RetrogeneDB ID: retro_tsyr_1612

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_511577:322..773(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS15
• Ensembl ID: ENSTSYG00000008948
• Aliases: None
• Description: mitochondrial ribosomal protein S15 [Source:HGNC Symbol;Acc:14504]

Sequence

>retro_tsyr_1612
TTGCCCCCTTACATGCTGCTCAAAGACTACCAGACCGTCCTGGAATTGAGAAGGTTGATGATGTTGTGAAAAGACTATTG
TCTTCGGAAATGGCTAACCAGAAGTAGAAGCTAAAAATCACAAGAACAGTTGATGAGGAAGGTCATGGCAAACCCTGAGG
ACACCAGATCCCCGGATGCTCAAATTTCTTCCTCGACCATCAACATCCTCAGTTATGAAGAACCCATGCAGAAACATGAA
AAGGACAAAGCCCATAAACTTTATCTGCTGATGAACATTGACCAGAGGAAAAAAAAGATACTTCAAAACACTCGTAAGAC
CAACTACGATGTCTTGGAGAAGACATGCAGGGAGCTGGGGCTTGAGTACACATTTCCCTCTCTATTACCGAAGAGCCCAC
CACCAATTCATGACCAAGAAGGCTCCCTGCATTTGGGTTTTCTAGGAGGCT

Alignment

ORF - retro_tsyr_1612 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.83 %
• Parental protein coverage: 58.59 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LPPSTLLKDYQNV-PGIEKVDDVVKRLLSLEMANKKEMLK-TKQELMKKVVANPEDTRSLEARIVSLTIK
          LPP..LLKDYQ.V.PGIEKVDDVVKRLLS.EMAN.K..LK.....LM.KV.ANPEDTRS..A.I.S.TI.
Retrocopy LPPYMLLKDYQTV<PGIEKVDDVVKRLLSSEMANQK*KLK>SQEQLMRKVMANPEDTRSPDAQISSSTIN

Parental  IRNYEEHMQKQRKDKTHKCYLLMSIDQR-KKMLKNLRKTNYDVFEKTCRELRIEYTFPPL-YYRRAHRRF
          I..YEE.MQK..KDK.HK.YLLM.IDQR....L.N.RKTNYDV.EKTCREL..EYTFP.L.Y.R.AH..F
Retrocopy ILSYEEPMQKHEKDKAHKLYLLMNIDQRXXXILQNTRKTNYDVLEKTCRELGLEYTFPSL>YRR-AHHQF

Parental  VTKKALCIRVFQEA
          .TKKA.CI.VF.EA
Retrocopy MTKKAPCIWVF*EA

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_1612 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 19 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001463	1 retrocopy	retro_amel_1564,
Canis familiaris	ENSCAFG00000030390	1 retrocopy	retro_cfam_1939,
Callithrix jacchus	ENSCJAG00000001852	3 retrocopies	retro_cjac_3095, retro_cjac_761, retro_cjac_859,
Cavia porcellus	ENSCPOG00000010877	1 retrocopy	retro_cpor_430,
Dipodomys ordii	ENSDORG00000007581	1 retrocopy	retro_dord_118,
Felis catus	ENSFCAG00000005265	1 retrocopy	retro_fcat_915,
Homo sapiens	ENSG00000116898	1 retrocopy	retro_hsap_1594,
Myotis lucifugus	ENSMLUG00000006475	1 retrocopy	retro_mluc_1945,
Monodelphis domestica	ENSMODG00000017813	1 retrocopy	retro_mdom_1094,
Mus musculus	ENSMUSG00000028861	1 retrocopy	retro_mmus_3447,
Nomascus leucogenys	ENSNLEG00000011467	1 retrocopy	retro_nleu_615,
Otolemur garnettii	ENSOGAG00000002656	2 retrocopies	retro_ogar_1327, retro_ogar_16,
Pongo abelii	ENSPPYG00000001537	1 retrocopy	retro_pabe_1310,
Pan troglodytes	ENSPTRG00000000541	1 retrocopy	retro_ptro_1071,
Sus scrofa	ENSSSCG00000026393	1 retrocopy	retro_sscr_1190,
Ictidomys tridecemlineatus	ENSSTOG00000000608	1 retrocopy	retro_itri_454,
Tupaia belangeri	ENSTBEG00000000958	4 retrocopies	retro_tbel_1633, retro_tbel_4438, retro_tbel_845, retro_tbel_882,
Tarsius syrichta	ENSTSYG00000008948	2 retrocopies	retro_tsyr_1612 , retro_tsyr_372,
Tursiops truncatus	ENSTTRG00000002345	1 retrocopy	retro_ttru_1500,