RetrogeneDB ID:

retro_mmur_853

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:scaffold_11136:2986..3519(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HMGB3
Ensembl ID:ENSMICG00000015668
Aliases:None
Description:high mobility group box 3 [Source:HGNC Symbol;Acc:5004]


Retrocopy-Parental alignment summary:






>retro_mmur_853
ATGGCTAAAGGTGACCCCAATAAACCAAAGGGGAAGATGTCTGCTTATGCCTTCTTTGTGCAGACGTGCAGAGAAGAACA
TAAGAAGAAAAACCCAGAGGACCCTGTCAATTTTGCAGAATTTTCCAAGAAGTGCTCTGAGAGGTGGAAGACAATGTCTG
GGAAAGAGAAGTCTAAATTTGATGAAATGGCAAAGGCGGATAAAGTCCGCTATGATCGGGAAATGAAGGATTATGGACCA
GCTAAGGGAGGAAAGAAGAAGAAGGACCCTAATGCCCCCAAAAGGCCACCGTCTGGATTCTTCCTGTTCTGTTCAGAATT
CCGCCCCAAGATCAAATCTACAAACCCTGGCATCTCTATTGGAGATGTGGCAAAAAAGCTGGGTGAGATGTGGAATAACT
TAAGTGACAGTGAAAAGCAGCCTTACATCACTAAGGCTGCAAAGCTGAAGGAGAAGTATGAGAAGGATGTGCTGACTATA
AGTCTAAAGGAAAGTTTGATGGCGCAAAGGGTCCCGCTAAAGTTGCCCGGAAA

ORF - retro_mmur_853 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.41 %
Parental protein coverage: 91.75 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADKVR
MAKGDP.KPKGKMSAYAFFVQTCREEHKKKNPE.PVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADKVR
RetrocopyMAKGDPNKPKGKMSAYAFFVQTCREEHKKKNPEDPVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADKVR
ParentalYDREMKDYGPAKGGKKKKDPNAPKRPPSGFFLFCSEFRPKIKSTNPGISIGDVAKKLGEMWNNLSDSEKQ
YDREMKDYGPAKGGKKKKDPNAPKRPPSGFFLFCSEFRPKIKSTNPGISIGDVAKKLGEMWNNLSDSEKQ
RetrocopyYDREMKDYGPAKGGKKKKDPNAPKRPPSGFFLFCSEFRPKIKSTNPGISIGDVAKKLGEMWNNLSDSEKQ
ParentalPYITKAAKLKEKYEK-XXXXYKSKGKFDGAKGPNKIAQK
PYITKAAKLKEKYEK.....YKSKGKFDGAKGP.K.A.K
RetrocopyPYITKAAKLKEKYEK<GCADYKSKGKFDGAKGPAKVARK

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






Microcebus murinus was not studied using RNA-Seq expression data.
Microcebus murinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmur_853 retrocopy.
Microcebus murinus was not studied using FANTOM5 data.
retro_mmur_853 was not experimentally validated.

Retrocopy orthology:
Microcebus murinus 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 22 parental genes, and 78 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000051502 retrocopies
Canis familiaris ENSCAFG000000287151 retrocopy
Choloepus hoffmanni ENSCHOG000000050052 retrocopies
Cavia porcellus ENSCPOG000000006012 retrocopies
Equus caballus ENSECAG000000205961 retrocopy
Echinops telfairi ENSETEG000000156894 retrocopies
Felis catus ENSFCAG000000246244 retrocopies
Loxodonta africana ENSLAFG000000258771 retrocopy
Microcebus murinus ENSMICG000000005731 retrocopy
Microcebus murinus ENSMICG000000071447 retrocopies
Microcebus murinus ENSMICG00000015668 4 retrocopies
Myotis lucifugus ENSMLUG000000109264 retrocopies
Monodelphis domestica ENSMODG000000057357 retrocopies
Mustela putorius furoENSMPUG000000116062 retrocopies
Oryctolagus cuniculus ENSOCUG000000059867 retrocopies
Procavia capensis ENSPCAG000000019451 retrocopy
Pteropus vampyrus ENSPVAG000000002191 retrocopy
Sarcophilus harrisii ENSSHAG000000029162 retrocopies
Sus scrofa ENSSSCG000000127453 retrocopies
Tupaia belangeri ENSTBEG0000000306818 retrocopies
Tursiops truncatus ENSTTRG000000002052 retrocopies
Vicugna pacos ENSVPAG000000000962 retrocopies



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