RetrogeneDB ID: retro_tsyr_558

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_139648:2..1140(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MX1
• Ensembl ID: ENSTSYG00000013089
• Aliases: None
• Description: myxovirus (influenza virus) resistance 1, interferon-inducible protein p78 (mouse) [Source:HGNC Symbol;Acc:7532]

Sequence

>retro_tsyr_558
CAGAACGTCATTGCAGGGGAAGGAATGGGAATCAGCCATGAGTTAATCAGCCTAGAGGTCAGCTCCCCACATGTCCCGGA
TCTGACTCTTCTAGACCTTCCTGGCATAACTAGGGTGGCTGTGGGCAACCAGCCCACCGACATCGGGCGTCAGATCAAGG
CTCTCATCAAGAAGTACATCTACAGGCAGCAGACCATCAACCTGGTGGTGGTCCCCTGTAATGTGGACATCGCCACCACA
GAGACACTGAGCATGGCTCAGGAGGTGGACCCCGAGGGGGACAGGACCATAGGAATCTTGACAAAGCCTGATCTGGTGGA
CAAAGGTACCGAAGACCAGATCATTGATGTGGCATGAAACCTTGTGTGTCACCTGAAGGAGGGCTACATGATCGCCAGGT
GCCGGGGTCAGCAGGAAATCCAGGACCAGCTGAGCCTATCTGAAGCTCTGCAAAGAGAGAAGGCCTTCTTTGAGGACCAC
CCACATTTCAGAGAACTTCTGGAGGAAGGAAGGGCCACGGTTCCCTACCTGGCAGACAGACTTACCACAGAGCTCATCAC
GCACATCTCTAAATCTATGCCCCTATTAGAAGAGCAAATAAAGGTGAATCACCCGAAAATAACAGAGGACTTACAAAAGT
ATGGTGTTGACATACCAGAAGATGAAACGGAAAAAATGTTCTTCCTGATAGATAAAATTAAAGCATTTAATCAGGATATC
GCTGCTTTAGTACAAGGGGAGGAAACTGTGGAAGATGAAGACACTTCGCTGTTTACCAAACTCCGGAATGAGTTCCAAAA
ATGGAGTGTTATAATTGAAAAAAAATTTTCAAAGCAGTTCTGACCTTATGAGTAACAAAATCCATAAATTTGAAAATCAG
TATCATGGCAGAGAGCTGCCAGGATTTGTGAATTATAGGACATCTGAGTCGATCATAAAACAGCAAATCAAAACCCTGGA
GGAGCCAGCTGTTGACATGCTGCACAGGGTGACTGATATTGTCCGACTCGCTTTCGCAGACGTTTCAGTGAAACGGTCTG
AGGAATTTTTTAACCTCCACAGAAACCGCTAAGTCCAAAATCAAGACATTTCGAGCAGAACAAGAAAAGAACGTGATAAG
TTGATCCGACTTCACTTT

Alignment

ORF - retro_tsyr_558 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.48 %
• Parental protein coverage: 57.73 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QNVIAGEGMGISHELISLEVSSPHVPDLTLIDLPGITRVAVGNQPADIGRQIKALIRKYIYRQQTINLVV
          QNVIAGEGMGISHELISLEVSSPHVPDLTL.DLPGITRVAVGNQP.DIGRQIKALI.KYIYRQQTINLVV
Retrocopy QNVIAGEGMGISHELISLEVSSPHVPDLTLLDLPGITRVAVGNQPTDIGRQIKALIKKYIYRQQTINLVV

Parental  VPCNVDIATTEALSMAQEVDPEGDRTIGILTKPDLVDKGTEDQIVDVARNLVCHLKKGYMIVKCRGQQEI
          VPCNVDIATTE.LSMAQEVDPEGDRTIGILTKPDLVDKGTEDQI.DVA.NLVCHLK.GYMI..CRGQQEI
Retrocopy VPCNVDIATTETLSMAQEVDPEGDRTIGILTKPDLVDKGTEDQIIDVA*NLVCHLKEGYMIARCRGQQEI

Parental  QDQLSLSEALQREKAFFEDHPHFRELLEEGRATVPYLADRLTTELITHISKSMPLLVEKKKATHQKITED
          QDQLSLSEALQREKAFFEDHPHFRELLEEGRATVPYLADRLTTELITHISKSMPLL.E..K..H.KITED
Retrocopy QDQLSLSEALQREKAFFEDHPHFRELLEEGRATVPYLADRLTTELITHISKSMPLLEEQIKVNHPKITED

Parental  LQKYGANI-EDETEKMLFLIDKIKAFNQDIAALVQGEETVEDEGTWLFTKLWNEFHR-NVII-EKNFKSS
          LQKYG..I.EDETEKM.FLIDKIKAFNQDIAALVQGEETVEDE.T.LFTKL.NEF....VII....F.SS
Retrocopy LQKYGVDIPEDETEKMFFLIDKIKAFNQDIAALVQGEETVEDEDTSLFTKLRNEFQKWSVII>XXXFQSS

Parental  YDLMSNKIHKFENQYRGRELPGFVNYRTFESIIKQQIKTLEEPAVDMLHRVTXIVRLAFTDVSVKHLEEF
          .DLMSNKIHKFENQY.GRELPGFVNYRT.ESIIKQQIKTLEEPAVDMLHRVT.IVRLAF.DVSVK..EEF
Retrocopy SDLMSNKIHKFENQYHGRELPGFVNYRTSESIIKQQIKTLEEPAVDMLHRVTDIVRLAFADVSVKRSEEF

Parental  FNLHR-TAKSKIEDIRAEQE-KEGDKLIRLHF
          FNLHR.TAKSKI...RAEQE.KE.DKLIRLHF
Retrocopy FNLHR>TAKSKIKTFRAEQE<KERDKLIRLHF

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_558 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000013089	1 retrocopy	retro_tsyr_558 ,