RetrogeneDB ID:

retro_ggor_657

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:11:79987844..79988476(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RBMXL1
Ensembl ID:ENSGGOG00000006944
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_657
GCTCCTGTGTCACGTGGAAGAGATAGTTAGTGCGGTCCACCTGGAAGGGAACCGCTGCCCTCTCGTAGAGATGTTTATTT
GCCCCCAAGAGATGATGGGTATTCTACAAAAGACAGTTCTTCAAGCAGAGATTACCCAAGTTCTCGTGATACAAGAGGTT
ATGCACCACCACCACCACGAGATTGTACTTACCGTGATTATGGTCATTTCAGTTCACGTGATGACTATCCATCAAGAGGC
TATAGCGATAGAGATGGATATAATAGTGATCATGACTATTCAGATCATCCAAATGGAGGTTCCTACAGAGATTCATATGA
GAGTTATGGTAACTCAAGTAGTGCTGGACATACACGATGGCCCCTGCCAGCTTACGGTGGAAGCAGTCGCTATGATGATT
ACAGCAGCTCACGTGATGGATATGGTGGAAGTCAGACAGTTACTTAGCCACTGAAGTGATCTCTACTCAAGTGGTCGTGA
TCGGGTTGGCAGACAAGAAAGCGGGCTTCCTCCTTCTATGGAAAGGGGGCACCCTCCTCCACGTGATTCCTACAGCAGTT
CAAGCCACAGAGCACCAAGGTGGTGGCCATGGAGGAAGCCAGTCTGATAGAGGGGGAGGCAGAAGCAGGTAC

ORF - retro_ggor_657 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.64 %
Parental protein coverage: 54.71 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalAPVSRGRDSYGGPPRREPLPSHRDIYLSPRDDVYSTKDSYSSKDYPSSRDTRDYAPPP-RDYTYRDYGHS
APVSRGRDS..GPP.REPLPS.RD.YL.PRDD.YSTKDS.SS.DYPSSRDTR.YAPPP.RD.TYRDYGH.
RetrocopyAPVSRGRDS*CGPPGREPLPSRRDVYLPPRDDGYSTKDSSSSRDYPSSRDTRGYAPPPPRDCTYRDYGHF
ParentalSSRDDYPSRGYSDRDGYGRDRDYSDHPSGGSYRDSYESYGNSRSAPPTRGPPPSYGGSSRYDDYSSSRDG
SSRDDYPSRGYSDRDGY..D.DYSDHP.GGSYRDSYESYGNS.SA..TR.P.P.YGGSSRYDDYSSSRDG
RetrocopySSRDDYPSRGYSDRDGYNSDHDYSDHPNGGSYRDSYESYGNSSSAGHTRWPLPAYGGSSRYDDYSSSRDG
ParentalYGGSR-DSYSSSR-SDLYSSGRDRVGRQERGLPPSMERGYPPPRDSYSSSSHRA-GGG-HGGSQSDRGGG
YGGS..DSY.....SDLYSSGRDRVGRQE.GLPPSMERG.PPPRDSYSSSSHRA..GG.HGGSQSDRGGG
RetrocopyYGGSQ<DSYLATE<SDLYSSGRDRVGRQESGLPPSMERGHPPPRDSYSSSSHRA>QGGGHGGSQSDRGGG
ParentalRSRY
RSRY
RetrocopyRSRY

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






RNA-Seq - click to see more details

(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 .05 RPM 5 .18 RPM
SRP007412_cerebellum 0 .16 RPM 3 .51 RPM
SRP007412_heart 0 .03 RPM 1 .97 RPM
SRP007412_kidney 0 .00 RPM 6 .42 RPM
SRP007412_liver 0 .00 RPM 4 .41 RPM
SRP007412_testis 0 .10 RPM 1 .76 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_657 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_657 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_800
Parental genes homology:
Parental genes homology involve 25 parental genes, and 52 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000133081 retrocopy
retro_btau_36,
Canis familiaris ENSCAFG000000189624 retrocopies
retro_cfam_1106, retro_cfam_1244, retro_cfam_1649, retro_cfam_1914,
Choloepus hoffmanni ENSCHOG000000123693 retrocopies
retro_chof_1240, retro_chof_2596, retro_chof_880,
Cavia porcellus ENSCPOG000000121641 retrocopy
retro_cpor_778,
Dipodomys ordii ENSDORG000000154811 retrocopy
retro_dord_793,
Echinops telfairi ENSETEG000000131781 retrocopy
retro_etel_1952,
Felis catus ENSFCAG000000047791 retrocopy
retro_fcat_1903,
Homo sapiens ENSG000001472747 retrocopies
retro_hsap_23, retro_hsap_3074, retro_hsap_3587, retro_hsap_4144, retro_hsap_4846, retro_hsap_800, retro_hsap_91,
Gorilla gorilla ENSGGOG00000006944 1 retrocopy
retro_ggor_657 ,
Gorilla gorilla ENSGGOG000000090531 retrocopy
retro_ggor_391,
Loxodonta africana ENSLAFG000000055683 retrocopies
retro_lafr_1188, retro_lafr_276, retro_lafr_35,
Microcebus murinus ENSMICG000000068562 retrocopies
retro_mmur_1252, retro_mmur_661,
Myotis lucifugus ENSMLUG000000132095 retrocopies
retro_mluc_1630, retro_mluc_1746, retro_mluc_203, retro_mluc_2180, retro_mluc_80,
Mustela putorius furoENSMPUG000000018552 retrocopies
retro_mputfur_1539, retro_mputfur_956,
Mus musculus ENSMUSG000000311342 retrocopies
retro_mmus_170, retro_mmus_187,
Oryctolagus cuniculus ENSOCUG000000072201 retrocopy
retro_ocun_3,
Otolemur garnettii ENSOGAG000000078395 retrocopies
retro_ogar_1057, retro_ogar_137, retro_ogar_1586, retro_ogar_2445, retro_ogar_2584,
Ochotona princeps ENSOPRG000000165931 retrocopy
retro_opri_372,
Pongo abelii ENSPPYG000000207713 retrocopies
retro_pabe_2548, retro_pabe_303, retro_pabe_766,
Rattus norvegicus ENSRNOG000000008661 retrocopy
retro_rnor_268,
Sorex araneus ENSSARG000000003971 retrocopy
retro_sara_169,
Ictidomys tridecemlineatus ENSSTOG000000062112 retrocopies
retro_itri_1205, retro_itri_1346,
Tupaia belangeri ENSTBEG000000011541 retrocopy
retro_tbel_1919,
Tarsius syrichta ENSTSYG000000095551 retrocopy
retro_tsyr_15,
Tursiops truncatus ENSTTRG000000073221 retrocopy
retro_ttru_1450,


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