RetrogeneDB ID:

retro_ggor_2486

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:6:147733530..147734303(-)
Located in intron of:ENSGGOG00000001069
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:C15ORF29
Ensembl ID:ENSGGOG00000014230
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2486
ATGGCATCGGAAACTCACAATGTTAAAAAACGGAACTTTTGTAATAAGATTGAGGATCATTTCATTGATCTTCCTAGAAA
AAAAGATCTCTAATTTCACTGATAAGAACATGAAGGAGGTTAAGAAGTCTCCAAAACAGTTGGCTGCTTACATAAATAGA
ACAGTTGGACAAACTGTGAAAAGCCCAGATAAACTTCGTAAAGTGATCTATCGCAGAAAGAAAGTTCATCATCCCTTTCC
AAATCTTTGTTGCAGAAAAAAACAGCCCCCTGGAAGGTCGGGGCTGTGACATGGCAAATAAAGAAAATGAACTGGCTTGT
GCAGGCCACCAGACTGAAAAATTACACCATGACAGTCGAACATATTTGGTTAACTCCAGTGATTCTGGTTCTTCACAGAC
AGAAAGCCCATCATCAAAATATAGTGGGTTTTTTTCTGAGGTTTCTCAGGACCATGAAACAATGGTCCAAGTTTTGTTCA
GCAGGAATAGGAGATTGAATGTAGCTTTAATTTTCTGGAGAAAGAGAAGTATAAGTGAACTTGTAGCTTATTTGTTGAGG
ATAGAAGATCTTGGCGTTGTGGTAGATTGCCTTCCTGTGCTCACCAATTGTTTACAGGAAGAAAAACAATATATCTCACT
TGGCTGCTGTGTAGACTTGTTGCCTCTAGTAAAGTCACTACTTAAAAGCAAATTTGAAGAATATGTTATAGTTGGTTTAA
ACTGGCTTCAAGCAGTCATTAAAAGGTGGTGGTCAGAACTATCATCCAAAACA

ORF - retro_ggor_2486 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.14 %
Parental protein coverage: 84.54 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMASETHNVKKRNFCNKIEDHFIDLPRKK-ISNFTDKNMKEVKKSPKQLAAYINRTVGQTVKSPDKLRKVI
MASETHNVKKRNFCNKIEDHFIDLPRKK.ISNFTDKNMKEVKKSPKQLAAYINRTVGQTVKSPDKLRKVI
RetrocopyMASETHNVKKRNFCNKIEDHFIDLPRKK>ISNFTDKNMKEVKKSPKQLAAYINRTVGQTVKSPDKLRKVI
ParentalYRRKKVHHPFPNPCYRKKQSPGRSG-CDMANKENELACAGHLPEKLHHDSRTYLVNSSDSGSSQTESPSS
YRRKKVHHPFPN.C.RKKQ.PGRSG.CDMANKENELACAGH..EKLHHDSRTYLVNSSDSGSSQTESPSS
RetrocopyYRRKKVHHPFPNLCCRKKQPPGRSG>CDMANKENELACAGHQTEKLHHDSRTYLVNSSDSGSSQTESPSS
ParentalKYSGFFSEVSQDHETMAQVLFSRNMRLNVALTFWRKRSISELVAYLLRIEDLGVVVDCLPVLTNCLQEEK
KYSGFFSEVSQDHETM.QVLFSRN.RLNVAL.FWRKRSISELVAYLLRIEDLGVVVDCLPVLTNCLQEEK
RetrocopyKYSGFFSEVSQDHETMVQVLFSRNRRLNVALIFWRKRSISELVAYLLRIEDLGVVVDCLPVLTNCLQEEK
ParentalQYISLGCCVDLLPLVKSLLKSKFEEYVIVGLNWLQAVIKRWWSELSSKT
QYISLGCCVDLLPLVKSLLKSKFEEYVIVGLNWLQAVIKRWWSELSSKT
RetrocopyQYISLGCCVDLLPLVKSLLKSKFEEYVIVGLNWLQAVIKRWWSELSSKT

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 2 .40 RPM
SRP007412_cerebellum 0 .00 RPM 2 .84 RPM
SRP007412_heart 0 .00 RPM 0 .44 RPM
SRP007412_kidney 0 .00 RPM 3 .72 RPM
SRP007412_liver 0 .00 RPM 2 .66 RPM
SRP007412_testis 0 .00 RPM 6 .22 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_2486 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2486 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3677
Pan troglodytes retro_ptro_2491

Parental genes homology:
Parental genes homology involve 24 parental genes, and 63 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000064132 retrocopies
Callithrix jacchus ENSCJAG000000211103 retrocopies
Cavia porcellus ENSCPOG000000111532 retrocopies
Dasypus novemcinctus ENSDNOG000000162795 retrocopies
Dipodomys ordii ENSDORG000000131722 retrocopies
Equus caballus ENSECAG000000234501 retrocopy
Echinops telfairi ENSETEG000000016407 retrocopies
Homo sapiens ENSG000001341523 retrocopies
Gorilla gorilla ENSGGOG00000014230 3 retrocopies
retro_ggor_1347, retro_ggor_2486 , retro_ggor_415,
Macropus eugenii ENSMEUG000000156104 retrocopies
Myotis lucifugus ENSMLUG000000015322 retrocopies
Macaca mulatta ENSMMUG000000000131 retrocopy
Mustela putorius furoENSMPUG000000080191 retrocopy
Nomascus leucogenys ENSNLEG000000107722 retrocopies
Oryctolagus cuniculus ENSOCUG000000176545 retrocopies
Otolemur garnettii ENSOGAG000000156333 retrocopies
Ochotona princeps ENSOPRG000000103791 retrocopy
Pongo abelii ENSPPYG000000063092 retrocopies
Pan troglodytes ENSPTRG000000068773 retrocopies
Sorex araneus ENSSARG000000078911 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000038131 retrocopy
Tupaia belangeri ENSTBEG000000016147 retrocopies
Tarsius syrichta ENSTSYG000000110591 retrocopy
Vicugna pacos ENSVPAG000000071701 retrocopy



Copyright © RetrogeneDB 2014-2017