RetrogeneDB ID: retro_tsyr_657

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_1621:22692..23374(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TEAD1
• Ensembl ID: ENSTSYG00000001514
• Aliases: None
• Description: TEA domain family member 1 (SV40 transcriptional enhancer factor) [Source:HGNC Symbol;Acc:11714]

Sequence

>retro_tsyr_657
GCACCCCCAACACCCCCATGGCAGAGTCACGGTGTGGCCAGCTCCAAGTTTGGGTTGCTGGAGTTCTCTATCTTTCTAAT
GCAGCAGCAAGACCCAGTAAGATACAATCACCTGTTCGTGCACATTGGCCTGTCAAGTCCCCACAGCTACTGTGACCCCT
ACCTTGAAACCATGGACTTCCACTGGACCTTTGACAAATTTCCAGAGAAAAAGAATGGGATCAAAAAACTCTTTGCACTG
GAACACTCCAATGTCTTTTTTCTCTTGAAATTCCTGACAGAACTCAAGATCAATATCAACGATGAAGGAGCTTTTTCTAT
GGAATCTCCCACCAGTACCAGAGTCTTTAAACATGATAATCACCTGTTTCACCAAGGTCAGCTCTTCTGGCAAGCAGGTG
GTGGGGAAGATTAAGACAGAGTATGCTTGCTATGAGAATGGTCATTACTCAGACTGCATCCATCAGCCCCTGCTTTGTGA
GTGTATAATCATCTTCATCCACAAGCTAAATTAAGCACCTGCCCGAGAAGTACACAATGAACAAAAAGTACCAGAGAATC
TCACCATCCCACAGATGGTCACCGATGGAGACACACAGGAGACCTTGCTGTGCATTGTATATGTCTTTGAAGTATCAGTC
AGAGAGTACTAAGCGCAGCACCACATCTACTTGCTGGTGAAA

Alignment

ORF - retro_tsyr_657 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.25 %
• Parental protein coverage: 53.05 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  APSVPAWQGRSIGTTKLRLVEFSAFLEQQRDPDSYNKHLFVHIGHAN-HSYSDPLLESVDIRQIYDKFPE
          AP..P.WQ.......K..L.EFS.FL.QQ.DP..YN.HLFVHIG....HSY.DP.LE..D.....DKFPE
Retrocopy APPTPPWQSHGVASSKFGLLEFSIFLMQQQDPVRYN-HLFVHIGLSSPHSYCDPYLETMDFHWTFDKFPE

Parental  KKGGLKELFGKGPQNAFFLVKFWADLNCNIQDDAGA-FYGVTSQYES-SENMTVTCSTKVCSFGKQVVEK
          KK.G.K.LF.....N.FFL.KF...L..NI.D.....FYG...QY.S.S.NM..TC.TKV.S.GKQVV.K
Retrocopy KKNGIKKLFALEHSNVFFLLKFLTELKININDEGAF<FYGISHQYQS<SLNMIITCFTKVSSSGKQVVGK

Parental  VETEYARFENGRFVYRINRSPMCEYMINFIHKLKHLPEKYMMN--SVLENFTILLVVTNRDTQETLLCMA
          ..TEYA..ENG.....I.....CE..I.FIHKL...P.....N...V.EN.TI...VT..DTQETLLC..
Retrocopy IKTEYACYENGHYSDCIHQPLLCECIIIFIHKLN*APAREVHNEQKVPENLTIPQMVTDGDTQETLLCIV

Parental  CVFEVSNSEHGAQHHIYRLVK
          .VFEVS..E..AQHHIY.LVK
Retrocopy YVFEVSVREY*AQHHIYLLVK

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_657 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010263	1 retrocopy	retro_cjac_193,
Tupaia belangeri	ENSTBEG00000017462	1 retrocopy	retro_tbel_4523,
Tarsius syrichta	ENSTSYG00000001514	1 retrocopy	retro_tsyr_657 ,
Tursiops truncatus	ENSTTRG00000006621	1 retrocopy	retro_ttru_1096,