RetrogeneDB ID: retro_tsyr_1717

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_555339:396..890(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRADC1
• Ensembl ID: ENSTSYG00000003210
• Aliases: None
• Description: protease-associated domain containing 1 [Source:HGNC Symbol;Acc:16047]

Sequence

>retro_tsyr_1717
TTTAGCATCCATGATTATCTGGACTTTCAGGTGCTGAGTCCTGGGGACCTCCGATTCATCCTCACTGCCACACCTGCCAA
GGACTTTGGTGGTATCTTTCACACAAGGTATGAGCAGATTCACCTTGTCCCCTCTGAACCTCTGGAAGCCTTCGGGGAAC
TCAGCAACTGTTTCTTCATCCAGGACTAGATTGCTATGGTGGAAAGGGAGGGGGGCTGCTCGTTTCTCTCCAAGACCCAG
GAGGTCCAGGAGTACGGTGTTGGGCAGTGATCATCTCTGACAACGTGGCCGACAATGACAGCTTTTACATGGACATGATC
CAGGACAGTACTCAGTGTACAGCTAACATCCTGCCCTCTTCCTGCTCGGCAGAGAGGCTACATGATCGCCACTCCCTGGA
ACAGCATGGGCTGCCATGGGCCATCATTTCCATCCCAGTCAATGTCACCAGCATCCCAACCTTTGAGCTGCTGCAACCAC
CCTGGACCTTCTGG

Alignment

ORF - retro_tsyr_1717 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.94 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  FRIHDYLYFQVLSPGDIRYIFTATPAKDFGGIFHTRYEQIHLVPAEPPEACGELSNGFFIQDQIALVER-
          F.IHDYL.FQVLSPGD.R.I.TATPAKDFGGIFHTRYEQIHLVP.EP.EA.GELSN.FFIQD.IA.VER.
Retrocopy FSIHDYLDFQVLSPGDLRFILTATPAKDFGGIFHTRYEQIHLVPSEPLEAFGELSNCFFIQD*IAMVERE

Parental  GGCSFLSKTRVVQEHGGR-AVIISDNAVDNDSFYVEMIQDSTQRTADI-PALFLLGRD-GYMI-RRSLEQ
          GGCSFLSKT..VQE.G...AVIISDN..DNDSFY..MIQDSTQ.TA.I.PALFLLGR..GYMI.R.SLEQ
Retrocopy GGCSFLSKTQEVQEYGVG<AVIISDNVADNDSFYMDMIQDSTQCTANI<PALFLLGRE<GYMI<RHSLEQ

Parental  HGLPWAIISIPVNVTSIPTFELLQPPWTFW
          HGLPWAIISIPVNVTSIPTFELLQPPWTFW
Retrocopy HGLPWAIISIPVNVTSIPTFELLQPPWTFW

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_1717 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000135617	1 retrocopy	retro_hsap_2633,
Gorilla gorilla	ENSGGOG00000007761	1 retrocopy	retro_ggor_1842,
Pan troglodytes	ENSPTRG00000012059	1 retrocopy	retro_ptro_1777,
Sorex araneus	ENSSARG00000003050	1 retrocopy	retro_sara_205,
Tarsius syrichta	ENSTSYG00000003210	1 retrocopy	retro_tsyr_1717 ,