RetrogeneDB ID: retro_tsyr_56

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_1417:32359..32703(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM147
• Ensembl ID: ENSTSYG00000008207
• Aliases: None
• Description: transmembrane protein 147 [Source:HGNC Symbol;Acc:30414]

Sequence

>retro_tsyr_56
ATACTGTTCTTGATCATTTATTTTCCACCTGGGAAGGTAGCATCTGTGACTTCACTGGGGAGTTCATGAAGACCAGCAAG
GATGTGGAAGACCTGATAGGCCTAAACCTTGTCATATCCCAGAATGCCAGCAATCCGAAGTACAAAATCATGGTTGTTGC
CTTGGACTGGGCTACCACTGAGCTCATTATGGACTACTGCATTCCCCACTGGGTCAGAGCCTGGGGCATTAAGTTTGACT
GGAACTATATCCAGATGAGCACTGAGTCTAAGATCAGCCTGGTCCATTACATCATCAAGTCCACCCGAGTCTGGATGATG
ACACACTATGACATGTATTACACA

Alignment

ORF - retro_tsyr_56 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.1 %
• Parental protein coverage: 65.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLFLATFFP-TWEGGIYDFIGEFMKASVDVADLIGLNLVMSRNAGKGEYKIMVAALGWATAELIMSRCIP
          .LFL...FP.TWEG.I.DF.GEFMK.S.DV.DLIGLNLV.S.NA....YKIMV.AL.WAT.ELIM..CIP
Retrocopy ILFLIIYFP<TWEGSICDFTGEFMKTSKDVEDLIGLNLVISQNASNPKYKIMVVALDWATTELIMDYCIP

Parental  LWVGARGIEFDWKYIQMSIDSNISLVHYIIASAQVWMITRYDLYHT
          .WV.A.GI.FDW.YIQMS..S.ISLVHYII.S..VWM.T.YD.Y.T
Retrocopy HWVRAWGIKFDWNYIQMSTESKISLVHYIIKSTRVWMMTHYDMYYT

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_56 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010132	1 retrocopy	retro_acar_105,
Ailuropoda melanoleuca	ENSAMEG00000000375	1 retrocopy	retro_amel_1193,
Bos taurus	ENSBTAG00000015920	1 retrocopy	retro_btau_1546,
Canis familiaris	ENSCAFG00000006960	2 retrocopies	retro_cfam_1070, retro_cfam_1265,
Dasypus novemcinctus	ENSDNOG00000004059	1 retrocopy	retro_dnov_1123,
Felis catus	ENSFCAG00000006373	2 retrocopies	retro_fcat_1489, retro_fcat_224,
Myotis lucifugus	ENSMLUG00000016383	1 retrocopy	retro_mluc_1889,
Mustela putorius furo	ENSMPUG00000006709	1 retrocopy	retro_mputfur_588,
Tarsius syrichta	ENSTSYG00000008207	1 retrocopy	retro_tsyr_56 ,
Tursiops truncatus	ENSTTRG00000015114	2 retrocopies	retro_ttru_1406, retro_ttru_219,