RetrogeneDB ID: retro_tsyr_1276

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_37737:285..1290(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STK38
• Ensembl ID: ENSTSYG00000012409
• Aliases: None
• Description: serine/threonine kinase 38 [Source:HGNC Symbol;Acc:17847]

Sequence

>retro_tsyr_1276
GTTGGCCACATTCGTGCAGAGCGAGACATTCTAGCGGAGGCAGACAGTTTGTGGGTTGTGAAAATGTTCTATAGTTTTCA
GGATAAGCTAAACCTCTACTTAATCATGGAGTTCCTGCCTGGAGGGGACATGATGACCTTGTTGATGAAAAAAGACACTC
TGACAGAAAAGGAGACTCAGTTTTATATAGCAGAAACAGTATTAGCCATAGACTCCATTCACCAACTTGGATTCATCCAC
AGAGACATCAAACCAGACAACCTTCTCCTGGACAGCAAGGGCCATGTGAAACTTTCTGACTTTGGCCTTTGTACAGGATT
GAAAAAAGCACATAGGACAGAATTTTATAGGAATCTGAACCACAGCCTGCCTAGCGACTTCACTTTTCAGAACATGAATT
CCAAAGGGAAAGCAGAAACCTGGAAAAGAAATAGACGTCAGCTAGCCTTCTCCACAGTAGGCACTCCTGACAACATTGCT
CCTGAGATCGTCATGCAGACCGGGTACAACAAGCTCTGCGATTGGTGGTCACTTGGGGTAATCATGTATGAGATGCTCAT
TGGCTATCCACCTTTTTGTTCTGAGACCCCTCAAGAGACATATAAGAAGGTGATGAACTAGAAGGAGACGTTGACTTTTC
CTCCAGAAGTCCCCATCTCTGAGAAAGCCAAGGATCTAATTTTGAGATTCTGCTGTGATTGAGAACATAGAATTGGAGCC
CCTGGAATTGAGGAAATGAAAAGTAACTCTTTTTTTGAAGGTGTTGACTGGGAGGATATCAGAGAGAGACCTGCTGCAAT
ATCTATTGAAATCAAAAGCATTGATGATACCTCAAACTTCGATAAGTTTCCAGAATCTGATATTCTTAAGCCAACAGTGG
CCACAAGTAATCACCCTGAGACTGACTACAAGAACAAAGATTGGGTCTTCATCAATTACACATACAAGCGCTTTGAGGGC
CTGGCTGCGAGAGGGGCGATACCTTCCTACATGAAAGCAACGAAA

Alignment

ORF - retro_tsyr_1276 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.82 %
• Parental protein coverage: 79.57 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGHIRAERDILVEADSLWVVKMFYSFQDKLNLYLIMEFLPGGDMMTLLMKKDTLTEEETQFYIAETVLAI
          VGHIRAERDIL.EADSLWVVKMFYSFQDKLNLYLIMEFLPGGDMMTLLMKKDTLTE.ETQFYIAETVLAI
Retrocopy VGHIRAERDILAEADSLWVVKMFYSFQDKLNLYLIMEFLPGGDMMTLLMKKDTLTEKETQFYIAETVLAI

Parental  DSIHQLGFIHRDIKPDNLLLDSKGHVKLSDFGLCTGLKKAHRTEFYRNLNHSLPSDFTFQNMNSKRKAET
          DSIHQLGFIHRDIKPDNLLLDSKGHVKLSDFGLCTGLKKAHRTEFYRNLNHSLPSDFTFQNMNSK.KAET
Retrocopy DSIHQLGFIHRDIKPDNLLLDSKGHVKLSDFGLCTGLKKAHRTEFYRNLNHSLPSDFTFQNMNSKGKAET

Parental  WKRNRRQLAFSTVGTPDYIAPEVFMQTGYNKLCDWWSLGVIMYEMLIGYPPFCSETPQETYKKVMNWKET
          WKRNRRQLAFSTVGTPD.IAPE..MQTGYNKLCDWWSLGVIMYEMLIGYPPFCSETPQETYKKVMN.KET
Retrocopy WKRNRRQLAFSTVGTPDNIAPEIVMQTGYNKLCDWWSLGVIMYEMLIGYPPFCSETPQETYKKVMN*KET

Parental  LTFPPEVPISEKAKDLILRFCCDWEHRIGAPGVEEIKSNSFFEGVDWEHIIERPAAISIEIKSIDDTSNF
          LTFPPEVPISEKAKDLILRFCCD.EHRIGAPG.EE.KSNSFFEGVDWE.I.ERPAAISIEIKSIDDTSNF
Retrocopy LTFPPEVPISEKAKDLILRFCCD*EHRIGAPGIEEMKSNSFFEGVDWEDIRERPAAISIEIKSIDDTSNF

Parental  DEFPESDILKPTVATSNHPETDYKNKDWVFINYTYKRFEGLTARGAIPSYMKATK
          D.FPESDILKPTVATSNHPETDYKNKDWVFINYTYKRFEGL.ARGAIPSYMKATK
Retrocopy DKFPESDILKPTVATSNHPETDYKNKDWVFINYTYKRFEGLAARGAIPSYMKATK

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_1276 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011126	1 retrocopy	retro_btau_389,
Callithrix jacchus	ENSCJAG00000016045	2 retrocopies	retro_cjac_2806, retro_cjac_2824,
Tarsius syrichta	ENSTSYG00000012409	2 retrocopies	retro_tsyr_1276 , retro_tsyr_1603,