RetrogeneDB ID: retro_tsyr_1918

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_6662:24002..24826(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DRG1
• Ensembl ID: ENSTSYG00000010160
• Aliases: None
• Description: developmentally regulated GTP binding protein 1 [Source:HGNC Symbol;Acc:3029]

Sequence

>retro_tsyr_1918
TTGGGTTTTCCATCTGTGGAGAAGTCATCACTTCTTAGTAACCTGGTAGGGGAACTTTCTGAGATGGCAACCTACGAATT
CCCTACTCTGACCACTGTGCCTAGTGTCATCAGATTCAAAGATGCCAAGATCCAGCTCCTATATCTCCCAGGTATCATTG
AAGGTACCAGGATAGGAAAGGTAGAGGCTATCATGTCACTGCAGTGGCCTGAACCTGTAATTTGATCCTGATTGTCCTGG
ATGTCCTGAAACTGTTTGGACATAAGAAGATAATTAAAAATAAGCTGGAAAGCTGTAGTATTCGCTTGAACAGCAAGCCT
CCTGACATTGGCTTTAAGAAGAAGAACAAGGGACGTATTAATCTCACAGTCAGTTGCCCTCAGAGTGAGCTGGATGCTGA
AACTGTGAAGAGCATTCTGGCTGAATACAAAATTCATAATGCCATTGTGATTCTGTGTAGCAATGCCACAGCTGATGACC
TTATTGATGTGGTGGAAGGGAACAAAGTTTATATCCTCTGTATTTACATGTTAAAAAAGATTGACCAAATCTCCACTGAG
GAATTGGATATCACATATTAGGTATCTCACTGTGTACCCATCTCCGCCCATCACAACTGGAATTTTGATGACCTGTTGGA
AAAGATCTGGGACAATCTAAAACTAGTAAGAATTTACACCAAACCCAAAAACCAGTTGTCAGTTTACACATCCCCAGGGG
TGCTGCCTTCCGCCAGGACCATGGTAGAGGATTTATGCATAAAGATTTACAAAAAGCATATTAAAGAATTTAAATGCTCT
CTGATCTGGGTTCTCTCTGTGAAA

Alignment

ORF - retro_tsyr_1918 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.17 %
• Parental protein coverage: 74.93 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VGFPSVGKSTLLSNLAGVYSEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAK-DGKGRGRQVIAV
          .GFPSV.KS.LLSNL.G..SE.A.YEF.TLTTVP.VIR.K.AKIQLL.LPGIIEG...D.KGRG..V.AV
Retrocopy LGFPSVEKSSLLSNLVGELSEMATYEFPTLTTVPSVIRFKDAKIQLLYLPGIIEGTR<DRKGRGYHVTAV

Parental  ARTCNLILIVLDVLKPLGHKKIIENELEGFGIRLNSKPPNIGFKKKDKGGINLTATCPQSELDAETVKSI
          A.TCNLILIVLDVLK..GHKKII.N.LE...IRLNSKPP.IGFKKK.KG.INLT..CPQSELDAETVKSI
Retrocopy A*TCNLILIVLDVLKLFGHKKIIKNKLESCSIRLNSKPPDIGFKKKNKGRINLTVSCPQSELDAETVKSI

Parental  LAEYKIHNADVTLRSDATADDLIDVVEGNRVYIPCIYVLNKIDQISIEELDIIYKVPHCVPISAHHRWNF
          LAEYKIHNA.V.L.S.ATADDLIDVVEGN.VYI.CIY.L.KIDQIS.EELDI.Y.V.HCVPISAHH.WNF
Retrocopy LAEYKIHNAIVILCSNATADDLIDVVEGNKVYILCIYMLKKIDQISTEELDITY*VSHCVPISAHHNWNF

Parental  DDLLEKIWDYLKLVRIYTKPKGQLPDYTSPVVLPYSRTTVEDFCMKIHKNLIKEFKYALVWGLSVK
          DDLLEKIWD.LKLVRIYTKPK.QL..YTSP.VLP..RT.VED.C.KI.K..IKEFK..L.W.LSVK
Retrocopy DDLLEKIWDNLKLVRIYTKPKNQLSVYTSPGVLPSARTMVEDLCIKIYKKHIKEFKCSLIWVLSVK

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_1918 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 17 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000007040	1 retrocopy	retro_amel_1448,
Canis familiaris	ENSCAFG00000032601	6 retrocopies	retro_cfam_1535, retro_cfam_1807, retro_cfam_382, retro_cfam_415, retro_cfam_453, retro_cfam_607,
Ciona intestinalis	ENSCING00000003305	1 retrocopy	retro_cint_1,
Callithrix jacchus	ENSCJAG00000011009	4 retrocopies	retro_cjac_1104, retro_cjac_2246, retro_cjac_2606, retro_cjac_855,
Cavia porcellus	ENSCPOG00000010791	1 retrocopy	retro_cpor_1401,
Ciona savignyi	ENSCSAVG00000006503	1 retrocopy	retro_csav_10,
Dasypus novemcinctus	ENSDNOG00000001312	1 retrocopy	retro_dnov_531,
Homo sapiens	ENSG00000185721	1 retrocopy	retro_hsap_2231,
Gorilla gorilla	ENSGGOG00000011185	1 retrocopy	retro_ggor_1665,
Myotis lucifugus	ENSMLUG00000007033	1 retrocopy	retro_mluc_1447,
Macaca mulatta	ENSMMUG00000019099	1 retrocopy	retro_mmul_999,
Mustela putorius furo	ENSMPUG00000012810	1 retrocopy	retro_mputfur_339,
Mus musculus	ENSMUSG00000020457	1 retrocopy	retro_mmus_2366,
Nomascus leucogenys	ENSNLEG00000027001	1 retrocopy	retro_nleu_2627,
Pan troglodytes	ENSPTRG00000014272	1 retrocopy	retro_ptro_1578,
Ictidomys tridecemlineatus	ENSSTOG00000014187	1 retrocopy	retro_itri_460,
Tarsius syrichta	ENSTSYG00000010160	3 retrocopies	retro_tsyr_1374, retro_tsyr_1918 , retro_tsyr_405,