RetrogeneDB ID: retro_tsyr_230

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_5919:94144..94946(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MTERFD2
• Ensembl ID: ENSTSYG00000012283
• Aliases: None
• Description: MTERF domain containing 2 [Source:HGNC Symbol;Acc:28785]

Sequence

>retro_tsyr_230
GTCCTTGACTGGCACCCACTGATCCCCCTCACCTGGGCCTGTATGGCCAGGCAGATTTCTCTTGGAGAACAGAAAAGGAT
GACTGCTTCTTTGTTGTGTAAACTGACTACAGCTTCCAATAGAGGGAGCCTTGAGGAGTTATCCTATGCTGGATCCAATA
AATATGTGCAGGAACCAGAGTGCAGAATGAATCTTGTTCAATGCCTCCGTGAGAAGCAGAGACCCACTCCTATGGATCAA
GGAGCCTTGCGAGCTAGAAAATGTCATCAGTTCCCTCCTGGACATGGGTTTCAGTGATGTTCATATTAATGAATTGCTCA
GTGTACAACCAGGTACTAACCCTCAACAGATGCTGGACATCATTTCAGAATTTATACTCTTGGGTCTGAATCCAGAGTTT
GTGTATGTGGCCTTGAAGAAAAGTTCCCAGTTATTGAAACCATCTATAATGCAGATGAAGAAGCGTTCCAGTTATCTGTG
AAAGTTTGGGCTTGGAGACGGGAAACTAAAGAGGATGCTTCAGTGCTGCCCTGAAATTTTCACTATGCATCAACAGGACA
TTGAGGACATTGTCAGGGTCCTCAAGGAGAAGTGCCTTTTCACAGTACAGCATGTCACCGAGATTTTGCACAGATGCCCC
TCTGTTCTTCAGGAGAATCCAGGTGAACTGGACAAATTCCAGTATGCATATTTTAAGATGGGAATTAAGCATGCAGACAT
GGTAAGGAGTGAGTCCTTGAAGTACTCATTAACGAAGATTAATCAGAGACATATTTACCTGGAGCGCCTAGGACGGTACC
AA

Alignment

ORF - retro_tsyr_230 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.04 %
• Parental protein coverage: 78.65 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VLDWHRLISLTWACMARQTTSLGEQKRMTASLLRKLTTASNRGSLEELSYVGSNKYVQEPECRMNLVQCL
          VLDWH.LI.LTWACMARQ..SLGEQKRMTASLL.KLTTASNRGSLEELSY.GSNKYVQEPECRMNLVQCL
Retrocopy VLDWHPLIPLTWACMARQI-SLGEQKRMTASLLCKLTTASNRGSLEELSYAGSNKYVQEPECRMNLVQCL

Parental  REKQRSTPMDQEAL-ELENIISSLLDMGFSDAHINELLSVQPGANLQQMVDIISEFILLGLNPEPVYVAL
          REKQR.TPMDQ.AL.ELEN.ISSLLDMGFSD.HINELLSVQPG.N.QQM.DIISEFILLGLNPE.VYVAL
Retrocopy REKQRPTPMDQGAL>ELENVISSLLDMGFSDVHINELLSVQPGTNPQQMLDIISEFILLGLNPEFVYVAL

Parental  KKNPQLLKMSVMQMKKRSRYLRKLGLEEGKLKRVLQCCPEIFTMHQQNIEDIVRVLKEKCLFTVQQVTEI
          KK..QLLK.S.MQMKKRS.YL.K.GL..GKLKR.LQCCPEIFTMHQQ.IEDIVRVLKEKCLFTVQ.VTEI
Retrocopy KKSSQLLKPSIMQMKKRSSYL*KFGLGDGKLKRMLQCCPEIFTMHQQDIEDIVRVLKEKCLFTVQHVTEI

Parental  LHRCPSVLHENPDELEYKFQYAYFRMGIKHPDMVRSEFLKYSLTKINQRHIYLERLGRYK
          LHRCPSVL.ENP.EL..KFQYAYF.MGIKH.DMVRSE.LKYSLTKINQRHIYLERLGRY.
Retrocopy LHRCPSVLQENPGELD-KFQYAYFKMGIKHADMVRSESLKYSLTKINQRHIYLERLGRYQ

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_230 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000012283	3 retrocopies	retro_tsyr_1286, retro_tsyr_1531, retro_tsyr_230 ,