RetrogeneDB ID:

retro_chof_131

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:GeneScaffold_2827:30710..31151(-)
Located in intron of:ENSCHOG00000006855
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:STX17
Ensembl ID:ENSCHOG00000013030
Aliases:None
Description:syntaxin 17 [Source:HGNC Symbol;Acc:11432]


Retrocopy-Parental alignment summary:






>retro_chof_131
TTGAAAGTCTGAAAGGATAACCTAGGACTTCTGAAGAGAAATGATAGTTCCTGTTAAAGAGGAAGCATCAGCAGCAGCTG
CAGAATTTCTCCAACTCCATTTGAAATACCTAGACGAACTTAAGAAACAGTTTAATGATGAAGAAACTTTATTGCAGCCT
TCTTTGACCAGATGCATAATTGTTAGTGGAACATTTCTCACTACTGACACTGAAACAGGTCCTCAGAGTTGACTCAGATA
TATGTGTTGCCTGAAATTCCTTGAGATCAAAATGCTGCAGAATCATGGAAAACCTTATAAGCGGACTTATTTGAACTTAG
CCAACTGGTCACTGATTTCTCTCTCCTAGTGAATACTCAGCAGGAGAAGTTTGACAGCATTGAAGACCATGTCAACAATG
CTGCTGTGAATGTTGAAGAGGGAATCAAAAACTTGGGGAAG

ORF - retro_chof_131 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.85 %
Parental protein coverage: 65.92 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLKVRKEDLVLLKR-MIDPVKEEASAATAEFLQLHLESVEELKKQVNDEDTLLQPSLTRSMTVGGTFHSTD
LKV.K..L.LLKR.MI.PVKEEASAA.AEFLQLHL....ELKKQ.NDE.TLLQPSLTR...V.GTF..TD
RetrocopyLKV*KDNLGLLKR>MIVPVKEEASAAAAEFLQLHLKYLDELKKQFNDEETLLQPSLTRCIIVSGTFLTTD
ParentalAEASPQS-LTQIYALPEIPRDQYAAESWETLEADLIELSQLVTDFSLLVNAQQEKIDSIEDHVNSAAVNV
.E..PQS.LTQIY.LPEIP.DQ.AAESW.TL.ADL.ELSQLVTDFSLLVN.QQEK.DSIEDHVN.AAVNV
RetrocopyTETGPQS<LTQIYVLPEIP*DQNAAESWKTL*ADLFELSQLVTDFSLLVNTQQEKFDSIEDHVNNAAVNV
ParentalEEGTKNLGK
EEG.KNLGK
RetrocopyEEGIKNLGK

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






Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_131 was not experimentally validated.

Retrocopy orthology:
Choloepus hoffmanni 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 4 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000080161 retrocopy
Choloepus hoffmanni ENSCHOG00000013030 1 retrocopy
retro_chof_131 ,
Myotis lucifugus ENSMLUG000000117451 retrocopy
Tursiops truncatus ENSTTRG000000169201 retrocopy



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