RetrogeneDB ID:

retro_tsyr_1117

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_31108:3529..3984(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SAP18
Ensembl ID:ENSTSYG00000005454
Aliases:None
Description:Sin3A-associated protein, 18kDa [Source:HGNC Symbol;Acc:10530]


Retrocopy-Parental alignment summary:






>retro_tsyr_1117
ATGGCGGTGGAGTCGCGCGTGGCCATCCAGGAGATCAAGAAGGAGTCAGAGAAACCGATCCACCCAAGAAGACATGCCCG
CTGCTGCTACGTGTCCTTACCACCCCAACCGCTGCCCCCACCACATGATGAGTTCTCCCGCAGGAACGTGCTGTCCAGCG
AGCTGCAGATGTGCATCTGGATAGATGCAACCTTGAAAGAACTGCCTAGTTTAGTGAAAGAAATCTACCCAGAAGCTAGA
AAGAAGGGCACACACTTCAATTTTGCCATCGTTTTCACCAATGTCAAAAGACCTGGCTACCGAGTTAAGGAGATCGGCAG
CACCATGTCTGGCACAAAGGGGACTGATGGCTCTATGACGCCACAGTCGCAGAAGTTTCAGATACCAAATTATTTGGACA
TGGTGTCACCCCCCCAAACCCAGGTACCACCCACTTGGGGCGCATGAGACCATAT

ORF - retro_tsyr_1117 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.52 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMAVESRVTQEEIKKEPEKPIDR-EKTCPLLLRVFTTN-NGRHHRM-DEFSRGNVPSSELQIYTWMDATLK
MAVESRV...EIKKE.EKPI....KTCPLLLRV.TT..N...H.M.DEFSR.NV.SSELQ...W.DATLK
RetrocopyMAVESRVAIQEIKKESEKPIHP<KKTCPLLLRVLTTP<NRCPHHM<DEFSRRNVLSSELQMCIWIDATLK
ParentalELTSLVKEVYPEARKKGTHFNFAIVFTDVKRPGYRVKEIGSTMSGRKGTDDSMTLQSQKFQIGDYLDIAI
EL.SLVKE.YPEARKKGTHFNFAIVFT.VKRPGYRVKEIGSTMSG.KGTD.SMT.QSQKFQI..YLD...
RetrocopyELPSLVKEIYPEARKKGTHFNFAIVFTNVKRPGYRVKEIGSTMSGTKGTDGSMTPQSQKFQIPNYLDMVS
ParentalTPPNRAPPT-SGRMRPY
.P....PPT..GRMRPY
RetrocopyPPQTQVPPT<LGRMRPY

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_1117 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 6 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Erinaceus europaeus ENSEEUG000000063091 retrocopy
Mustela putorius furoENSMPUG000000006071 retrocopy
Mus musculus ENSMUSG000000219631 retrocopy
Pteropus vampyrus ENSPVAG000000163152 retrocopies
Rattus norvegicus ENSRNOG000000107321 retrocopy
Tarsius syrichta ENSTSYG00000005454 22 retrocopies



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