RetrogeneDB ID: retro_tsyr_827

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_21087:6820..7445(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM49A
• Ensembl ID: ENSTSYG00000010693
• Aliases: None
• Description: family with sequence similarity 49, member A [Source:HGNC Symbol;Acc:25373]

Sequence

>retro_tsyr_827
GAAGATGCCCAGCCTACAGAGTCTGAGAAGGAAATTTATAATCAGGTGAATGTAGTATTAAAAGATGCAGAAGGCATCTT
GGAAGACTTGCAGTCATACCGAGGAGCTGGCCATGAAATACGAGAGGCAATCCAGCATCCTGCAGATGAGAAGCTGCAGG
AGAAGGCGTGGAGTGCAGTTGTACCACTAGTAGGTAAATTAAAGAAATTTTATGAATTTTCTCAGAGGTTAGAAGCAGCA
TTAAGTGGTCTTTTGGGAGCCTTGACAAGCACACCCTACTCTCCCACCCAGCACCTAGAGCGAGAGCAAGCTCTTGCTAA
ACAGTTTGCGGAAATTCTTCATTTCACACTCCGGTGTGATGAACTCAAGATGACAAATCCTGCCATACCGAATGATTTCA
GCTATTACAGAAGAACATTGAGTCGTAAGAGGATTAATAATGTACCAGCAGAAGGAGAAACATGTAGTAAATAACGAGTT
GGCGATCCGAATGTCTTTGTTTTATGCTGAGGCGACTCCAATGCTGAAAACCTTGATTGATGCCACCACGCAATTTGTAT
CCGAGAATAAAAATTTACCGATAGAAAATACGACCGACGGTTTAAGCACCATGGCTAGTGTATGC

Alignment

ORF - retro_tsyr_827 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.21 %
• Parental protein coverage: 64.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ENAQPTEGEREIWNQISAVLQDSESILADLQAYKGAGPEIRDAIQNPNDIHLQEKAWNAVCPLVVRLKRF
          E.AQPTE.E.EI.NQ...VL.D.E.IL.DLQ.Y.GAG.EIR.AIQ.P.D..LQEKAW.AV.PLV..LK.F
Retrocopy EDAQPTESEKEIYNQVNVVLKDAEGILEDLQSYRGAGHEIREAIQHPADEKLQEKAWSAVVPLVGKLKKF

Parental  YEFSIRLEKALQSLLESLTCPPYTPTQHLEREQALAKEFAEILHFTLRFDELKMRNPAIQNDFSYYRRTI
          YEFS.RLE.AL..LL..LT..PY.PTQHLEREQALAK.FAEILHFTLR.DELKM.NPAI.NDFSYYRRT.
Retrocopy YEFSQRLEAALSGLLGALTSTPYSPTQHLEREQALAKQFAEILHFTLRCDELKMTNPAIPNDFSYYRRTL

Parental  SRNRINNMHLDIE-NEVNNEMANRMSLFYAEATPMLKTLSNATMHFVSENKTLPIENTTDCLSTMTSVC
          SR.RINN.....E...VNNE.A.RMSLFYAEATPMLKTL..AT..FVSENK.LPIENTTD.LSTM.SVC
Retrocopy SRKRINNVPAEGE>HVVNNELAIRMSLFYAEATPMLKTLIDATTQFVSENKNLPIENTTDGLSTMASVC

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_827 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000012839	1 retrocopy	retro_cpor_68,
Microcebus murinus	ENSMICG00000013924	1 retrocopy	retro_mmur_898,
Tarsius syrichta	ENSTSYG00000010693	4 retrocopies	retro_tsyr_1129, retro_tsyr_1823, retro_tsyr_2111, retro_tsyr_827 ,