RetrogeneDB ID: retro_tsyr_1471

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_45562:10982..11720(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MARK2
• Ensembl ID: ENSTSYG00000000032
• Aliases: None
• Description: MAP/microtubule affinity-regulating kinase 2 [Source:HGNC Symbol;Acc:3332]

Sequence

>retro_tsyr_1471
AGAATAATGATGATTTTACATCATCCCAACATAGTGCAGCTCTTTGAAGTTATTGAAACTGAGAAAGCACTATACCTGAC
AATGGAGCATGCAAGTGGTGCTGAAGTATTTGACTATTTGGTGTGCATGGAAGGATGAAAGAAAAGGAAGCAAGATCTAA
ATTTAGACAGATTGTGACTGAAGTCCAATATTGTCACCAAAAATGGATCATTCAGAGAGACCTCAAGGCTGAAAATCTAT
TATCAGATACCAACATGGATATTAAAATAGAAGACTTCAGTGTTAGCAATGAATTTACTGTTGGCAGTAAACTTGATGCA
TTTTGTGGCAGTCCTCTGGCAGCCCTGGAGCTCTTCCAGGGCAAGAAATATGACAGGCTGGAGGTCGATGTATGGAATCT
TGGTGTTATTTTGCTCATGTTCATCAGTAGCTTGCTCCCTTTTGATGCACAAAACTTGAAGGAGCTAAGGGAGAGAGTAT
TAAAAGGGAAATACAGAATTCCTTTCTGTATGTCTACAGACTGTGAAAACCTTCTCAAATGTTTCCTGGTGTTAAATCCA
ATTACAGGAGGCACTCTAGAAAAAATCATGAAGGACAAATGGATCCATGCAGGGCATGAGGAAGAGAAACATGAACTTAA
AACATTTGTTGAACAAGAACTAGACATTTCAGACCAGAAAAAAAAATAGATATTATTGTGGAAATGGGATATGCACAGAA
GAAATTCAAGAATCTCTT

Alignment

ORF - retro_tsyr_1471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.08 %
• Parental protein coverage: 58.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RIMKVLNHPNIVKLFEVIETEKTLYLVMEYASGGEVFDYLVA-HGRMKEKEARAKFRQIVSAVQYCHQKF
          RIM..L.HPNIV.LFEVIETEK.LYL.ME.ASG.EVFDYLV..HGRMKEKEAR.KFRQIV..VQYCHQK.
Retrocopy RIMMILHHPNIVQLFEVIETEKALYLTMEHASGAEVFDYLVC<HGRMKEKEARSKFRQIVTEVQYCHQKW

Parental  IVHRDLKAENLLLDADMNIKIADFGFSNEFTFGNKLDTFCGSPPYAAPELFQGKKYDGPEVDVWSLGVIL
          I..RDLKAENLL.D..M.IKI.DF..SNEFT.G.KLD.FCGSP..AA.ELFQGKKYD..EVDVW.LGVIL
Retrocopy IIQRDLKAENLLSDTNMDIKIEDFSVSNEFTVGSKLDAFCGSP-LAALELFQGKKYDRLEVDVWNLGVIL

Parental  YTLVSGSLPFDGQNLKELRERVLRGKYRIPFYMSTDCENLLKKFLILNPSKRGTLEQIMKDRWMNVGHED
          ....S..LPFD.QNLKELRERVL.GKYRIPF.MSTDCENLLK.FL.LNP...GTLE.IMKD.W...GHE.
Retrocopy LMFISSLLPFDAQNLKELRERVLKGKYRIPFCMSTDCENLLKCFLVLNPITGGTLEKIMKDKWIHAGHEE

Parental  D--ELKPYVEPLPDYKDPRRTELMV-SMGYTREEIQDSL
          ...ELK..VE...D..D...........G...EEIQ.SL
Retrocopy EKHELKTFVEQELDISDQXXX*ILL>GNGICTEEIQESL

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_1471 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 2 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000002037	8 retrocopies	retro_dnov_1284, retro_dnov_1619, retro_dnov_1691, retro_dnov_2056, retro_dnov_2323, retro_dnov_2353, retro_dnov_341, retro_dnov_738,
Tarsius syrichta	ENSTSYG00000000032	3 retrocopies	retro_tsyr_1085, retro_tsyr_1471 , retro_tsyr_1882,