RetrogeneDB ID:

retro_ggor_635

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:11:28208873..28209424(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000028388
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX3
Ensembl ID:ENSGGOG00000025853
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_635
ATAGCCTCCAATAAAACTACATGGCAAAAAATGAGAAAGAAACAGAATGGAAAGAATAAAAAGTTGAAGAGGCAGAGCCC
GAATAATTTGTGGTGGAAAAAGTACTAGATCGACGTGTAGTGAATGGGAAAGTGGAATATTTTCTGAAGTGGAAGGGATT
TACAGATGCTGACAATACTTGGGAATCTGAAGAAAATTTACATTGTCCAGAGTTGATTGAAGCATTTCTTAATTCTCAAA
AAGCTGGCAAAGAAAAAGTTGGTACAAAAAGAAAATCTTTATCTGACAGTGAATCTGATGACAGCAAATCAAAGAAGAAA
AGAGAAGCTGCTGACAAACCAAGAGGATTTGCCAGAGGTCGTGATCCTGAAAGAGTAATTGGTGCCACAGACGGCAGTGG
GGAATTGATGTTTCTCATGAAATGGAAAGATTCAGATGAGGCAGACTCAGTGCTGGCCTCAAAAGAGGCGAATATGAAGT
ATCCTCAAATTATAATTGCTTTTTATGAAGAGAGACTAACTTGGCATGCTTGTCCGGAAGATGAAGCTCAA

ORF - retro_ggor_635 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.27 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMASNKTTLQKMGKKQNGKSKK-VEEAEPEEFVVEKVLDRRVVNGKVEYFLKWKGFTDADNTWEPEENLDC
.ASNKTT.QKM.KKQNGK.KK.VEEAEPE.FVVEKVLDRRVVNGKVEYFLKWKGFTDADNTWE.EENL.C
RetrocopyIASNKTTWQKMRKKQNGKNKK<VEEAEPE*FVVEKVLDRRVVNGKVEYFLKWKGFTDADNTWESEENLHC
ParentalPELIEAFLNSQKAGKEKDGTKRKSLSDSESDDSKSKKKRDAADKPRGFARGLDPERIIGATDSSGELMFL
PELIEAFLNSQKAGKEK.GTKRKSLSDSESDDSKSKKKR.AADKPRGFARG.DPER.IGATD.SGELMFL
RetrocopyPELIEAFLNSQKAGKEKVGTKRKSLSDSESDDSKSKKKREAADKPRGFARGRDPERVIGATDGSGELMFL
ParentalMKWKDSDEADLVLA-KEANMKCPQIVIAFYEERLTWHSCPEDEAQ
MKWKDSDEAD.VLA.KEANMK.PQI.IAFYEERLTWH.CPEDEAQ
RetrocopyMKWKDSDEADSVLASKEANMKYPQIIIAFYEERLTWHACPEDEAQ

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 24 .31 RPM
SRP007412_cerebellum 0 .00 RPM 19 .46 RPM
SRP007412_heart 0 .00 RPM 5 .22 RPM
SRP007412_kidney 0 .00 RPM 38 .68 RPM
SRP007412_liver 0 .00 RPM 24 .45 RPM
SRP007412_testis 0 .10 RPM 88 .58 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_635 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_635 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_766
Pan troglodytes retro_ptro_537
Pongo abelii retro_pabe_758
Callithrix jacchus retro_cjac_869

Parental genes homology:
Parental genes homology involve 14 parental genes, and 55 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000059691 retrocopy
Canis familiaris ENSCAFG0000000289711 retrocopies
Callithrix jacchus ENSCJAG000000079528 retrocopies
Gorilla gorilla ENSGGOG000000000411 retrocopy
Gorilla gorilla ENSGGOG000000240633 retrocopies
Gorilla gorilla ENSGGOG00000025853 6 retrocopies
Loxodonta africana ENSLAFG000000069073 retrocopies
Mus musculus ENSMUSG000000298361 retrocopy
Otolemur garnettii ENSOGAG000000165831 retrocopy
Ochotona princeps ENSOPRG000000117139 retrocopies
Rattus norvegicus ENSRNOG000000118142 retrocopies
Sarcophilus harrisii ENSSHAG000000179131 retrocopy
Sus scrofa ENSSSCG000000167114 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000062234 retrocopies



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