RetrogeneDB ID:

retro_ggor_2653

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:8:41633463..41634356(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KRT18
Ensembl ID:ENSGGOG00000010157
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2653
TCCCCGGACAGCATGAGCTTCACCACTCCCTCCACCTTCTCCACCAACTACCAGTCCCTGGGCTCTGTCCAGCCGCCCAG
CTATGGCACCTGGCCGGTCAGCAGCGCAGCCAGCATCTATGCAGGCACTGGGGGGCTTGGGATCCCAGATCTCCATGTCC
TGTTCTACCAGTTTCTGGGGCGGCTTGGGGTCTGGGGGCCTGGCCACAGAGATGGCTGGGGGTCTGGCAGAAATGGGGGG
CATCCAGAATGAGAAGGAGACCATGCAAAGCCTGAACGACCACCTGGACTACCTGGACAGAGTGAGGAACCTAGAGACTG
AGAACTGGAGGCTGGAGAGCAAAATCCAGGAGTAACTGGAGAAGAGACCCCATGTCAGAGACTGGGGCCATTACTTCAAG
ACCATCAAGGAACTGAGGGCTCAGATCTTCGCAAATACTGTGGACAATGTCCACATCATTCTGCAGATCGACAATGCCCG
TCTTGCTGCTGATGACTTTAGAGTCAAGTATGAGACAAGAGCTGGCCATGCGCCAGTCTGTGGAGAGCAACATCCATGGG
CTCTTCAAGGTCATTGATGACACCAATGTCACTCTGCTGCAGCTGGAGACAGAGATGGGCGCTCTCAAGGAGGAGCTGCT
CCTCATGAAGAAGAACCATGAAGAGGAAGTAAAAGGCCTGCAAGTCCAGATTGCCAACTCTGGGTTGGCCGTGGAGGTAG
ATGCCCCCAAATCTCAAGTCCTCGCCAAGGTCATGGCAGACATCAGGGCCCAATAGGATGAGCTGTCTCAGAAGAACTCA
GAGAAGCTAGGCAAGTACTGGTCTCAGCAGATTGAGGAGAGCACCACAGTGGTCACCACACACTCTGCCAAGGTCAGAGC
TGCTGAGAAGACA

ORF - retro_ggor_2653 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.73 %
Parental protein coverage: 67.8 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalSPDSMSFTTRSTFSTNYRSLGSVQAPSYGARPVSSAASVYAGAGGSG-SRISVSRSTSFRGGMGSGGLAT
SPDSMSFTT.STFSTNY.SLGSVQ.PSYG..PVSSAAS.YAG.GG.G.S.IS.S.STSF.GG.GSGGLAT
RetrocopySPDSMSFTTPSTFSTNYQSLGSVQPPSYGTWPVSSAASIYAGTGGLG>SQISMSCSTSFWGGLGSGGLAT
ParentalGIAGGLAGMGGIQNEKETMQSLNDRLASYLDRVRSLETENRRLESKIREHLEKKGPQVRDWSHYFKIIED
..AGGLA.MGGIQNEKETMQSLND.L..YLDRVR.LETEN.RLESKI.E.LEK..P.VRDW.HYFK.I..
RetrocopyEMAGGLAEMGGIQNEKETMQSLNDHL-DYLDRVRNLETENWRLESKIQE*LEKR-PHVRDWGHYFKTIKE
ParentalLRAQIFANTVDNARIVLQIDNARLAADDFRVKYET-ELAMRQSVENDIHGLRKVIDDTNITRLQLETEIE
LRAQIFANTVDN..I.LQIDNARLAADDFRVKYET.ELAMRQSVE..IHGL.KVIDDTN.T.LQLETE..
RetrocopyLRAQIFANTVDNVHIILQIDNARLAADDFRVKYET>ELAMRQSVESNIHGLFKVIDDTNVTLLQLETEMG
ParentalALKEELLFMKKNHEEEVKGLQAQIASSGLTVEVDAPKSQDLAKIMADIRAQYDELARKNREELDKYWSQQ
ALKEELL.MKKNHEEEVKGLQ.QIA.SGL.VEVDAPKSQ.LAK.MADIRAQ.DEL..KN.E.L.KYWSQQ
RetrocopyALKEELLLMKKNHEEEVKGLQVQIANSGLAVEVDAPKSQVLAKVMADIRAQ*DELSQKNSEKLGKYWSQQ
ParentalIEESTTVVTTQSAEVGAAETT
IEESTTVVTT.SA.V.AAE.T
RetrocopyIEESTTVVTTHSAKVRAAEKT

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 .67 RPM
SRP007412_cerebellum 0 .00 RPM 3 .62 RPM
SRP007412_heart 0 .03 RPM 0 .09 RPM
SRP007412_kidney 0 .00 RPM 62 .11 RPM
SRP007412_liver 0 .05 RPM 193 .56 RPM
SRP007412_testis 0 .00 RPM 2 .80 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_2653 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2653 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3948
Pan troglodytes retro_ptro_2679
Pongo abelii retro_pabe_3252

Parental genes homology:
Parental genes homology involve 21 parental genes, and 338 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000119812 retrocopies
Canis familiaris ENSCAFG0000000715410 retrocopies
Callithrix jacchus ENSCJAG0000001816529 retrocopies
Cavia porcellus ENSCPOG000000026181 retrocopy
Echinops telfairi ENSETEG000000081301 retrocopy
Homo sapiens ENSG0000011105760 retrocopies
Gorilla gorilla ENSGGOG00000010157 28 retrocopies
Macropus eugenii ENSMEUG0000001226214 retrocopies
Myotis lucifugus ENSMLUG000000224398 retrocopies
Macaca mulatta ENSMMUG000000319114 retrocopies
Mustela putorius furoENSMPUG000000063692 retrocopies
Mus musculus ENSMUSG000000230432 retrocopies
Nomascus leucogenys ENSNLEG0000001773245 retrocopies
Oryctolagus cuniculus ENSOCUG000000276911 retrocopy
Pongo abelii ENSPPYG0000000456360 retrocopies
Pan troglodytes ENSPTRG0000000499658 retrocopies
Pteropus vampyrus ENSPVAG000000093612 retrocopies
Rattus norvegicus ENSRNOG000000473933 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000155873 retrocopies
Tursiops truncatus ENSTTRG000000129772 retrocopies
Vicugna pacos ENSVPAG000000074213 retrocopies



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