RetrogeneDB ID: retro_tsyr_1538

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_48376:6765..7158(-)
• 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_1538
TCTCTTTTTGGCTTGTTTGTGAGCTTAGTTTTCTTGGGCCAGGTCTTCGCAATAATGCTCGTCTACGTGTGGAGCCGAAG
GAACCCATATGTCCGCATGAACTTCTTTGGCCTTCTCAACTTTCAGGCCCCCTTTCTGCCCTGGGTGCTCATGGGGTTTT
CCTTGTTGTTGGGGAACTCAATCATTGTGGACCTCTTGGGTATTGCAAGAGGACACGTATATTTTTTCTTGGAAGATGTA
TTTCCCAATCAGCCTGGTGGAATAAGAATTCTGAAAACACCATCTATTTTGAAAGCTATTTTTGATACACCAGATGAGGA
TCCAAATTACAATCCACTACCTGAAGAGCGGCCAGGAGGCTTCGCCTGGGGTGAGGGCCAGCCCCTTGGAGGT

Alignment

ORF - retro_tsyr_1538 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.42 %
• Parental protein coverage: 54.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TLFGLFVSLVFLGQAFTIMLVYVWSRRNPYVRMNFFGLLNFQAPFLPWVLMGFSLLLGNSIIVDLLGIAV
          .LFGLFVSLVFLGQ.F.IMLVYVWSRRNPYVRMNFFGLLNFQAPFLPWVLMGFSLLLGNSIIVDLLGIA.
Retrocopy SLFGLFVSLVFLGQVFAIMLVYVWSRRNPYVRMNFFGLLNFQAPFLPWVLMGFSLLLGNSIIVDLLGIAR

Parental  GHIYFFLEDVFPNQPGGIRILKTPSILKAIFDTPDEDPNYNPLPEERPGGFAWGEGQRLGG
          GH.YFFLEDVFPNQPGGIRILKTPSILKAIFDTPDEDPNYNPLPEERPGGFAWGEGQ.LGG
Retrocopy GHVYFFLEDVFPNQPGGIRILKTPSILKAIFDTPDEDPNYNPLPEERPGGFAWGEGQPLGG

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_1538 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,