLFVSLVFLGQAFTIMLVYVWSRRNPYVRMNFFGLLN
          YRYC.MLE.GSF...TADFVFM.LFGGLLMTLFGL.VS..FLGQ.F.IML..VW.RRNPYV.M.FFGL..
Retrocopy YRYC*MLE-GSFQSSTADFVFMILFGGLLMTLFGLLVSSIFLGQVFIIMLAHVWCRRNPYVCMHFFGL-P

Parental  FQAPFLPWVLMGFSLLLGNSIIVDLLGIAVGHIYFFLEDVFPNQPGG-IRILKTPSILKAIFDTPDEDPN
          FQ.PFLPWVLMGFSLLLGNSIIVDLL.I.V.HI.FFLEDV.PNQPGG..RILKT.S.LK.IF..PDEDPN
Retrocopy FQGPFLPWVLMGFSLLLGNSIIVDLLRIPVRHI-FFLEDVCPNQPGGTLRILKTSSLLKVIFAIPDEDPN

Parental  YNPLPEERPGGFAWGEGQRLGG
          YNPLP.E...GFAWGEGQR.GG
Retrocopy YNPLPKEQSRGFAWGEGQRPGG

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_537 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 4 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011304	3 retrocopies	retro_cjac_1540, retro_cjac_3886, retro_cjac_3980,
Oryctolagus cuniculus	ENSOCUG00000004811	2 retrocopies	retro_ocun_1561, retro_ocun_1908,
Tupaia belangeri	ENSTBEG00000009213	1 retrocopy	retro_tbel_2788,
Tarsius syrichta	ENSTSYG00000000394	4 retrocopies	retro_tsyr_1148, retro_tsyr_1538, retro_tsyr_2049, retro_tsyr_537 ,