RetrogeneDB ID:

retro_ggor_2893

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:X:25333994..25334682(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000025838
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:PAFAH1B2
Ensembl ID:ENSGGOG00000028197
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2893
ATGAACCAAGGAGACTCAAACCCAGCAGCTATTCCGCATGCGGCAGAAGACATTCAAGGAGATGACAGATGGATGTGTCA
GCACAACAGATTTGTTTTGGACTGTAAAGACAAACAGCCTGATGTACCATTTGCGGGAGGCTCCGTGGTGCAGTTACTGC
AGCCATATGAGATATGGCGAGAGCTTTTTTCCCCACTTCATGCACTGAATTTTGGAACTGGGGGAGATACAACAAGCCAT
GTTTTGTGGAGACTAAAGAACGGAGAACTGGGGAATACTAAGCCTAAGGTCATTGTTTTCTGGCTAGGAAGAAACAACCA
TGAAAATATGGCAGAAGAGGTAGCAGGTGGTATGGCGGCCATCGTACAACTTATCAACACAAGGCAGCCACAGGCCAAAA
TCATTATATTTGATCTGTTACCTCAAGGTGAGAAACCCAACCCTTTGAGGCAAAAGAACGCCAAGGTGAACCCACTCGTC
AAGATTTCGCTGCTGAAACTTAACCAACGTGCAGCTCCTGCATACTGACAGGGGTTTCGTGCACTCCGACCGTGCCATCT
CCTGCCACGACATGTTTGATTTTCTGCATTTGACAGGAGGCGGCTACTCAAAGGTCTGCAAACCCTTGAATGAACTGATC
ATGCAGTTGTTGGAGGAAACACCTGAGGAGAAACAAACCACCATTGCC

ORF - retro_ggor_2893 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.16 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSQGDSNPAAIPHAAEDIQGDDRWMSQHNRFVLDCKDKEPDVLFVGDSMVQLMQQYEIWRELFSPLHALN
M.QGDSNPAAIPHAAEDIQGDDRWM.QHNRFVLDCKDK.PDV.F.G.S.VQL.Q.YEIWRELFSPLHALN
RetrocopyMNQGDSNPAAIPHAAEDIQGDDRWMCQHNRFVLDCKDKQPDVPFAGGSVVQLLQPYEIWRELFSPLHALN
ParentalFGIGGDTTRHVLWRLKNGELENIKPKVKLYLCIYTTNRERRKVSRGGCIKFEPGMVRRKRPQPGHVGFGL
FG.GGDTT.HVLWRLKNGEL.N.KPKV.........N.E.......G.............PQ.....F.L
RetrocopyFGTGGDTTSHVLWRLKNGELGNTKPKV-IVFWLGRNNHENMAEEVAGGMAAIVQLINTRQPQAKIIIFDL
ParentalLPRGEKPNPLRQKNAKVNQLLKVSLPK-LANVQLLDTDGGFVHSDGAISCHDMFDFLHLTGGGYAKICKP
LP.GEKPNPLRQKNAKVN.L.K.SL.K.L.NVQLL.TD.GFVHSD.AISCHDMFDFLHLTGGGY.K.CKP
RetrocopyLPQGEKPNPLRQKNAKVNPLVKISLLK>LTNVQLLHTDRGFVHSDRAISCHDMFDFLHLTGGGYSKVCKP
ParentalLHELIMQLLEETPEEKQTTIA
L.ELIMQLLEETPEEKQTTIA
RetrocopyLNELIMQLLEETPEEKQTTIA

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 .86 RPM 21 .77 RPM
SRP007412_cerebellum 0 .95 RPM 15 .92 RPM
SRP007412_heart 0 .34 RPM 3 .44 RPM
SRP007412_kidney 0 .82 RPM 10 .51 RPM
SRP007412_liver 0 .40 RPM 5 .70 RPM
SRP007412_testis 1 .14 RPM 22 .79 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_2893 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2893 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4661
Pan troglodytes retro_ptro_3097
Pongo abelii retro_pabe_3621
Macaca mulatta retro_mmul_2481

Parental genes homology:
Parental genes homology involve 14 parental genes, and 21 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000086282 retrocopies
Canis familiaris ENSCAFG000000132261 retrocopy
Callithrix jacchus ENSCJAG000000126981 retrocopy
Dipodomys ordii ENSDORG000000112741 retrocopy
Felis catus ENSFCAG000000299451 retrocopy
Homo sapiens ENSG000001680922 retrocopies
Gorilla gorilla ENSGGOG00000028197 2 retrocopies
retro_ggor_2893 , retro_ggor_893,
Macaca mulatta ENSMMUG000000020502 retrocopies
Mustela putorius furoENSMPUG000000042461 retrocopy
Nomascus leucogenys ENSNLEG000000073372 retrocopies
Pongo abelii ENSPPYG000000039072 retrocopies
Pan troglodytes ENSPTRG000000043182 retrocopies
Rattus norvegicus ENSRNOG000000180321 retrocopy
Sarcophilus harrisii ENSSHAG000000114031 retrocopy



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