RetrogeneDB ID: retro_tsyr_1721

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_55733:8080..9012(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000014198
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1721
ATGGCAGCTCCCATGAAGGGCCAAGTGTGTGTAGTGACTGGTGCCTCCAGGGGTATTGGCCGTGGCATCGCCTTGCAGCT
CTGCTGAGTAGGTGCCACAGTCTACTTCACTGGCCGCCATCTGGGCACCCTTCAGGCCACTGCTCAGGAGGCACAATCTC
TTGGGGGGCCGATGTGTGCCTGTGGTGTGCGACTCAAGCCAGGAGAGTCAAGTACAAAGGCTGAGCAAGTGGATCGGGAA
CAGCATGGGTGCCTGGATGTGTTGGTCAACAATGCTTATGCTGGGGTCCAGGAGATCCTGAACAACAGGGGATAGGCATT
CTGGGAAGCCCCTGCCTCCATATGGGATGATATCAACAATGTTGGACTCAGAGGCCACTACTTGTGCTCGGTATATGGGG
CACGGCTGATGGTACCAGCTGGCCATGGGCTCATCATGGTCATCTCCTCCACTGGGGGTCTGCAGTATGCAATGAGCATC
GCCTATGGTGTGGGCAAAGCTGCGTGCGACAAGCTGGCTGCTGACTGTGCCCATGACCTACGGCGCCACAGGGTCAGCTA
CATGTCTTTGTGGCCCGGTATGGTGCAGACAGAACTGCTGAAGGAACATATGGCCAAGGAGGAGGCCGAAAAAGATCCCC
TGTTTAAGCAGTTAAAACCACTTTTCTCATCTGCGGAAACCACAGAAATGAGTGGCAAATGTGTGGTGGCTTTGGCAACA
GACCCCAATATCCTGAGCCTGAGTGGTAAGGTGCTGCCATCCTGTGACCTTGTTCGATGCTATGGCCTTTGGGATGTGGA
TGGCCGTCCAGTTCGAGACTATTTGTGAGCTCCACTGTCTTGCATGTCCCCAGCATGAGCTGATTGGCCTCCAACTTGCC
CAGCTTCCTCCGCATGCCCAAGTGGATAATTTCCCTCTATACCAGCAAGTTC

Alignment

ORF - retro_tsyr_1721 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.51 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASPMKGQVCVVTGASRGIGRGIALQLCRAGATVYITGRHLDTLQATAQEAQSL-GGRCVPVVCDSSQES
          MA.PMKGQVCVVTGASRGIGRGIALQLC..GATVY.TGRHL.TLQATAQEAQSL.G..C...V.....ES
Retrocopy MAAPMKGQVCVVTGASRGIGRGIALQLC*VGATVYFTGRHLGTLQATAQEAQSLGGPMCACGVRLKPGES

Parental  QVQRLFEQVDREQHGRLDVLVNNAYAGVQDILNNRGRAFWEAPASIWDDMNNVGLRGHYLCSVYGARLMV
          ......EQVDREQHG.LDVLVNNAYAGVQ.ILNNRG.AFWEAPASIWDD.NNVGLRGHYLCSVYGARLMV
Retrocopy STKA--EQVDREQHGCLDVLVNNAYAGVQEILNNRG*AFWEAPASIWDDINNVGLRGHYLCSVYGARLMV

Parental  PAGRGLIVIISSTGGLQYMFNVPYGVGKAACDRLAADCAHELRCHGVSYVSLWPGLVQTELXXXXXXXXX
          PAG.GLI..ISSTGGLQY.....YGVGKAACD.LAADCAH.LR.H.VSY.SLWPG.VQTEL.........
Retrocopy PAGHGLIMVISSTGGLQYAMSIAYGVGKAACDKLAADCAHDLRRHRVSYMSLWPGMVQTELLKEHMAKEE

Parental  XXXXXXXXXLKPLFSSAETTEMSGKCVVALATDPNILSLTGKALPSCDLARRYGLRDVDGRPVQDYL-SV
          .........LKPLFSSAETTEMSGKCVVALATDPNILSL.GK.LPSCDL.R.YGL.DVDGRPV.DYL...
Retrocopy AEKDPLFKQLKPLFSSAETTEMSGKCVVALATDPNILSLSGKVLPSCDLVRCYGLWDVDGRPVRDYL<VS

Parental  SSVLLHVPSMSWLASYLPGFLRVPKWIITLYTSKF
          S.VL.HVPSMS.LAS.LP.FLR.PKWII.LYTSKF
Retrocopy STVL-HVPSMS*LASNLPSFLRMPKWIISLYTSKF

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_1721 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000013241	1 retrocopy	retro_meug_1232,
Tarsius syrichta	ENSTSYG00000014198	1 retrocopy	retro_tsyr_1721 ,