RetrogeneDB ID: retro_tsyr_1085

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_300814:282..1134(-)
• 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_1085
AAATCCGCTGCAGCCTGGGCCAATCAGTCACATCACATTGGAATATAACTACCACTGAAAACAATCGGCAAGGGGAATTT
TGCCAAGGGTAAGCTGTCAAAGATGTCGTCACAGACAGTGAGGTTACCTTAAGAGAAATTAACAAAAGAAGGTTGGATCC
AGCAATTCCACAAAGGCTGTTCAGCAAGGTCAGAATAATGAAGCGTTTACACCACCCCAATACAGTTAACTTGGTTGAAG
CTATTGACACAGATAAAAACTCCATCTGATCATGGAATACGCAAGCAGAGGAGAGGTATTTGAATATATGTCTGTTCATG
GATGAATGGTAGAAGAACAAGCAAGACAGATATTTAGTCAGATCCTGTGAGCAATACAGTACTGTCATCAACAACATACT
GTCCACCAAGACCTCAAACTGGACAGCATGCTATTCAAAGCCAACATGAATATCAAGTTAGTCGACTTTGGTTTTGGAAA
TGAGTTCACTGCCTGGAAAAAACTAGTCACTTTTTATGGCAGCCTTTCCTACTCTGCCCCAGATCTCTTTCAGGGCAGAG
AATACAATGGGCCAGAGGTCAACTTGTGGAGCCTTGGAATCATTTTCTACTTGCTCCTCAGTGGCTCATTTCCTGTTGTC
AGACAAAGTGAGAAGGAGCACAAAAAGAAAATATTGTGAAGGAAATACAAAATCCCCTTTTACATATCAATAGATTGTGA
AAAACAATGAAACACTTCCTAGTTATAGATCCACTGAAATGAGGCACTCTCAAGGAAATCCTAAGGAACAATTGGGTCAA
TGCAGGGCATGAAGAAGATGAACTGAAACCATTTCTGGATCCAGAACAAGAC

Alignment

ORF - retro_tsyr_1085 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.04 %
• Parental protein coverage: 67.7 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  RNSATSADEQPHIGNYRLLKTIGKGNFAKVKLA-RHILTGKEXXXXXXXXXXXXXXXXXXLFREVRIMKV
          ...A..A....HIG....LKTIGKGNFAK.KL......T..E..................LF..VRIMK.
Retrocopy KSAAAWANQSHHIGI*LPLKTIGKGNFAKGKLS<KDVVTDSEVTLREINKRRLDPAIPQRLFSKVRIMKR

Parental  LNHPNIVKLFEVIETEKT-LYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCHQKFIVHRD
          L.HPN.V.L.E.I.T.K..L.L.MEYAS.GEVF.Y...HG.M.E..AR..F.QI..A.QYCHQ...VH.D
Retrocopy LHHPNTVNLVEAIDTDKN<LHLIMEYASRGEVFEYMSVHG*MVEEQARQIFSQIL*AIQYCHQQHTVHQD

Parental  LKAENLLLDADMNIKIADFGFSNEFTFGNKLDTFCGSPPYAAPELFQGKKYDGPEVDVWSLGVILYTLVS
          LK....L..A.MNIK..DFGF.NEFT...KL.TF.GS..Y.AP.LFQG..Y.GPEV..WSLG.I.Y.L.S
Retrocopy LKLDSMLFKANMNIKLVDFGFGNEFTAWKKLVTFYGSLSYSAPDLFQGREYNGPEVNLWSLGIIFYLLLS

Parental  GSLPFDGQNLKELRERVLRGKYRIPFYMSTDCE-NLLKKFLILNPSKRGTLEQIMKDRWMNVGHEDDELK
          GS.P...Q..KE.....L..KY.IPFY.S.DCE....K.FL...P.K.GTL..I....W.N.GHE.DELK
Retrocopy GSFPVVRQSEKEHKKKIL*RKYKIPFYISIDCE<KTMKHFLVIDPLK*GTLKEILRNNWVNAGHEEDELK

Parental  PYVEPLPD
          P...P..D
Retrocopy PFLDPEQD

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_1085 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,