RetrogeneDB ID:

retro_ptro_3291

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:Y:13357560..13358010(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPTRG00000016949
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_3291
GGTACACCAGGGGTTGGAAGAATCACACTTGGCAAAGAACTTGCGTCAATATCAGGACTGAAATACATTGATGTGGGTGA
TTTATCTTGAGAAGAGCAATTGTTTGATGGCTATGATGAAGAGTATGATTGTCCTGTTTTAGATGAAGACAGAGTAGTTC
ATGAGTTAGATAACCAAATGAGAGAAGGTGGAGTTATTGTTGATTACCACGGTTTTGGTTTCCTCCCTAAAGGCTGGTTT
CATATAGTTTTTGTGCTGAGGACAGATACCAATGTATTGTGCGAAAGACTTGAAACAAGGGGTTATAATGAGAAGACTCT
AACAGACAATATTCAGTGTGAGATTATTCAAGTTCTTTATGAAGAAGCCACAACATCCCATAAGGAAGAAATTGTGCATC
AGTTGCCCAGAAGTATACCAGAAGAGCTAGAAAATAATGTAGATCACATT

ORF - retro_ptro_3291 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.67 %
Parental protein coverage: 88.76 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVDELDNQMREGGVIVDYH
GTPGVG..TLGKELAS.SGLKYI.VGDL..EEQL.DGYDEEYDCP.LDEDRVV.ELDNQMREGGVIVDYH
RetrocopyGTPGVGRITLGKELASISGLKYIDVGDLS*EEQLFDGYDEEYDCPVLDEDRVVHELDNQMREGGVIVDYH
ParentalGCDFFPERWFHIVFVLRTDTNVLYERLETRGYNEKKLTDNIQCEIFQVLYEEATASYKEEIVHQLPSNKP
G..F.P..WFHIVFVLRTDTNVL.ERLETRGYNEK.LTDNIQCEI.QVLYEEAT.S.KEEIVHQLP...P
RetrocopyGFGFLPKGWFHIVFVLRTDTNVLCERLETRGYNEKTLTDNIQCEIIQVLYEEATTSHKEEIVHQLPRSIP
ParentalEELENNVDQI
EELENNVD.I
RetrocopyEELENNVDHI

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 13 .35 RPM
SRP007412_cerebellum 0 .00 RPM 11 .65 RPM
SRP007412_heart 0 .00 RPM 16 .47 RPM
SRP007412_kidney 0 .00 RPM 12 .32 RPM
SRP007412_liver 0 .00 RPM 9 .00 RPM
SRP007412_testis 0 .00 RPM 104 .96 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_3291 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_3291 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_3291 has 6 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4925
Homo sapiens retro_hsap_4936
Pan troglodytes retro_ptro_3303
Pan troglodytes retro_ptro_3286
Pan troglodytes retro_ptro_3308
Pan troglodytes retro_ptro_3299

Parental genes homology:
Parental genes homology involve 17 parental genes, and 67 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000124714 retrocopies
Callithrix jacchus ENSCJAG000000364211 retrocopy
Dasypus novemcinctus ENSDNOG000000245243 retrocopies
Gorilla gorilla ENSGGOG000000155451 retrocopy
Macropus eugenii ENSMEUG0000001602212 retrocopies
Myotis lucifugus ENSMLUG000000289324 retrocopies
Monodelphis domestica ENSMODG0000001942114 retrocopies
Mustela putorius furoENSMPUG000000145881 retrocopy
Mus musculus ENSMUSG000000789412 retrocopies
Nomascus leucogenys ENSNLEG000000040862 retrocopies
Oryctolagus cuniculus ENSOCUG000000209701 retrocopy
Otolemur garnettii ENSOGAG000000277364 retrocopies
Pongo abelii ENSPPYG000000155273 retrocopies
Pan troglodytes ENSPTRG00000016949 10 retrocopies
Rattus norvegicus ENSRNOG000000398481 retrocopy
Sarcophilus harrisii ENSSHAG000000172162 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000244482 retrocopies



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