RetrogeneDB ID:

retro_tsyr_387

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_107678:6523..6916(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CDC42
Ensembl ID:ENSTSYG00000000679
Aliases:None
Description:cell division cycle 42 [Source:HGNC Symbol;Acc:1736]


Retrocopy-Parental alignment summary:






>retro_tsyr_387
ATGCAGGCTACCAAGTGTGTGGTGGTTGGAGATGGAACTGTAAGTAAAACTTGTCTACTGATCAGTTACACAACCAATGC
ATTTCCTGGAGAATATATCACTACTGTCTTGGACAATTATTCTGCCAATGTCATGGTAGATGGAAAACCAGTGAATCTGG
GCTTATGGAATACAACTGGACAAGAAGATTATGACAGATTATGCCCTTTGTCTTATCCACAAAAAGATGTATTCTTAATT
TGTTTTTCCCTTGTGAGTCCTACATCATTTGAAAATGTCCATGCAAAGGGGTATCCTGAAGTGCAGCACAATTTTCCCAA
CACTCCCATCATCCTTTTGGAAACTAATCTTGATCTTAGGCATGATAAAGACACAATTGAGAAGCTGAAGAAG

ORF - retro_tsyr_387 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.41 %
Parental protein coverage: 68.59 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPL
MQ..KCVVVGDG.V.KTCLLISYTTN.FP.EY..TV.DNY...VM..G.P..LGL..T.GQEDYDRL.PL
RetrocopyMQATKCVVVGDGTVSKTCLLISYTTNAFPGEYITTVLDNYSANVMVDGKPVNLGLWNTTGQEDYDRLCPL
ParentalSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAK
SYPQ.DVFL.CFS.VSP.SFENV..K..PE..H..P.TP..L..T..DLR.D..TIEKL.K
RetrocopySYPQKDVFLICFSLVSPTSFENVHAKGYPEVQHNFPNTPIILLETNLDLRHDKDTIEKLKK

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_387 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 70 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000147075 retrocopies
Choloepus hoffmanni ENSCHOG0000000530610 retrocopies
Callithrix jacchus ENSCJAG000000059126 retrocopies
Cavia porcellus ENSCPOG000000065434 retrocopies
Dipodomys ordii ENSDORG000000103743 retrocopies
Equus caballus ENSECAG000000191801 retrocopy
Echinops telfairi ENSETEG000000044431 retrocopy
Felis catus ENSFCAG000000048534 retrocopies
Macaca mulatta ENSMMUG000000220098 retrocopies
Monodelphis domestica ENSMODG000000160783 retrocopies
Oryctolagus cuniculus ENSOCUG000000099861 retrocopy
Otolemur garnettii ENSOGAG000000142611 retrocopy
Sorex araneus ENSSARG000000051843 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000008054 retrocopies
Tarsius syrichta ENSTSYG00000000679 11 retrocopies
Tarsius syrichta ENSTSYG000000016182 retrocopies
Tarsius syrichta ENSTSYG000000028371 retrocopy
Tursiops truncatus ENSTTRG000000057082 retrocopies



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