RetrogeneDB ID:

retro_ptro_1716

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:2B:177931430..177931661(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBY1
Ensembl ID:ENSPTRG00000014373
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1716
AGCCAGAAGTTTGAAAATGGCCGGTGGATAGCAGAGACAGGGATTAGTGGAGGTGTGGACCGGAGGGAGGCCCAGTGCCT
TCACAGGCAGAACTAGCAACTGGAGGAAGAGAACAGTCTCTTGCAGCTGAAAGTGGACATTCTGCTGGACATGTTTTCAG
AGACCACTGCTAAATCCCTTTTAATGGAGAAGGAAATGGATGCATGGAAGAGTGTCAGCCAGAGGAGAAAA

ORF - retro_ptro_1716 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.43 %
Parental protein coverage: 60.32 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSLKFENGQWIAETGVSGGVDRREVQRLRRRNQQLEEENNLLRLKVDILLDMLSESTAESHLMEKELDELR
S.KFENG.WIAETG.SGGVDRRE.Q.L.R.N.QLEEEN.LL.LKVDILLDM.SE.TA.S.LMEKE.D...
RetrocopySQKFENGRWIAETGISGGVDRREAQCLHRQN*QLEEENSLLQLKVDILLDMFSETTAKSLLMEKEMDAWK
Parental-ISRKRK
..S..RK
RetrocopySVSQRRK

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 14 .66 RPM
SRP007412_cerebellum 0 .00 RPM 18 .21 RPM
SRP007412_heart 0 .00 RPM 12 .47 RPM
SRP007412_kidney 0 .00 RPM 24 .90 RPM
SRP007412_liver 0 .00 RPM 11 .16 RPM
SRP007412_testis 0 .11 RPM 17 .81 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1716 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1716 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1716 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2344
Gorilla gorilla retro_ggor_1781

Parental genes homology:
Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000013842 retrocopies
Dasypus novemcinctus ENSDNOG000000109821 retrocopy
Homo sapiens ENSG000001002111 retrocopy
Gorilla gorilla ENSGGOG000000132261 retrocopy
Myotis lucifugus ENSMLUG000000037572 retrocopies
Mustela putorius furoENSMPUG000000131501 retrocopy
Nomascus leucogenys ENSNLEG000000151531 retrocopy
Otolemur garnettii ENSOGAG000000285331 retrocopy
Pan troglodytes ENSPTRG00000014373 1 retrocopy
retro_ptro_1716 ,
Vicugna pacos ENSVPAG000000014841 retrocopy



Copyright © RetrogeneDB 2014-2017