RetrogeneDB ID:

retro_ggor_1638

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:2a:60643227..60643466(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LSM6
Ensembl ID:ENSGGOG00000001310
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1638
ATGAACCTTTGGAAGCAAACCTCCAGTGCCTTCTTAAAGCATATCATCAGAAGACCAGTTGTGGTAAAATTAAATCCTGG
AGTGAATTATTGAGGGGACCTGGCTTGCCTGGATGACTGCTCGAATATAGCCCTGAGAAGGCAGAGGAATATATAAGTGG
ACAACCGAAGACTAAGTATGGGTATGCATTTGTCTGAGGAAACAATGTGTTGCACATCAGTACACAGGAGAGAAGGATG

ORF - retro_ggor_1638 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.14 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSLRKQTPSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIAL-EQTEEYVNGQLKNKYGDAFIRGNN
M.L.KQT.S.FLK.II.RPVVVKLN.GV.Y.G.LACLD...NIAL.E..EEY..GQ.K.KYG.AF..GNN
RetrocopyMNLWKQTSSAFLKHIIRRPVVVKLNPGVNY*GDLACLDDCSNIAL<EKAEEYISGQPKTKYGYAFV*GNN
ParentalVLYISTQKRRM
VL.ISTQ.RRM
RetrocopyVLHISTQERRM

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 9 .73 RPM
SRP007412_cerebellum 0 .00 RPM 9 .18 RPM
SRP007412_heart 0 .00 RPM 3 .03 RPM
SRP007412_kidney 0 .00 RPM 7 .40 RPM
SRP007412_liver 0 .00 RPM 8 .60 RPM
SRP007412_testis 0 .10 RPM 13 .57 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_1638 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1638 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2107
Pan troglodytes retro_ptro_1545
Pongo abelii retro_pabe_1994
Macaca mulatta retro_mmul_991

Parental genes homology:
Parental genes homology involve 12 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000140601 retrocopy
Cavia porcellus ENSCPOG000000153891 retrocopy
Dasypus novemcinctus ENSDNOG000000093225 retrocopies
Homo sapiens ENSG000001641672 retrocopies
Gorilla gorilla ENSGGOG000000011272 retrocopies
Gorilla gorilla ENSGGOG00000001310 2 retrocopies
retro_ggor_1417, retro_ggor_1638 ,
Myotis lucifugus ENSMLUG000000263551 retrocopy
Monodelphis domestica ENSMODG000000005264 retrocopies
Nomascus leucogenys ENSNLEG000000055842 retrocopies
Otolemur garnettii ENSOGAG000000266651 retrocopy
Sus scrofa ENSSSCG000000090362 retrocopies
Tarsius syrichta ENSTSYG000000127594 retrocopies



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