RetrogeneDB ID:

retro_mmur_1500

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:scaffold_71204:4277..4814(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX3
Ensembl ID:ENSMICG00000006998
Aliases:None
Description:chromobox homolog 3 [Source:HGNC Symbol;Acc:1553]


Retrocopy-Parental alignment summary:






>retro_mmur_1500
GCCTCCAGTAAAACTACATTGCAAAAACAGGAAAGAAACAGAAGGGGAAGAGTGAAAAGGTTGAAGAGGCGGAGACTGAA
GACTTTGTGATGGAAAAGTACTGGATCGATGTGTAGTGAATGGAAAGTGGAGTGTTTCCTGCAGTGGAAGGGATTTGCAG
ATGCTGACAGTACTTGGGAACCTGAGGAAAATTCGGATTGTCCAGAGTTAATTGAAGCATTTCTTAATTCTCAAAAAGCT
GGTAAAGAAAAAGGTCGTACAAAAAGAAAATCTTTATCTGACAGTGAATGTGCTGATAGCAAAATCAAAGAAGAAAAGAC
GCTGCTGACTAACCAAGAGGCTTTGCTGTAGGTCTCGGTCCTGAAGGAATGATGGGTGGCACAGGCAGAGTGGGGAAGTC
GTGTTCCTCGCGGAAGGGAAGGATTCACGGAGGCAGATCTGGTGCCGGCAACAGAGGCAAATGTGAGTGTCCCCAAGTTG
TGATTGCGTTTATGAAGAGAGATTAACTTGGCACTCTCCCCAGAGGCTGAAGCTCAA

ORF - retro_mmur_1500 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.77 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 9


Retrocopy - Parental Gene Alignment:

ParentalASNKTTLQKM-GKKQNGKSKKVEEAEPEEFVVEK-VLDRRVVNGK-VEYFLKWKGFTDADNTWEPEENLD
AS.KTTLQK..GKKQ.GKS.KVEEAE.E.FV.EK.VLDR.VVNGK.VE.FL.WKGF.DAD.TWEPEEN.D
RetrocopyASSKTTLQKQ<GKKQKGKSEKVEEAETEDFVMEK<VLDRCVVNGK<VECFLQWKGFADADSTWEPEENSD
ParentalCPELIEAFLNSQKAGKEKDGTKRKSLSDSESDDSKSK-KKRDAADKPRGFARGLDPERIIGATD-SSGEL
CPELIEAFLNSQKAGKEK..TKRKSLSDSE..DSK.K....DAAD.PRGFA.GL.PE...G.T...SGE.
RetrocopyCPELIEAFLNSQKAGKEKGRTKRKSLSDSECADSKIK<RRKDAAD*PRGFAVGLGPEGMMGGTG<QSGEV
ParentalMFLMKWKDS-DEADLVLAKEANM-KCPQIVIAF-YEERLTWHS-CPEDEAQ
.FL...KDS..EADLV.A.EAN...CPQ.VIAF.YEERLTWHS..PE.EAQ
RetrocopyVFLAEGKDS<TEADLVPATEANV<ECPQVVIAF<YEERLTWHS<SPEAEAQ

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_1500 retrocopy.
Microcebus murinus was not studied using FANTOM5 data.
retro_mmur_1500 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 7 parental genes, and 54 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG0000000625019 retrocopies
Felis catus ENSFCAG000000152246 retrocopies
Microcebus murinus ENSMICG00000006998 11 retrocopies
Microcebus murinus ENSMICG000000095104 retrocopies
Ochotona princeps ENSOPRG000000117139 retrocopies
Sarcophilus harrisii ENSSHAG000000179131 retrocopy
Sus scrofa ENSSSCG000000167114 retrocopies



Copyright © RetrogeneDB 2014-2017