RetrogeneDB ID: retro_tsyr_1177

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_33796:3229..3708(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: REXO2
• Ensembl ID: ENSTSYG00000002237
• Aliases: None
• Description: RNA exonuclease 2 [Source:HGNC Symbol;Acc:17851]

Sequence

>retro_tsyr_1177
AATTTGATTATATAACAACCAGACGAGTTGCTGGACAGCATGTCAGATTGGTGTAAGGAACATCATGGGAAGTCTGGTCT
TACCAAGGCAGTGAGGGAGAGTACAATTACATTGCAGCAGGCAGAGTATGAATTTCTGTTCTGTTCTTTGTACGACAGCA
GACTCCTCCGGGGCTCTGTCCACTTGCAGGAAATTCAGTTCATGCAGATAAGAAGTTTCTTGACAAATACATGCCCCAGT
TCATGAAACATCTTCATTATAGAATAATTGATGTGAGCACTGTTAAAGAACTGTGCGGACGCTGGTATCCAGAAGAATAT
GAATTTGCACCAAAGAAGGCTGCTTCTCACAGGGCACTTGATGACATTAGTGAAAGCATCAAAGAACTTCAGTTTTACCG
AGATAAAATCTTCAAGAAAAAAACAGATGAGAAGAAGAGGAAAATTATAGAAAATGGGGAAAATGAGAAGACCGTGAGT

Alignment

ORF - retro_tsyr_1177 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.41 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NLIIKQPDELLDSMSDWCKEHHGKSGLTKAVKESTITLQQA--EYEFLS-FVRQQTPPGLCPLAGNSVHA
          NLII.QPDELLDSMSDWCKEHHGKSGLTKAV.ESTITLQQA..E..F.S.FVRQQTPPGLCPLAGNSVHA
Retrocopy NLII*QPDELLDSMSDWCKEHHGKSGLTKAVRESTITLQQAEYEFLFCS<FVRQQTPPGLCPLAGNSVHA

Parental  DKKFLDKYMPQFMKHLHYRIIDVSTVKELCRRWYPEEYEFAPKKAASHRALDDISESIKELQFYRDKIFK
          DKKFLDKYMPQFMKHLHYRIIDVSTVKELC.RWYPEEYEFAPKKAASHRALDDISESIKELQFYRDKIFK
Retrocopy DKKFLDKYMPQFMKHLHYRIIDVSTVKELCGRWYPEEYEFAPKKAASHRALDDISESIKELQFYRDKIFK

Parental  KKTDEKKRKIIENGENEKTVS
          KKTDEKKRKIIENGENEKTVS
Retrocopy KKTDEKKRKIIENGENEKTVS

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_1177 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013497	1 retrocopy	retro_chof_40,
Callithrix jacchus	ENSCJAG00000012434	1 retrocopy	retro_cjac_1493,
Dipodomys ordii	ENSDORG00000011255	1 retrocopy	retro_dord_374,
Equus caballus	ENSECAG00000005988	1 retrocopy	retro_ecab_572,
Myotis lucifugus	ENSMLUG00000009030	1 retrocopy	retro_mluc_1861,
Monodelphis domestica	ENSMODG00000013913	1 retrocopy	retro_mdom_1575,
Tarsius syrichta	ENSTSYG00000002237	1 retrocopy	retro_tsyr_1177 ,