RetrogeneDB ID: retro_tsyr_1119

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_31155:6563..7319(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANKRD1
• Ensembl ID: ENSTSYG00000000542
• Aliases: None
• Description: ankyrin repeat domain 1 (cardiac muscle) [Source:HGNC Symbol;Acc:15819]

Sequence

>retro_tsyr_1119
GAGGCAGAGCTCAAAAAGAAAAAACTAGAACAAAGACCAAAGCTTGAATCTTTAGAAGGTCTTGAAATCATCATTTAACT
GAAGAAAAGGAAAAAATACAGGAAAATAAAAGTTCCAGTGATGGGAAACGGAACCCCAAATGATCACAGAACCTGTGGAT
GTGCCTCAGTTTCTGAAGGCTGCCCCGGAGAATAAACTGCCAGTAGTAGAAAAATTCTTGTCAGACAAGAATGTTCCAGA
TGTTTGTGATGAATATAAATGGACAGCTCTTCATAGGGCATGCTTGGAAGGACACTTGGCAGTTGTGGAGAAGTTAATGG
AAGCTGGAGCCCAGATTGAATTCCGTGATATGCTTGAATCCACAGCCATCCACTGGGCAAGCCGTGGAGGAAACCTGGAT
GTTTTAAAATTGTTGCTGAACAAAGGAGCAAAATTAGCCCTCAAGATAAGTTGCTCAGCACAGCGCTGCACGTGGAGGTG
GGGACCAGCCACTGTGAGTGCACAGAGCATCTCATTGCCTGTGAGGCGGACCTCAACGCCAAGGACAGAGAGGGAGATAC
TCCCTTGCATGACACCGTGAGACTGAATCGTTACAAGATGATCTGACTTCTGATCATGTATGGCACGGACCTCAACATCA
AGAACTATGCTGGGAAGATTCCGATGGATCTGGTGCTGCACTGGCAGAACGGAACCAAAGCCATATTTGACAGCCTGCAA
GAGACCGCCTACAAAACCTCTCGCATAGCTACCTTC

Alignment

ORF - retro_tsyr_1119 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.68 %
• Parental protein coverage: 81.85 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EQQLKKKKLEQRSKLENLEDLEIIIQLKKRKKYRKTKVPVMKEPEPE-IITEPDVPQFLKAALENKLPV-
          E..LKKKKLEQR.KLE.LE.LEIII.LKKRKKYRK.KVPVM....P..I....DVPQFLKAA.ENKLPV.
Retrocopy EAELKKKKLEQRPKLESLEGLEIII*LKKRKKYRKIKVPVMGNGTPN>ITEPVDVPQFLKAAPENKLPVV

Parental  -SFLSDKNDPDVCDEYKRTALHRACLEGHLVIAEKLMEAGAQIEFRDMLESTAMHWTSHGENLDVLKLLL
          ..FLSDKN.PDVCDEYK.TALHRACLEGHL...EKLMEAGAQIEFRDMLESTA.HW.S.G.NLDVLKLLL
Retrocopy EKFLSDKNVPDVCDEYKWTALHRACLEGHLAVVEKLMEAGAQIEFRDMLESTAIHWASRGGNLDVLKLLL

Parental  NKGA-KISPD--LLSTALHVAVRTGHYECAEHLIACEADLNAKDREGDTPLHDAVRLNRYKMIRLLIMYG
          NKGA.KISP...LLSTALHV.V.T.H.EC.EHLIACEADLNAKDREGDTPLHD.VRLNRYKMI.LLIMYG
Retrocopy NKGA<KISPQDKLLSTALHVEVGTSHCECTEHLIACEADLNAKDREGDTPLHDTVRLNRYKMI*LLIMYG

Parental  ADLNIKNCAGKTPMDLVLHWQNGTKAIFDSLQETAYKTSRIATF
          .DLNIKN.AGK.PMDLVLHWQNGTKAIFDSLQETAYKTSRIATF
Retrocopy TDLNIKNYAGKIPMDLVLHWQNGTKAIFDSLQETAYKTSRIATF

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_1119 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000013966	1 retrocopy	retro_ogar_898,
Tarsius syrichta	ENSTSYG00000000542	1 retrocopy	retro_tsyr_1119 ,
Tarsius syrichta	ENSTSYG00000009920	13 retrocopies	retro_tsyr_1160, retro_tsyr_1674, retro_tsyr_1684, retro_tsyr_1741, retro_tsyr_1830, retro_tsyr_1968, retro_tsyr_1989, retro_tsyr_2010, retro_tsyr_2138, retro_tsyr_2151, retro_tsyr_2167, retro_tsyr_674, retro_tsyr_803,