RetrogeneDB ID: retro_tsyr_320

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_807:92205..92608(+)
• Located in intron of: ENSTSYG00000011426

Retrocopy information

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

Parental gene information

• Parental gene symbol: RANBP1
• Ensembl ID: ENSTSYG00000013573
• Aliases: None
• Description: RAN binding protein 1 [Source:HGNC Symbol;Acc:9847]

Sequence

>retro_tsyr_320
GAATTCCCAGAGGGAGGCACGGCTGATGTCAAGCTCCTCAAGCATAAGGAGAAGGGACCATCTGCCTCCTCTTGAGGAGG
GACGAGACTCTGAAGATCCACGCCCCACCACTACACCACGCCGATGATGGAGTTGAAGCCCAACACAGGCAGTGACAGTG
CCTGGGGCTGGAATGCCCACGCCGACTTTGCTGACGAGTGCTCCAAGCCGGAGCTGCTGGCCATTGGCTTCCTGAACGCT
GAGAATGCGCAGAAAAAGCAAAACAAAGCCTGAAGAGTGCGGGAGAGAAATAGAAGAGCAAGGAAAGAAAGGATCAGGCA
AGGACAATGGTGCCGAGGTGGCAGAAGGCTGGGAGGCTCTCTCAGGGAACCAAGACACCAAGGAGGAGGCTGAGGAGAAG
CAA

Alignment

ORF - retro_tsyr_320 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.09 %
• Parental protein coverage: 69.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EWKERGTGDVKLLKHKEKG-TIRLLMRRDKTLKICA-NHYITPMMELKPNAGSDRAWVWNTHADFADECP
          E..E.GT.DVKLLKHKEKG.TI.LL.RRD.TLKI.A..HY.TPMMELKPN.GSD.AW.WN.HADFADEC.
Retrocopy EFPEGGTADVKLLKHKEKG<TICLLLRRDETLKIHA>HHYTTPMMELKPNTGSDSAWGWNAHADFADECS

Parental  KPELLAIRFLNAENAQK-FKTKFEECRKEIEEREKKAGSGKDDGAEVAEKLEALSVKEETKEEAEEKQ
          KPELLAI.FLNAENAQK..KTK.EEC..EIEE..KK.GSGKD.GAEVAE..EALS....TKEEAEEKQ
Retrocopy KPELLAIGFLNAENAQK>SKTKPEECGREIEEQGKK-GSGKDNGAEVAEGWEALSGNQDTKEEAEEKQ

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_320 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 9 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010749	1 retrocopy	retro_cjac_2619,
Cavia porcellus	ENSCPOG00000002962	1 retrocopy	retro_cpor_1249,
Gorilla gorilla	ENSGGOG00000000784	1 retrocopy	retro_ggor_170,
Macropus eugenii	ENSMEUG00000016620	8 retrocopies	retro_meug_1064, retro_meug_1553, retro_meug_1670, retro_meug_1795, retro_meug_272, retro_meug_422, retro_meug_657, retro_meug_753,
Monodelphis domestica	ENSMODG00000010312	5 retrocopies	retro_mdom_1290, retro_mdom_1397, retro_mdom_1406, retro_mdom_1996, retro_mdom_288,
Sarcophilus harrisii	ENSSHAG00000006873	1 retrocopy	retro_shar_9,
Ictidomys tridecemlineatus	ENSSTOG00000026840	2 retrocopies	retro_itri_1579, retro_itri_345,
Tarsius syrichta	ENSTSYG00000013573	1 retrocopy	retro_tsyr_320 ,
Tursiops truncatus	ENSTTRG00000008142	2 retrocopies	retro_ttru_456, retro_ttru_890,