RetrogeneDB ID: retro_tsyr_2125

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_93353:7080..7894(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000003440
• Aliases: None
• Description: None

Sequence

>retro_tsyr_2125
TTCTGGGAGGTGATCAGTGATGAACATGATGTTGACCCCACCGGTACCTACAATGGGGACAGCAACCTGCAGTTGGACTG
TATCTCCATGTACTACAATGAAGCCACAGGTGGCAAGTTTACTGTTTGTGCTATCCCGGTGGATCTAGAACCTGGGACCA
TGGATTCTGTTCACTCAGGTCCTTTTGGGCAAATCTTCAGACTGGACAATTTTGTTTTGGGTCAGTCTGGGATGGGTAAC
AACTGGGCAAAGGGCCACTATGCAGAGGGGCTGAGCTGGTTAATTCTGTCCTGGATGTGGTAAGGAAGGAGGCTGAGAGT
TGTGACTGCTTGCAGGCCTTCCAGCTGACCCACTGACTGGGCAGGAGCACAGGCTCTGGAATGGACACCCTCCTCATCAG
CAAGATCTGAGAAGAGTATCTTGACCACATCATGAACACCTTCAGTGTGGTGCCCTCACCCAAAGTGTCAGACACTGTGG
TTGAACCCTACAATGCCACCCCCTCTGTCCATCAGTCGATAGAGAACACTGATGAGACCTACTACATTGACAATGAGACC
CTCTATGACATCTGCTTCTGCATCCTCAAGCTGACCACACCAAGCTACGGGGACCTGAACCACCTCCTCTCAGTCACCAA
AAGCAGTGTCACCACCTGCCTCCATTTCCCTGGCCATCTCAATGCTGATCTCCGCAAGCTAGCAGTCACATAGGGCCCTT
CCCACATCTCTAATTCTTCATATCTGACTTTGCCCCTCTCACCATCCATGGAAGCCCGCAGTATCGGGGTCTCACAGTCC
CTGAACTCACCCAG

Alignment

ORF - retro_tsyr_2125 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.09 %
• Parental protein coverage: 63.93 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FWEVISDEHGIDPTGSYHGDSDLQLERINVYYNEATGNKYAPWAIIGDLEPGTMDSGQGFGPFGQIFRPD
          FWEVISDEH..DPTG.Y.GDS.LQL..I..YYNEATG.K....AI..DLEPGTMDS....GPFGQIFR.D
Retrocopy FWEVISDEHDVDPTGTYNGDSNLQLDCISMYYNEATGGKFTVCAIPVDLEPGTMDSVHS-GPFGQIFRLD

Parental  NFVFGQSGAGNNWAKGHYTEG-AELVDSVLDVVRKESESCDCLQGFQLTHSLGGGTGSGMGTLLISKIRE
          NFV.GQSG.GNNWAKGHY.EG.AELV.SVLDVVRKE.ESCDCLQ.FQLTH.LG..TGSGM.TLLISKI.E
Retrocopy NFVLGQSGMGNNWAKGHYAEG<AELVNSVLDVVRKEAESCDCLQAFQLTH*LGRSTGSGMDTLLISKI*E

Parental  EYPDRIMNTFSVMPSPKVSDTVVEPYNATLSVHQLVENTDETYCIDNEALYDICFRTLKLTTPTYGDLNH
          EY.D.IMNTFSV.PSPKVSDTVVEPYNAT.SVHQ..ENTDETY.IDNE.LYDICF..LKLTTP.YGDLNH
Retrocopy EYLDHIMNTFSVVPSPKVSDTVVEPYNATPSVHQSIENTDETYYIDNETLYDICFCILKLTTPSYGDLNH

Parental  LVSATMSGVTTCLRFPGQLNADLRKLAV-NMVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQ
          L.S.T.S.VTTCL.FPG.LNADLRKLAV....PFP.L.FF...FAPLT..GS.QYR.LTVPELTQ
Retrocopy LLSVTKSSVTTCLHFPGHLNADLRKLAV<HIGPFPHL*FFISDFAPLTIHGSPQYRGLTVPELTQ

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_2125 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.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017637	1 retrocopy	retro_cjac_1649,
Myotis lucifugus	ENSMLUG00000016179	1 retrocopy	retro_mluc_401,
Tupaia belangeri	ENSTBEG00000004854	9 retrocopies	retro_tbel_2291, retro_tbel_3456, retro_tbel_3944, retro_tbel_4113, retro_tbel_413, retro_tbel_4390, retro_tbel_4439, retro_tbel_961, retro_tbel_962,
Tarsius syrichta	ENSTSYG00000002994	1 retrocopy	retro_tsyr_569,
Tarsius syrichta	ENSTSYG00000003440	2 retrocopies	retro_tsyr_1068, retro_tsyr_2125 ,