RetrogeneDB ID:

retro_psin_33

Retrocopy
location
Organism:Chinese softshell turtle (Pelodiscus sinensis)
Coordinates:JH206273.1:11038..11418(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS14
Ensembl ID:ENSPSIG00000005922
Aliases:None
Description:ribosomal protein S14 [Source:HGNC Symbol;Acc:10387]


Retrocopy-Parental alignment summary:






>retro_psin_33
ATCAGCTTGGGAGAAAACGTGTTTGGTGTCTCCCATATCTTCACTTCCTTCAATGATGTTTTGTCCATGTAACTGATCTT
TCTGGCAAGGAGACCATCTGCTGAGTGACTGGTGGTATGAAGGCTGACAGAGACGAGTCTTCACCTTATGCTGCTATGTT
GGCAGCCCAGGCTGTTGCCCAGAGGTGCAAGAAGCTGGGCCTCACTGCCGTTCACATCAAGCTGTGAGGTACAGGTGAAA
ACAGGACCAAGAGTCCTAGACCTGGTACCCAGTCAGTCCTCAGAGCCCAAGCTCATTCTGGAATAAAGACTGGGCATATT
GAGGATGTTACCCCTATCCCTTCCACTAGCAGAAAGGGAGGTCACTGTGGTCATCATCTG

ORF - retro_psin_33 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75. %
Parental protein coverage: 86.75 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVAEGENVFGVCHIFASFNDT-FVHVTDLSGKETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELG
...GENVFGV.HIF.SFND..FVHVTDLSGKETIC.VTGGM..KADRDESSPYAAMLAAQ.VAQRCK.LG
RetrocopyISLGENVFGVSHIFTSFNDV<FVHVTDLSGKETIC*VTGGM--KADRDESSPYAAMLAAQAVAQRCKKLG
ParentalITALHIKLRATGGNRTKTPGPGAQSALRALARSGMKIGRIEDVTPIPSDSTRRKGGRRGRRL
.TA.HIKL..TG.NRTK.P.PG.QS.LRA.A.SG.K.G.IEDVTPIP..ST.RKGG..G..L
RetrocopyLTAVHIKL*GTGENRTKSPRPGTQSVLRAQAHSGIKTGHIEDVTPIP--STSRKGGHCGHHL

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






Pelodiscus sinensis was not studied using RNA-Seq expression data.
Pelodiscus sinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_psin_33 retrocopy.
Pelodiscus sinensis was not studied using FANTOM5 data.
retro_psin_33 was not experimentally validated.

Retrocopy orthology:
Pelodiscus sinensis 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 16 parental genes, and 44 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000046442 retrocopies
Bos taurus ENSBTAG000000085702 retrocopies
Canis familiaris ENSCAFG000000180942 retrocopies
Callithrix jacchus ENSCJAG000000209811 retrocopy
Cavia porcellus ENSCPOG000000244082 retrocopies
Gorilla gorilla ENSGGOG000000245938 retrocopies
Latimeria chalumnae ENSLACG000000161641 retrocopy
Loxodonta africana ENSLAFG000000311952 retrocopies
Myotis lucifugus ENSMLUG000000132794 retrocopies
Macaca mulatta ENSMMUG000000028485 retrocopies
Mustela putorius furoENSMPUG000000137761 retrocopy
Nomascus leucogenys ENSNLEG000000103661 retrocopy
Oryctolagus cuniculus ENSOCUG000000115091 retrocopy
Otolemur garnettii ENSOGAG000000007211 retrocopy
Pelodiscus sinensis ENSPSIG00000005922 1 retrocopy
retro_psin_33 ,
Rattus norvegicus ENSRNOG0000001877410 retrocopies



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