RetrogeneDB ID:

retro_ggor_1401

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:18:18799662..18800038(-)
Located in intron of:ENSGGOG00000012718
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL34
Ensembl ID:ENSGGOG00000007650
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1401
CTCTTCCAGGGATGCTATCTAGAGGCACTCAGCATGATCCAGTGTTTGATGCACCATCATAGGCTTTTCTACAACACAGC
ATCTAACAAAACTAGGCTGTCCCAAACCCTGGTATTGTTTACCTTTATATCAAGAAGGTAGGGAAAGCACCAATGTCTGC
ATGTGGCGTGTGCCCAGGCAGACTTCAAGGGATTTATGCTGTGAGACCTCAAGTTCTTGTGAGGTTGTCTAAAATTTTAA
AAAGTGTCAGCACGACCAATGGTGTTTCCATGACTGCTAAATGTATCCACGACAGGACCAAGCATGCTTTCCTTTCAAAG
AGCAGAATGTCATCGTGAAAATGTTGAAGGCACAAGCCCAGAGTCAGAAAGCTAAA

ORF - retro_ggor_1401 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.69 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLFRGRCLQALRMVQRLTYRRRLSYNTASNKTRLSRT-PGNRIVYLYTKKVGKAPKSACGVCPGRLRGVRA
LF.G..L.AL.M.Q.L....RL.YNTASNKTRLS.T.PG..IVYLY.KKVGKAP.SACGVCPGRL.G..A
RetrocopyLFQGCYLEALSMIQCLMHHHRLFYNTASNKTRLSQT<PG--IVYLYIKKVGKAPMSACGVCPGRLQGIYA
ParentalVRPKVLMRLSKTKKHVSRAYGGSMCAKCVRDRIKRAFL-IEEQKIVVKVLKAQAQSQKAK
VRP.VL.RLSK..K.VS...G.SM.AKC..DR.K.AFL...EQ...VK.LKAQAQSQKAK
RetrocopyVRPQVLVRLSKILKSVSTTNGVSMTAKCIHDRTKHAFL<FKEQNVIVKMLKAQAQSQKAK

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 67 .14 RPM
SRP007412_cerebellum 0 .04 RPM 96 .60 RPM
SRP007412_heart 0 .03 RPM 42 .96 RPM
SRP007412_kidney 0 .00 RPM 227 .51 RPM
SRP007412_liver 0 .00 RPM 244 .87 RPM
SRP007412_testis 0 .21 RPM 93 .24 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_1401 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1401 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1921
Pan troglodytes retro_ptro_1285
Pongo abelii retro_pabe_1609

Parental genes homology:
Parental genes homology involve 14 parental genes, and 140 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000175820 retrocopies
Dasypus novemcinctus ENSDNOG0000001117926 retrocopies
Gorilla gorilla ENSGGOG00000007650 32 retrocopies
Gadus morhua ENSGMOG000000099821 retrocopy
Loxodonta africana ENSLAFG000000326156 retrocopies
Macropus eugenii ENSMEUG000000093613 retrocopies
Macaca mulatta ENSMMUG000000119011 retrocopy
Monodelphis domestica ENSMODG000000206013 retrocopies
Pongo abelii ENSPPYG0000001498818 retrocopies
Pelodiscus sinensis ENSPSIG000000032951 retrocopy
Sarcophilus harrisii ENSSHAG000000013571 retrocopy
Sarcophilus harrisii ENSSHAG000000020523 retrocopies
Tupaia belangeri ENSTBEG0000000357424 retrocopies
Xenopus tropicalis ENSXETG000000210951 retrocopy



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