RetrogeneDB ID:

retro_ggor_2023

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:4:39781271..39782163(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:WDR5
Ensembl ID:ENSGGOG00000004997
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2023
TCTCTAAAGTTCACCCTTGCTGGCCGCACCAAAGCAGTGTCCTCCGTGAAATTCAGCCCGAATGGAGAGTGGCTGGCAAG
TTCATCTGCTGATAAACTCATTAAAATTTGGGGGACTCATATGATGGGAAATCTGAGAAAACCGTCTGGTCACAAGCTGG
GAATATCTGATGCAGCCTGGTCGTCAGATTCTAACCTTTTTGTTTCCGCCTCAGATGACAAAACCTTGAAGATACGGGAC
GTGAGCTCGGGAAAGTGTCTGAAAACCCTGAAGGGACACAGTAATTACGTCTTTTGCTGTAACTTCAATCTCCAGTCCAG
CCTTACTGTCTCAGGATCCTTTGATGAAAGTGTGAGGATATGGGTTGTGAAAACAGGGAAGTGCCACAAGACTGCTAGCT
CACTCGGATCCAGTCTCGGCCATTCATTTTAATCGTGATGGATTCTTGATAGTTTCAAGTAGCTATGATGGTCTCTGTCA
CATCTGGGACACCGCCTCAGGCCAGTGCCTGAAAACGCTCACTGATTATGACAACCCCTGGTGTCTTTTGTGAAGCTCTC
CCCGAAGGGCGGATACAGCCTGGCTGCCACGCTGGACAACACTCAAGCTCTGGGACTACAGCAAGGGGAAGTGCCTGAAG
ACATACACTGGCCACAAGAACGAGAAATACTGCATATTTGCCAATTTCTCTGTTACTGGCGGGAAGTGGATTGTGTCTGG
CTCTGAGGATAACCTTCTTTACATCTGGAACCTTCAGACAAAAGAGATTGTACAGAAATTACAAGGCCACACAGATGTTG
TGATCTCAACAGCTTGTCACCCAACAGAAAACATCATCACCTCTGCCGCGCTAGAAAATGACAAAACAATTAAACTGTGG
AAGAGTGACTGT

ORF - retro_ggor_2023 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.67 %
Parental protein coverage: 89.52 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalALKFTLAGHTKAVSSVKFSPNGEWLASSSADKLIKIWGAYDGKFEKTISGHKLGISDVAWSSDSNLLVSA
.LKFTLAG.TKAVSSVKFSPNGEWLASSSADKLIKIWG..........SGHKLGISD.AWSSDSNL.VSA
RetrocopySLKFTLAGRTKAVSSVKFSPNGEWLASSSADKLIKIWGTHMMGNLRKPSGHKLGISDAAWSSDSNLFVSA
ParentalSDDKTLKIWDVSSGKCLKTLKGHSNYVFCCNFNPQSNLIVSGSFDESVRIWDVKT-GKCLKTLPAHSDPV
SDDKTLKI.DVSSGKCLKTLKGHSNYVFCCNFN.QS.L.VSGSFDESVRIW.VKT.G.....L.AHSDPV
RetrocopySDDKTLKIRDVSSGKCLKTLKGHSNYVFCCNFNLQSSLTVSGSFDESVRIWVVKT>GSATRLL-AHSDPV
ParentalSAVHFNRDGSLIVSSSYDGLCRIWDTASGQCLKTLIDDDNPPVSFVKFSPNGKYILAATLDNTLKLWDYS
SA.HFNRDG.LIVSSSYDGLC.IWDTASGQCLKT...D...P......SP............TLKLWDYS
RetrocopySAIHFNRDGFLIVSSSYDGLCHIWDTASGQCLKT-LTDYDNPWCLL*SSPRRADTAWLPRWTTLKLWDYS
ParentalKGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNLVYIWNLQTKEIVQKLQGHTDVVISTACHPTEN
KGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNL.YIWNLQTKEIVQKLQGHTDVVISTACHPTEN
RetrocopyKGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNLLYIWNLQTKEIVQKLQGHTDVVISTACHPTEN
ParentalIIASAALENDKTIKLWKSDC
II.SAALENDKTIKLWKSDC
RetrocopyIITSAALENDKTIKLWKSDC

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 .58 RPM 34 .00 RPM
SRP007412_cerebellum 1 .65 RPM 49 .92 RPM
SRP007412_heart 0 .06 RPM 10 .54 RPM
SRP007412_kidney 0 .12 RPM 29 .36 RPM
SRP007412_liver 0 .00 RPM 24 .48 RPM
SRP007412_testis 0 .10 RPM 79 .98 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_2023 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2023 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pan troglodytes retro_ptro_1975
Parental genes homology:
Parental genes homology involve 26 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000111791 retrocopy
retro_amel_29,
Bos taurus ENSBTAG000000470311 retrocopy
retro_btau_299,
Canis familiaris ENSCAFG000000198301 retrocopy
retro_cfam_128,
Callithrix jacchus ENSCJAG000000101231 retrocopy
retro_cjac_1,
Cavia porcellus ENSCPOG000000147901 retrocopy
retro_cpor_12,
Dipodomys ordii ENSDORG000000150101 retrocopy
retro_dord_7,
Equus caballus ENSECAG000000173891 retrocopy
retro_ecab_82,
Echinops telfairi ENSETEG000000157311 retrocopy
retro_etel_15,
Felis catus ENSFCAG000000057121 retrocopy
retro_fcat_119,
Homo sapiens ENSG000001963631 retrocopy
retro_hsap_11,
Gorilla gorilla ENSGGOG00000004997 2 retrocopies
retro_ggor_171, retro_ggor_2023 ,
Gorilla gorilla ENSGGOG000000148021 retrocopy
retro_ggor_440,
Loxodonta africana ENSLAFG000000111921 retrocopy
retro_lafr_55,
Microcebus murinus ENSMICG000000080851 retrocopy
retro_mmur_34,
Myotis lucifugus ENSMLUG000000022361 retrocopy
retro_mluc_11,
Macaca mulatta ENSMMUG000000141591 retrocopy
retro_mmul_190,
Mustela putorius furoENSMPUG000000121841 retrocopy
retro_mputfur_2,
Mus musculus ENSMUSG000000269171 retrocopy
retro_mmus_132,
Otolemur garnettii ENSOGAG000000089601 retrocopy
retro_ogar_86,
Procavia capensis ENSPCAG000000134761 retrocopy
retro_pcap_43,
Pan troglodytes ENSPTRG000000236532 retrocopies
retro_ptro_18, retro_ptro_1975,
Pteropus vampyrus ENSPVAG000000016661 retrocopy
retro_pvam_112,
Rattus norvegicus ENSRNOG000000082121 retrocopy
retro_rnor_258,
Sus scrofa ENSSSCG000000249121 retrocopy
retro_sscr_1,
Ictidomys tridecemlineatus ENSSTOG000000158991 retrocopy
retro_itri_117,
Drosophila melanogaster FBgn00400661 retrocopy
retro_dmel_69,


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