RetrogeneDB ID:

retro_tsyr_1212

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_34916:15684..16356(-)
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_1212
ATGGACGCCACGAAGCAGGTGGTCAACTTCAGACCTGGGCCCGCCAAGCTGCCACACTTGGTGTTGTTAGAGATACAAAA
AGAATTATTAGACTACAAAGGAGTTGGCATTAATGTTCTTGAAATGAGCCACAGGTCGTCAGATTTCGCCAAGATTATTA
GCAAGACAGAGAATCTTTTGCGGGAATTGTTAGCTGTTCTTGACAACTACAAGGTGATCTTTGTGCAAGCGGGTGGGTCT
GGCCAGTTCAGTGCTGTCCCCTTAAACCTGATGGGTCTGAAAGCAGGAAGGTGTGCTGTCTATGTGGTGACAGGAGCTTG
GTCAGCTAAAGCTGCAGAAGAAGTTAAGAAGTTTTGGACTGTGGATATCATCCACCCTAAACTTGGAAGTTACACGAAAC
ATTCCAGATCCGAGTACCTGGGACCTCCAACCCAGAAGCCTCCTACGTGTATTATTGCGCAAATGAGACCATGCACGGTG
TGAAGTTTGACTTCATACCTGATGCCAAGGGAGCGGTACTGGTTTGCAACATGTCCTCAAAATTTCTATCCAAGCCAGTG
AATGTTTCCTAGTTTGATGTGATTGTTGCTGTAGGCCACATTAATGGTGGTCCTGCTGGGAAAAACGGTTAAAATTATCC
GAAATGACCTGCCGAAATTAACGATCAGAAAA

ORF - retro_tsyr_1212 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.53 %
Parental protein coverage: 60.16 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMDAAKQVVNFGPGPAKLPPS-LLEIQKELLDYKGVGISVLEMSHRSSDFTKIISKTEKLLRELLAVPDNY
MDA.KQVVNF.PGPAKLP...LLEIQKELLDYKGVGI.VLEMSHRSSDF.KIISKTE.LLRELLAV.DNY
RetrocopyMDATKQVVNFRPGPAKLPHLVLLEIQKELLDYKGVGINVLEMSHRSSDFAKIISKTENLLRELLAVLDNY
ParentalKVIFVQGGGSGQFSAVPLNLIGLKAGRCADYVVTGAWSAKAAEEAKKFGTVNIVHPKLGSYTK-IPDPST
KVIFVQ.GGSGQFSAVPLNL.GLKAGRCA.YVVTGAWSAKAAEE.KKF.TV.I.HPKLGSYTK.IPDPST
RetrocopyKVIFVQAGGSGQFSAVPLNLMGLKAGRCAVYVVTGAWSAKAAEEVKKFWTVDIIHPKLGSYTK>IPDPST
ParentalWDL-SPEASYVYYCANETVHGVEFDFIPDVKGAVLVCDMSSNFLSKPVDVSKFGVILAGAQKNVGPA-GV
WDL..PEASYVYYCANET.HGV.FDFIPD.KGAVLVC.MSS.FLSKPV.VS.F.VI.A....N.GPA.G.
RetrocopyWDL>NPEASYVYYCANETMHGVKFDFIPDAKGAVLVCNMSSKFLSKPVNVS*FDVIVAVGHINGGPA>GK
ParentalTVVIVRDDLLGFALRE
TV.I.R.DL.....R.
RetrocopyTVKIIRNDLPKLTIRK

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






Tarsius syrichta was not studied using RNA-Seq expression data.
Tarsius syrichta was not studied using ChIP-Seq data.
Tarsius syrichta was not studied using EST data.
Tarsius syrichta was not studied using FANTOM5 data.
retro_tsyr_1212 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
Bos taurus ENSBTAG000000139601 retrocopy
Canis familiaris ENSCAFG000000015701 retrocopy
Choloepus hoffmanni ENSCHOG000000038171 retrocopy
Callithrix jacchus ENSCJAG000000033191 retrocopy
Echinops telfairi ENSETEG000000041581 retrocopy
Homo sapiens ENSG000001350693 retrocopies
Gorilla gorilla ENSGGOG000000154801 retrocopy
Loxodonta africana ENSLAFG000000179172 retrocopies
Macaca mulatta ENSMMUG000000118682 retrocopies
Mustela putorius furoENSMPUG000000125661 retrocopy
Nomascus leucogenys ENSNLEG000000029893 retrocopies
Oryctolagus cuniculus ENSOCUG000000077651 retrocopy
Pongo abelii ENSPPYG000000193133 retrocopies
Pan troglodytes ENSPTRG000000210452 retrocopies
Rattus norvegicus ENSRNOG000000139711 retrocopy
Tupaia belangeri ENSTBEG000000129461 retrocopy
Tarsius syrichta ENSTSYG00000000093 2 retrocopies
retro_tsyr_1073, retro_tsyr_1212 ,



Copyright © RetrogeneDB 2014-2017