RetrogeneDB ID:

retro_ggor_1027

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:14:15723384..15723852(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000024513
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL23A
Ensembl ID:ENSGGOG00000016736
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1027
ATGGCGTTGAAAGCAAAGAAGGAAGCACTTGCCCCTCCTAAAGCCGAAGCCAAAGCGAAGGCTTTAAAGGCCAAGAAGGC
AGTGTTGAAAGGTGTCCACATCCACAAAGAAAGAAGACCCGCACGTCACCCACCTTCCAGAGGCCCAGGACACTGCAACT
CTGGAGGCCGCCCAAATATCCTCGGAATAGCCCCCCCAGGAGAAACAAGCTTGACCGTTATGCCATCATCAAGTTTCTGC
GGACCACTGAGTCCGCCGTGAAGAAGATAGAAGACAACGCCACACTTGTGTTCACGGTGGATGTTAAAGCCAACAAGCAG
CAGATCAAACAGGCTGTGAAGAAGCTCCGTGACATTGATGCGGCCAAGGTCAACACCCTGATTCGGCCTGATGGAGAGAA
GAAGGCGTTATGTTCAACTGGCTCCAGATTACGATGTTTTGGATGTTGCCAAAAAAAATGGGATCATC

ORF - retro_ggor_1027 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.28 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMAPKAKKEAPAPPKAEAKAKALKAKKAVLKGVHSHK-KKKIRTSPTFRRPKTLRLRRQPKYPRKSAPRRN
MA.KAKKEA.APPKAEAKAKALKAKKAVLKGVH.HK..KK.RTSPTF.RP.TL.L.R.PKYPR.S.PRRN
RetrocopyMALKAKKEALAPPKAEAKAKALKAKKAVLKGVHIHK<RKKTRTSPTFQRPRTLQLWRPPKYPRNSPPRRN
ParentalKLDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRPDGEKKA-YV
KLD.YAIIKF..TTESA.KKIEDN.TLVF.VDVKANK.QIKQAVKKL.DID.AKVNTLIRPDGEKKA.YV
RetrocopyKLDRYAIIKFLRTTESAVKKIEDNATLVFTVDVKANKQQIKQAVKKLRDIDAAKVNTLIRPDGEKKA>YV
ParentalRLAPDYDALDVANKIGII
.LAPDYD.LDVA...GII
RetrocopyQLAPDYDVLDVAXXXGII

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain_prefrontal_cortex 0 .00 RPM 93 .61 RPM
SRP007412_cerebellum 0 .00 RPM 115 .63 RPM
SRP007412_heart 0 .00 RPM 64 .54 RPM
SRP007412_kidney 0 .00 RPM 296 .57 RPM
SRP007412_liver 0 .05 RPM 287 .41 RPM
SRP007412_testis 0 .00 RPM 182 .65 RPM
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_1027 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1027 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 26 parental genes, and 564 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000053112 retrocopies
Ailuropoda melanoleuca ENSAMEG0000000468431 retrocopies
Bos taurus ENSBTAG000000463946 retrocopies
Callithrix jacchus ENSCJAG000000131267 retrocopies
Cavia porcellus ENSCPOG000000014526 retrocopies
Dasypus novemcinctus ENSDNOG0000001948765 retrocopies
Dipodomys ordii ENSDORG0000000097410 retrocopies
Equus caballus ENSECAG000000089281 retrocopy
Felis catus ENSFCAG0000000402135 retrocopies
Homo sapiens ENSG0000019824257 retrocopies
Gorilla gorilla ENSGGOG00000016736 26 retrocopies
Loxodonta africana ENSLAFG0000001338716 retrocopies
Myotis lucifugus ENSMLUG000000124484 retrocopies
Monodelphis domestica ENSMODG000000192973 retrocopies
Mustela putorius furoENSMPUG0000001417912 retrocopies
Mus musculus ENSMUSG000000585468 retrocopies
Nomascus leucogenys ENSNLEG0000000287260 retrocopies
Ochotona princeps ENSOPRG0000001262049 retrocopies
Procavia capensis ENSPCAG0000001700230 retrocopies
Pongo abelii ENSPPYG0000000810849 retrocopies
Pteropus vampyrus ENSPVAG0000000292232 retrocopies
Rattus norvegicus ENSRNOG000000233446 retrocopies
Sarcophilus harrisii ENSSHAG0000001454913 retrocopies
Sus scrofa ENSSSCG000000177689 retrocopies
Sus scrofa ENSSSCG000000298024 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001132823 retrocopies



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