RetrogeneDB ID:

retro_tsyr_1073

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_29667:9577..10693(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PSAT1
Ensembl ID:ENSTSYG00000000093
Aliases:None
Description:phosphoserine aminotransferase 1 [Source:HGNC Symbol;Acc:19129]


Retrocopy-Parental alignment summary:






>retro_tsyr_1073
ATGGACGCCACGAAGCAGGTGGTAAACTTTCATGTCTGGACCCGCCAAGCTGCCGCACTCGGTGTAGTTCGAGATTAAAA
AAAAAGAATTATTAGACTACAAAGGAGTTGACATTAATATTCTTGAAATGAACCACAGGTCATCAGATTTCGCCAAGATT
ATTAACAAAACAGAGAATCTTTTGCAGGACTTGTTAGCTGTTTTTGACAACTACAAGGTGATCTTTGTGTAAGGAGGTGG
GTCTGACCAGTTCAATGGTGTCCCCTTAAACCTTATTGGTCTGAAAGCAGGAGGGTGTGCTGACTACATGGTGACAGGCG
CTTGGTCAGCTAAGACTGCAGAAGAAGCTAAGAAGTTTGGGACTGTGAATATTGTCCACCCTAAACTTGGAAGTTATACA
AAAATTTCAGATCCAAGTACCTGGGATCTCAACCTGGAAGCCTCCTATGTGCATTATTGTGCAAATGAGACCATGCACGG
TGTGGAGTTTGACTTCATACCTGATGTCAAGGGAGTAGTACTGGTTTGCAACATGTCCTCAAACTTTCTATCCAAGCCAG
TGGATGTTTCCACGTTTGGTGCGATTTTTTGCTGGGGCCCAGAAGAATGTTGGCCCTGTTGGTGTCACCGTGGTAATCGT
CCGTGATGACCTGCTGGGGTTCGCCCTCAGAGAGTGCCCCTCGGTCCTGTAATACAAGGTGCTGGCTGACAGCAACTCCT
TGTATAGCATGCCTCCATGAATCAGCATTTATGTCATGAGCTTGTTCCTGGAGTGGATTAAGAACAACAGAGGTATCGCA
GCCGTGGAGAAGCTAAACTTCATCAAATACCAAATGATTTATGAGATTATTGATCATTCTCAAGGCTTCTACATATGTTC
GGTGGAATCCCAAAATAGGAGCAAGATGAATATTCCATTCCGCATTGGCAATGCCAAAGGAGATAATGCTTTAGAAAACA
ACATTTCTTGACAAACCTCTTGAGCTCAATATGATCTCCTTGAAAGGGCATAGGTTTGTGGGTGCCATCTGGGTCTCTCT
GTATAAGGTCATCACACTCGAAGATATCCAGAAGCTAGCCACATTCATGAAAAAATTTTTGGAGATGCATCAGCTG

