RetrogeneDB ID: retro_tsyr_940

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_248660:943..1594(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MPPED2
• Ensembl ID: ENSTSYG00000004242
• Aliases: None
• Description: metallophosphoesterase domain containing 2 [Source:HGNC Symbol;Acc:1180]

Sequence

>retro_tsyr_940
ATGGCACATGGGATCCCTTCTCAAGGCAAAGTTACCATAACGGTGGATGAGTACAGCTCCAATGCCTCCCAGGCCTTCAC
GCACTACAACATCAGCCAGAGCAGATTCCAGCCACCGCACGTACACATGGTCAACCCCATCCCATATGACACTCCAAAAC
TAGCGGGCCACATGCGGTTTGTGTGCATCTCAGACACACACTTCAGAACAGATGGTATCCAGATGCCTTACGGGGATGTC
CTTCTCCACACGGACAATTTCACTGAGCTGGGACTACCCTCCGAGGTTAAGAAGTTTAATGACTGGTTAGGAAACCTGAC
ATATGAATATAAAATAGTGATTGCTGGGAATCATGAACTGACATTTGATAAGGAATTCATGGCAGACCTTGTTAAACAGG
ACTACTACCGTTTCCCCTCTGTGTCCAAATTGAAACCAGAGGACTTTGACAATGTTCAGTCTCTCCTGACAAACAGTATT
TACTTACAAGATTCGGAGGTAACGGTGAAGGGATTCAGGATATATGGTGCACCTTGGACCCCGTGGTTTAATGGATGGGG
CTTTAACCTACCCAGAGGTCAGTCTCTGCTGGACAAGTGGAACCTCATCCCTGAGGGCATCGACTTACTCATGCCTCATG
GACCTCCTCTA

Alignment

ORF - retro_tsyr_940 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.47 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAHGIPSQGKVTITVDEYSSNPTQAFTHYNINQSRFQPPHVHMVDPIPYDTPKPAGHTRFVCISDTHSRT
          MAHGIPSQGKVTITVDEYSSN..QAFTHYNI.QSRFQPPHVHMV.PIPYDTPK.AGH.RFVCISDTH.RT
Retrocopy MAHGIPSQGKVTITVDEYSSNASQAFTHYNISQSRFQPPHVHMVNPIPYDTPKLAGHMRFVCISDTHFRT

Parental  DGIQMPYGDVLLHTGDFTELGLPSEVKKFNDWLGNLPYEYKIVIAGNHELTFDKEFMADLVKQDYYRFPS
          DGIQMPYGDVLLHT..FTELGLPSEVKKFNDWLGNL.YEYKIVIAGNHELTFDKEFMADLVKQDYYRFPS
Retrocopy DGIQMPYGDVLLHTDNFTELGLPSEVKKFNDWLGNLTYEYKIVIAGNHELTFDKEFMADLVKQDYYRFPS

Parental  VSKLKPEDFDNVQSLLTNSIYLQDSEVTVKGFRIYGAPWTPWFNGWGFNLPRGQSLLDKWNLIPEGIDIL
          VSKLKPEDFDNVQSLLTNSIYLQDSEVTVKGFRIYGAPWTPWFNGWGFNLPRGQSLLDKWNLIPEGID.L
Retrocopy VSKLKPEDFDNVQSLLTNSIYLQDSEVTVKGFRIYGAPWTPWFNGWGFNLPRGQSLLDKWNLIPEGIDLL

Parental  MTHGPPL
          M.HGPPL
Retrocopy MPHGPPL

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_940 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000012290	1 retrocopy	retro_mluc_290,
Tarsius syrichta	ENSTSYG00000004242	2 retrocopies	retro_tsyr_1719, retro_tsyr_940 ,