RetrogeneDB ID:

retro_mmur_1289

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:scaffold_40129:8038..8494(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS3A
Ensembl ID:ENSMICG00000004921
Aliases:None
Description:ribosomal protein S3A [Source:HGNC Symbol;Acc:10421]


Retrocopy-Parental alignment summary:






>retro_mmur_1289
TGCTCTGTGGTCAAAAAATGGCAGAGCAGATATGAAGTTTATGTTGATATCAGAACTACTGACAGCTATGCGCTTCATCT
GTTCTGTGTTGGTTTAGTAAAGAATGGAACGATCAGATTCTGATGATCTCTTGTACTTGGCACCTACAGGTCTGCCAAAT
TTGAGAGAAGATGATGGAAATCATGATTCCAGAGATACAGACACATGCTTGGAAAGGAGTGGCCAATGAATGGATTGCAG
GAAGCAGTGGGAAAGACATAGAAGAGGTTTGCCCCTGTAGTTATACCCTCTATTAAGGTGTTCATTATACAAATGCTAAA
GAAGCCCAAGTTTGAATTGAGAAAACTCATGGAGCCTCCTGGTGAAGGTGGTAGTTTGGGAAATGCTACCAGGGATGAGA
AAGATGCTAAAATTGAATGAGCGGATAGATAAGAGCCACTGGTCTGAGACTCTGTT

ORF - retro_mmur_1289 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.77 %
Parental protein coverage: 58.33 %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalCSMVKKWQTMIEAHVDVKTTDGYLLRLFCVG-FTKKRNNQIRKTSYAQHQQVRQIRKKMMEIMTREVQTN
CS.VKKWQ...E..VD..TTD.Y.L.LFCVG.F.K..N.QI...S...H.QV.QI..KMMEIM..E.QT.
RetrocopyCSVVKKWQSRYEVYVDIRTTDSYALHLFCVG<FSKEWNDQILMISCTWHLQVCQI*EKMMEIMIPEIQTH
ParentalDLKEVVNKLIPDSIGKDIEKACQSIYPLH-DVFVRKVKMLKKPKFELGKLMELHGEGSSSGKATGDETGA
..K.V.N..I..S.GKDIE..C...Y.L...VF.....MLKKPKFEL.KLME..GEG.S.G.AT.DE..A
RetrocopyAWKGVANEWIAGSSGKDIEEVCPCSYTLY>KVFI--IQMLKKPKFELRKLMEPPGEGGSLGNATRDEKDA
ParentalKVERADGYEPPVQESV
K.E.AD..EP.V..SV
RetrocopyKIE*ADR*EPLV*DSV

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_1289 retrocopy.
Microcebus murinus was not studied using FANTOM5 data.
retro_mmur_1289 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 12 parental genes, and 58 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001842511 retrocopies
Bos taurus ENSBTAG000000099083 retrocopies
Canis familiaris ENSCAFG000000079907 retrocopies
Callithrix jacchus ENSCJAG000000022687 retrocopies
Microcebus murinus ENSMICG00000004921 9 retrocopies
Macaca mulatta ENSMMUG000000218211 retrocopy
Monodelphis domestica ENSMODG000000009696 retrocopies
Mus musculus ENSMUSG000000280812 retrocopies
Oryctolagus cuniculus ENSOCUG000000070111 retrocopy
Rattus norvegicus ENSRNOG000000118931 retrocopy
Sarcophilus harrisii ENSSHAG000000150882 retrocopies
Vicugna pacos ENSVPAG000000042358 retrocopies



Copyright © RetrogeneDB 2014-2017