ORF - retro_tsyr_1073 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.21 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 4
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalMDAAKQVVNFG-PGPAKLPPSL-LEIQK-ELLDYKGVGISVLEMSHRSSDFTKIISKTEKLLRELLAVPD
MDA.KQVVNF...GPAKLP.S...EI...ELLDYKGV.I..LEM.HRSSDF.KII.KTE.LL..LLAV.D
RetrocopyMDATKQVVNFH>SGPAKLPHSV*FEIXXXELLDYKGVDINILEMNHRSSDFAKIINKTENLLQDLLAVFD
ParentalNYKVIFVQGGGSGQFSAVPLNLIGLKAGRCADYVVTGAWSAKAAEEAKKFGTVNIVHPKLGSYTKIPDPS
NYKVIFV.GGGS.QF..VPLNLIGLKAG.CADY.VTGAWSAK.AEEAKKFGTVNIVHPKLGSYTKI.DPS
RetrocopyNYKVIFV*GGGSDQFNGVPLNLIGLKAGGCADYMVTGAWSAKTAEEAKKFGTVNIVHPKLGSYTKISDPS
ParentalTWDLSPEASYVYYCANETVHGVEFDFIPDVKGAVLVCDMSSNFLSKPVDVSKFGVI-LAGAQKNVGPAGV
TWDL..EASYV.YCANET.HGVEFDFIPDVKG.VLVC.MSSNFLSKPVDVS.FG.I..AGAQKNVGP.GV
RetrocopyTWDLNLEASYVHYCANETMHGVEFDFIPDVKGVVLVCNMSSNFLSKPVDVSTFGAI>FAGAQKNVGPVGV
ParentalTVVIVRDDLLGFALRECPSVLEYKVLAGNNSLYNTPPCFSIYVVGLVLEWIKNNGGAAAMEKLSSIKSQM
TVVIVRDDLLGFALRECPSVL.YKVLA..NSLY..PP..SIYV..L.LEWIKNN.G.AA.EKL..IK.QM
RetrocopyTVVIVRDDLLGFALRECPSVL*YKVLADSNSLYSMPP*ISIYVMSLFLEWIKNNRGIAAVEKLNFIKYQM
ParentalIYEIIDNSQGFYVCLVESQNRSKMNIPFRIGSAKGDDALEKR-FLDKALELNMISLKGHRSVGGIRVSLY
IYEIID.SQGFY.C.VESQNRSKMNIPFRIG.AKGD.ALE...FLDK.LELNMISLKGHR.VG.I.VSLY
RetrocopyIYEIIDHSQGFYICSVESQNRSKMNIPFRIGNAKGDNALENN>FLDKPLELNMISLKGHRFVGAIWVSLY
ParentalNAITIEDVQKLAAFMKNFLEMHQL
..IT.ED.QKLA.FMK.FLEMHQL
RetrocopyKVITLEDIQKLATFMKKFLEMHQL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tarsius syrichta was not studied using ChIP-Seq data.

EST - click to see more details

Tarsius syrichta was not studied using EST data.

TSS - click to see more details

Tarsius syrichta was not studied using FANTOM5 data.

Lab - click to see more details

retro_tsyr_1073 was not experimentally validated.

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 18 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000068981 retrocopy
retro_amel_375,
Bos taurus ENSBTAG000000139601 retrocopy
retro_btau_1658,
Canis familiaris ENSCAFG000000015701 retrocopy
retro_cfam_269,
Choloepus hoffmanni ENSCHOG000000038171 retrocopy
retro_chof_2702,
Callithrix jacchus ENSCJAG000000033191 retrocopy
retro_cjac_1203,
Echinops telfairi ENSETEG000000041581 retrocopy
retro_etel_99,
Homo sapiens ENSG000001350693 retrocopies
retro_hsap_2267, retro_hsap_4054, retro_hsap_412,
Gorilla gorilla ENSGGOG000000154801 retrocopy
retro_ggor_407,
Loxodonta africana ENSLAFG000000179172 retrocopies
retro_lafr_1249, retro_lafr_660,
Macaca mulatta ENSMMUG000000118682 retrocopies
retro_mmul_1029, retro_mmul_2341,
Mustela putorius furoENSMPUG000000125661 retrocopy
retro_mputfur_808,
Nomascus leucogenys ENSNLEG000000029893 retrocopies
retro_nleu_1010, retro_nleu_1288, retro_nleu_2805,
Oryctolagus cuniculus ENSOCUG000000077651 retrocopy
retro_ocun_1092,
Pongo abelii ENSPPYG000000193133 retrocopies
retro_pabe_1950, retro_pabe_308, retro_pabe_3328,
Pan troglodytes ENSPTRG000000210452 retrocopies
retro_ptro_1606, retro_ptro_316,
Rattus norvegicus ENSRNOG000000139711 retrocopy
retro_rnor_1663,
Tupaia belangeri ENSTBEG000000129461 retrocopy
retro_tbel_1577,
Tarsius syrichta ENSTSYG00000000093 2 retrocopies
retro_tsyr_1073 , retro_tsyr_1212,


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