RetrogeneDB ID:

retro_ggor_2300

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:5:142132458..142133124(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LXN
Ensembl ID:ENSGGOG00000003092
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2300
ATAGAAATTTCATGGACCCATGACCCAGCCTCCAAGGCAGCCTCGGTGGCAGTGATCTGCCTCAACTACCAGCAAGGGAC
ACCCCACAAGGTATTTCCGAGGGAGACAGTCAAACAAACCAGCACGGAGGATATCCCAGGAAAAGGACATAAGTATCACC
TCAAATGTTCTGTGGAATAAGTTATTCTAAAACAAGTTGCAGTGAACTGCATAGCTGAATTGCCTTACCCTGCAGTGGGA
CAAGATACTGTACCAGAAATCAACATCACATGTGAAGGAGAAATGGAAAGAGCCCAGATGAAGAAAACAACACATCTGAT
CAAAAACTCAAGTCCATGAAGGAATCACTAGAAGCACAAAATATTCCAGACATTTTAAGAAATGTATCTCCAAAACATGA
AGCCAGGTCAACATTTAGCCTGGGTTGCCTGTGGTTATGTAACATGGCAAAATTCTGCTGAAAACACGTGATATAAAAGT
GGTAAAAATTAAACTGTCAAGGAAATGCAAAAAAATGATGACTTTATCGAATAGACTATACCATTCCACTTCATGACATT
GCATCCCAGGAGACTGATTCCTTGGCAAATGCAAGTTCTTTGGCACTGACAAGATGGTGCTAAGGTAAAATGTAATCGCT
GTCTGCCAAGGGAAGTACAAGCGGAA

ORF - retro_ggor_2300 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.6 %
Parental protein coverage: 100. %
Number of stop codons detected: 4
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMEIPPTNYPASRAALVAQNYINYQQGTPHRVFEVQKVKQASMEDIPGRGHKYRLKFAVEEIIQKQVKVNC
.EI..T..PAS.AA.VA....NYQQGTPH.VF....VKQ.S.EDIPG.GHKY.LK..VE..I.KQV.VNC
RetrocopyIEISWTHDPASKAASVAVICLNYQQGTPHKVFPRETVKQTSTEDIPGKGHKYHLKCSVE*VILKQVAVNC
ParentalTAEVLYPSTGQETAPEVNFTFEGE-TGKNPDEDDNTFYQRLKSMKEPLEAQNIPDNFGNVSPE-MTLVLH
.AE..YP..GQ.T.PE.N.T.EGE..GK.PDE..NT..Q.LKSMKE.LEAQNIPD...NVSP..M....H
RetrocopyIAELPYPAVGQDTVPEINITCEGE<NGKSPDEENNTSDQKLKSMKESLEAQNIPDILRNVSPK>MKPGQH
ParentalLAWVACGYIIWQNSTEDTWYKMVKIQTVKQVQRNDDFIE-LDYTILLHNIASQE-IIPWQMQVLWHPQYG
LAWVACGY..WQNS.E.T.YK..K..TVK..Q.NDDFIE..DYTI.LH.IASQE..IPWQMQVLWH.Q.G
RetrocopyLAWVACGYVTWQNSAENT*YKSGKN*TVKEMQKNDDFIE<IDYTIPLHDIASQE>LIPWQMQVLWH*QDG
ParentalTKVKHNSRLPKEVQLE
.KVK.N..LP.EVQ.E
RetrocopyAKVKCNRCLPREVQAE

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 0 .48 RPM
SRP007412_cerebellum 0 .00 RPM 0 .71 RPM
SRP007412_heart 0 .00 RPM 2 .19 RPM
SRP007412_kidney 0 .00 RPM 6 .50 RPM
SRP007412_liver 0 .00 RPM 5 .14 RPM
SRP007412_testis 0 .00 RPM 4 .97 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_2300 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2300 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3397
Pan troglodytes retro_ptro_2308
Pongo abelii retro_pabe_2791
Macaca mulatta retro_mmul_2114

Parental genes homology:
Parental genes homology involve 11 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000093362 retrocopies
Canis familiaris ENSCAFG000000090961 retrocopy
Callithrix jacchus ENSCJAG000000003861 retrocopy
Homo sapiens ENSG000000792571 retrocopy
Gorilla gorilla ENSGGOG00000003092 1 retrocopy
retro_ggor_2300 ,
Macaca mulatta ENSMMUG000000049631 retrocopy
Nomascus leucogenys ENSNLEG000000042291 retrocopy
Pongo abelii ENSPPYG000000142451 retrocopy
Pan troglodytes ENSPTRG000000155711 retrocopy
Pteropus vampyrus ENSPVAG000000136082 retrocopies
Tupaia belangeri ENSTBEG000000176733 retrocopies



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