RetrogeneDB ID:

retro_sara_676

Retrocopy
location
Organism:Shrew (Sorex araneus)
Coordinates:scaffold_256985:242811..243243(+)
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:ENSSARG00000000717
Aliases:None
Description:ribosomal protein S3A [Source:HGNC Symbol;Acc:10421]


Retrocopy-Parental alignment summary:






>retro_sara_676
ACCATGACTGAAACCCACATTGATGTCAAGACGATTGATAGTTATTTGATGGTCGAATCTATTGCTTTCATGAAGAAATG
CAACCACCCGATTCTGAAGACCTCTTATGCTCAGCAACAGCAAGTCACCAGATCCTGAAGATGATGGAAATCATGACCCC
AACGATGCAAAAAAAATGACGTGAAAAAGGCGGTTGATAAATTGATTTCAGACAGTTTTAGGAAAAGATATAGAAAAAGC
TCACCAATTGATTTACCTGGTTCATATCTTTTTCAGAAAAATTTAAAAGCTGAAGCTCAAGTTTGAATTGGGAAATCTTG
TGTAGTCTCATGGTAAGAGTAGTTGTGGTTTTGGAAAAACAGTTGAGTATGAGACAGATACTAAAGTTGAAGAGCCGATA
GATATGAGCAGCCACCAATCAGTGAATCTATT

ORF - retro_sara_676 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 54.61 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalTMIEAHVDVKTTDGYLLRLFCVGFTKKRNNQIRKTSYAQHQQV-RQIRKKMMEIMT-REVQTNDLKEVVN
TM.E.H.DVKT.D.YL.......F.KK.N..I.KTSYAQ.QQV..QI.K.MMEIMT.......D.K..V.
RetrocopyTMTETHIDVKTIDSYLM-VESIAFMKKCNHPILKTSYAQQQQV<HQILK-MMEIMT>QRCXXXDVKKAVD
ParentalKLIPDS-IGKDIEKACQSIYPLHDVFVRKVKMLKKPKFELGKLMELHGEGSSS-GKATGDETGAKVE-RA
KLI.DS..GKDIEKA.Q.IY..H..F.RK...LK..KFELG.L...HG..S...GK....ET..KVE.RA
RetrocopyKLISDS>LGKDIEKAHQLIYLVH-IFFRKI*KLKL-KFELGNLV*SHGKSSCGFGKTVEYETDTKVE<RA
ParentalDGYE-PPVQESV
D.YE.PP..ES.
RetrocopyDRYEQPPISESI

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






Sorex araneus was not studied using RNA-Seq expression data.
Sorex araneus was not studied using ChIP-Seq data.
Sorex araneus was not studied using EST data.
Sorex araneus was not studied using FANTOM5 data.
retro_sara_676 was not experimentally validated.

Retrocopy orthology:
Sorex araneus 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 6 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Macaca mulatta ENSMMUG000000218211 retrocopy
Monodelphis domestica ENSMODG000000009696 retrocopies
Mus musculus ENSMUSG000000280812 retrocopies
Rattus norvegicus ENSRNOG000000118931 retrocopy
Sorex araneus ENSSARG00000000717 15 retrocopies
Sarcophilus harrisii ENSSHAG000000150882 retrocopies



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