RetrogeneDB ID:

retro_shar_809

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL865180.1:87062..87423(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CENPH
Ensembl ID:ENSSHAG00000007822
Aliases:None
Description:centromere protein H [Source:HGNC Symbol;Acc:17268]


Retrocopy-Parental alignment summary:






>retro_shar_809
ATGGTTCAACTGCTGCTCAGAATGAAGAAGCGAATTAAAGGACAACAACTGGACTAGAAGGCGGGGGGCGGAGCAAGTTA
AGTGAGTGAGTCCTGCGGGGGAATGTGCAGAAGATAGCTGGATTCAAAGGCTTGAAGATCTAGAAAGAAAATAGGAGAAA
TGAAGATTAGTTAGAAGCAAAACCTGTAGCTTTACAAAGGATCCGGGTGGCTCCCGCCTTGGAGAAAAAGCTGGGAAAAG
GGGATGGTGATTTTGAACCAATCTTGGCAATTATGAAAAACATTTTAACTGTTAATGGTTCAATCCTCAAACCCAGCAGC
TAACTCGGGACTTGGAGGAGAAAATCCTGGAAGTTAAGAAG

ORF - retro_shar_809 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.8 %
Parental protein coverage: 57.69 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMVRQLLRLK-NQIKQQLLEYKAEVEASK-MSPTEECTEDNLIQKIEDLERKME-DMKIE-LEAKTLALKR
MV..LLR.K....K..........E..K..SP..EC.ED..IQ..EDLERK.E..MKI..LEAK..AL.R
RetrocopyMVQLLLRMK>SELKDNNWTRRRGAEQVK*VSPAGECAEDSWIQRLEDLERK*E<EMKIS<LEAKPVALQR
ParentalIQVAHALEKKLEKKDADFEPILAIMKNILTVNGSILK-AQQLTRDLEEKMLEVKK
I.VA.ALEKKL.K.D.DFEPILAIMKNILTVNGSILK..QQLTRDLEEK.LEVKK
RetrocopyIRVAPALEKKLGKGDGDFEPILAIMKNILTVNGSILK<TQQLTRDLEEKILEVKK

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






Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_809 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii 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 7 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000077171 retrocopy
Choloepus hoffmanni ENSCHOG000000113382 retrocopies
Monodelphis domestica ENSMODG000000256011 retrocopy
Mustela putorius furoENSMPUG000000146461 retrocopy
Sarcophilus harrisii ENSSHAG00000007822 4 retrocopies
Tupaia belangeri ENSTBEG000000118672 retrocopies
Tarsius syrichta ENSTSYG000000020981 retrocopy



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