RetrogeneDB ID: retro_tsyr_1368

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_41521:665..1663(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CTPS2
• Ensembl ID: ENSTSYG00000013561
• Aliases: None
• Description: CTP synthase 2 [Source:HGNC Symbol;Acc:2520]

Sequence

>retro_tsyr_1368
CACCGAGTACCTGTGCTTTTGGAGAAACAAGACATTGTCAAATATTTTAAGGAGAGATTAGACCTGTCCATTGGTGATTC
TGCAGGTAATTTGCTTTTCAAGTGGAGGAATATGGCTGACAGGTATGAAAGGTCACAGAAAACATGCTACATAGCTCTGG
TTGGCAAATACACCAAGCTTAGGGAGTACCATACCTTTGTGCTGAAAGCTCTTTAACACTCAGCCTTGGCCTTCAACCAC
AAATTGAATCTGATTTACATAGACTCCACTGATCTGGAGCAGATCGCTGAAACTGAGGACCCTGTGAAATTCTATGAAGC
TTGGCAGAAGCTATGCACAGCTAACAGTATTCTTGTGCCCAGAGGCTTTGGAATCAGAGAAACATTGGGAAAACTCCAGG
TGATTTCTTGGACAAGGGCAAAGAAGATTCCTTTTCTGGGAGTTTGCCTTGGGATGCTACTGGCAGTAACAGGGTTTTGA
AGAAAATGCCTTGACTTGAAAGATGCTGATTCCACAGAATTTGAGCCCAATGCCCCAATTACTGTGGTGATTGATGTGCC
CAAACACAACCTGGCAATTTGGGAGGAACAATGAGACTGGGACTAAGAAGAATTATTTTCAAAACTGAAAATTCAATACT
AAGGAAACCCTATGGTGATGCTCCTTTTATAGAAGAAAGACACAGACATTGGTATGAAGTGAGCCCTAAATGGATCAGTC
AATTTGAACAGAGTGACTTAAGTTTTGCAGGTCAAGATGTCGATGGAGAGAGGATAGAAATCACTGAACTGGCAACTCAT
CTCTATTTTGTCAGGGTCCAATTCCATCATGAGTTTTCTTCTAGGCTGATGAAGACTTCCCCTCCATTCCTGGGGCTGTG
ACTTGAGGCAACTGGTAACCTGAATACTTACCTGCAACAGGGCTGCAAACTGTCTTTTAGTGATAGATACAGTGATGACA
GCTTTTCAGAGCCAAGGATAGTTGAGCTGGAAATAAGC

Alignment

ORF - retro_tsyr_1368 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.26 %
• Parental protein coverage: 66.4 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YRVPVLLEEQGIVKYFKERLDLPIGDSASNLLFKWRNMADRYERLQKTCSIALVGKYTKLRDCYASVFKA
          .RVPVLLE.Q.IVKYFKERLDL.IGDSA.NLLFKWRNMADRYER.QKTC.IALVGKYTKLR.....V.KA
Retrocopy HRVPVLLEKQDIVKYFKERLDLSIGDSAGNLLFKWRNMADRYERSQKTCYIALVGKYTKLREYHTFVLKA

Parental  LEHSALAINHKLNLMYIDSIDLEQITETEDPVKFHEAWQKLCKADGILVPGGFGIRGTLGKLQAISWART
          L.HSALA.NHKLNL.YIDS.DLEQI.ETEDPVKF.EAWQKLC.A..ILVP.GFGIR.TLGKLQ.ISW.R.
Retrocopy L*HSALAFNHKLNLIYIDSTDLEQIAETEDPVKFYEAWQKLCTANSILVPRGFGIRETLGKLQVISWTRA

Parental  KKIPFLGICLGMQLAVIEFARNCLNLKDADSTEFEPNAPVPVVIDMPEHN-PGNLGGTMRLGIRRTIFKT
          KKIPFLG.CLGM.LAV..F.R.CL.LKDADSTEFEPNAP..VVID.P.HN.PGNLGGTMRLG.RR.IFKT
Retrocopy KKIPFLGVCLGMLLAVTGF*RKCLDLKDADSTEFEPNAPITVVIDVPKHN<PGNLGGTMRLGLRRIIFKT

Parental  ENSILXXXXXXXXXXXXXXXXXXXVNPKLISQFEESDLSFAGQDVDGERMEIIELANHPYFVGVQFHPEF
          ENSIL...................V.PK.ISQFE.SDLSFAGQDVDGER.EI.ELA.H.YFV.VQFH.EF
Retrocopy ENSILRKPYGDAPFIEERHRHWYEVSPKWISQFEQSDLSFAGQDVDGERIEITELATHLYFVRVQFHHEF

Parental  SSRPMKPSPPYLGLLLAATGNLNTYLQQGCKLSSSDRYSDASDDSFSEPRITELEIN
          SSR.MK.SPP.LGL.L.ATGNLNTYLQQGCKLS.SDRYSD...DSFSEPRI.ELEI.
Retrocopy SSRLMKTSPPFLGL*LEATGNLNTYLQQGCKLSFSDRYSD---DSFSEPRIVELEIS

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_1368 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000006158	1 retrocopy	retro_mluc_2569,
Otolemur garnettii	ENSOGAG00000001255	1 retrocopy	retro_ogar_2926,
Tarsius syrichta	ENSTSYG00000013561	1 retrocopy	retro_tsyr_1368 ,