RetrogeneDB ID:

retro_ptro_1246

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:18:2115172..2115589(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM207A
Ensembl ID:ENSPTRG00000013995
Aliases:None
Description:family with sequence similarity 207, member A [Source:HGNC Symbol;Acc:15811]


Retrocopy-Parental alignment summary:






>retro_ptro_1246
TCCATCAGGAGAGGTGCAGAGGCCAAGACCGTTTTGCCCAAGGAGAAAATGAAGCTGAGGCGTGAGCAATGGTTGCAGAA
AATCGAAGCCATAAAACTGGCTGAGCAGAAGCACAGGGAGGAGCGGAGGTAGAGGGCCAGGGTGGTGGTGGGGGACCTGC
ACCTGCTCAGGGGTGCCCTACCTGAGCTGCTGGGGCTTGAGGCTGGCAGCCGGGGCCAAGCCTGCAGCAGGGAGAGCAAC
AAGCCCTGGCCCTCAGAGCTCAGCCGGATGAGCGCAGCCCAGAGACAGCAGCTTCTCGAGGAAGAAAGGACTCGTTTTCA
GGAGCTGCTGGCCAGTCCGGCCTACAGAGCCAGCCCCCTGTTAGCCATCGGGCAGACGCTGGCCCGGCAGATGCAGCTGG
AAGATGGCGGCCAGCTC

ORF - retro_ptro_1246 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.43 %
Parental protein coverage: 60.61 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSLSSGAEAKTVLPKKEKMKLRREQWLQKIEAIKLAEQKHREERRRRATVVVGDLHPLRDALPELLGLEAG
S...GAEAKTVLPK.EKMKLRREQWLQKIEAIKLAEQKHREERR.RA.VVVGDLH.LR.ALPELLGLEAG
RetrocopySIRRGAEAKTVLPK-EKMKLRREQWLQKIEAIKLAEQKHREERR*RARVVVGDLHLLRGALPELLGLEAG
ParentalSRRQARSRESNKPRPSELSRMSAAQRQQLLEEERTRFQELLASPAYRASPLVAIGQTLARQMQLEDGGQL
SR.QA.SRESNKP.PSELSRMSAAQRQQLLEEERTRFQELLASPAYRASPL.AIGQTLARQMQLEDGGQL
RetrocopySRGQACSRESNKPWPSELSRMSAAQRQQLLEEERTRFQELLASPAYRASPLLAIGQTLARQMQLEDGGQL

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 6 .92 RPM
SRP007412_cerebellum 0 .00 RPM 5 .16 RPM
SRP007412_heart 0 .00 RPM 2 .89 RPM
SRP007412_kidney 0 .00 RPM 6 .17 RPM
SRP007412_liver 0 .00 RPM 7 .17 RPM
SRP007412_testis 0 .00 RPM 6 .74 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1246 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1246 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1246 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1167

Parental genes homology:
Parental genes homology involve 4 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Homo sapiens ENSG000001602564 retrocopies
Gorilla gorilla ENSGGOG000000144821 retrocopy
Loxodonta africana ENSLAFG000000105421 retrocopy
Pan troglodytes ENSPTRG00000013995 3 retrocopies
retro_ptro_1246 , retro_ptro_1446, retro_ptro_803,



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