RetrogeneDB ID: retro_tsyr_2150

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_96236:457..892(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL8B
• Ensembl ID: ENSTSYG00000001724
• Aliases: None
• Description: ADP-ribosylation factor-like 8B [Source:HGNC Symbol;Acc:25564]

Sequence

>retro_tsyr_2150
TCAGGTCAATTCAGTGAAGACGTGATACCCACCGTGGGCTTCAGCAGGAGGAAGGTAACTAAAGGTAACGTCACCATAAA
GATCTGGGGCCTAGGTGGACAACCTCGATTTCGGAGCACGTGGGAACGGTATTGCAGAAGAGTCAACGCTGTTGTTTACA
GGAGAGATGCTGCAGATCGTGAAAAGATAGAAGCTTCCCGAAATGAGCTACGTAATCTTCTCGATAAACCACAGTTACAA
GGAATTCCAGTGCTAGTTCTTGGAAACAAGAGAGATCGTCCTAATGCCTTGGATGAGAAACAGCTAATTGAGCAAATGAA
TCTGTCAGCTATTCAGGATAGAGAAATGTGCTGCCATTCAATTTCTTGCAGATAAAAGGATAATATAGATATCACACTTC
AGTGGCTTATTCAACATTCAAAATCTAGAAGAAGC

Alignment

ORF - retro_tsyr_2150 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80. %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SGQFSEDMIPTVGFNMRKVTKGNVTIKIWDIGGQPRFRSMWERYCRGVNAIVYMIDAADREKIEASRNEL
          SGQFSED.IPTVGF..RKVTKGNVTIKIW..GGQPRFRS.WERYCR.VNA.VY..DAADREKIEASRNEL
Retrocopy SGQFSEDVIPTVGFSRRKVTKGNVTIKIWGLGGQPRFRSTWERYCRRVNAVVYRRDAADREKIEASRNEL

Parental  HNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQDRXXXXXXXXXXXXXXXXITLQWLIQHS
          .NLLDKPQLQGIPVLVLGNKRD.PNALDEKQLIE.MNLSAIQDR................ITLQWLIQHS
Retrocopy RNLLDKPQLQGIPVLVLGNKRDRPNALDEKQLIEQMNLSAIQDREMCCHSISCR*KDNIDITLQWLIQHS

Parental  KSRRS
          KSRRS
Retrocopy KSRRS

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_2150 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 12 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007757	2 retrocopies	retro_chof_1196, retro_chof_2630,
Callithrix jacchus	ENSCJAG00000015842	2 retrocopies	retro_cjac_1120, retro_cjac_470,
Homo sapiens	ENSG00000134108	1 retrocopy	retro_hsap_361,
Gallus gallus	ENSGALG00000008314	1 retrocopy	retro_ggal_25,
Gorilla gorilla	ENSGGOG00000004952	1 retrocopy	retro_ggor_373,
Microcebus murinus	ENSMICG00000000244	2 retrocopies	retro_mmur_1220, retro_mmur_1239,
Mustela putorius furo	ENSMPUG00000017035	2 retrocopies	retro_mputfur_1390, retro_mputfur_541,
Oryctolagus cuniculus	ENSOCUG00000014090	2 retrocopies	retro_ocun_1942, retro_ocun_751,
Pongo abelii	ENSPPYG00000013694	1 retrocopy	retro_pabe_343,
Tarsius syrichta	ENSTSYG00000001724	1 retrocopy	retro_tsyr_2150 ,
Tarsius syrichta	ENSTSYG00000009748	1 retrocopy	retro_tsyr_2059,
Vicugna pacos	ENSVPAG00000012114	2 retrocopies	retro_vpac_495, retro_vpac_519,