RetrogeneDB ID:

retro_ggor_2119

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:4:127118302..127119310(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000008099
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:NT5C3
Ensembl ID:ENSGGOG00000028164
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2119
ATGAGGGCCCGGTCCATGGACCGCGCGGCCGTGGCGAGGGTGGGCGCGGTAGTGAGCGCCAGCGTGTGCGCCCTGGTGGC
GGGGGTGGTGCTGGCTCAGTACATATTCACCTTGAAGAGGAAGATGGGGCGGAAGACCAAGATCATCGAGATGATGCCAG
AATTCCAGAAAAGTTCAGTTCGAATCAAGAACCTTACAAGAGTAGAAGAAGTGATCTGTGGTCTTATCAAAGGAGGAGCT
GCCAAACTTCAGATAATAACAGACTTTGATATGACATTCAGTAGATTTTCATACAAAGGGAAAAGATGCCCAACATGTCA
TAATAGCATTGACAACTGTCAGCTGGTTACAGATGAATGTAGAAAAAAGTTATCGCAACTAAAGAAAAAATATTACGCTA
TTGAAGTTGATCCTGTTCTTACTGTAGAAGAGAAGTACCCTTATATGGTGGAATGGTATACTAAATCACATGGTTTGCTT
GGTCAACAAGCTTTACCAAAAGCTAAACTTAAAGAAATTGTGGCAGAATCTGACGTTATGCTCAAAGAAAGATATGAAGA
ATTTCTTTGATAAGCTCCAACAACATAGTATCCCCGTGTTCATATTTTCGGCTGGAATCGGCGATGTACTAGAGGAGGTT
ATTCGTCAAGCTGGTGTTTATCATCCAAATGTCAAAGTTGTGTCCAATTTTATGGATTTTGATGAAACTGGGGTGCGCAA
AGATTTAAAGGAGTTCTAATTCATATATTTAACAAACATGATGGTGCCTTGAGGAATACAGAATATTTCAATCAACTAAA
AGGCAATAGTAACATAATTCTTCTGGGAGCCTCCCAAGGAGACTTAAGAATGGCAGATGGAGTGGCCAATGTTGAGCACA
TTCTGAAAATTGGATATCTAAATGACAGAGTGGATGAGCTTTTAGAAAAGTACATGGACTCTTATGATATTGTTTTAGTA
CAAGATGAATCATTAGAAGTAGCCAACTCTATTTTACAGAAGATTCTA

ORF - retro_ggor_2119 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.57 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMRAPSMDRAAVARVGAVASASVCALVAGVVLAQYIFTLKRKTGRKTKIIEMLSQKKKTSYRIYGLNRRQS
MRA.SMDRAAVARVGAV.SASVCALVAGVVLAQYIFTLKRK.GRKTKIIEM.....K.S.RI..L.R...
RetrocopyMRARSMDRAAVARVGAVVSASVCALVAGVVLAQYIFTLKRKMGRKTKIIEMMPEFQKSSVRIKNLTRVEE
ParentalFLCGIMMNGMRKFNIITDFDMTLSRFSYKGKRCPTCHNIIDNCKLVTDECRKKLLQLKEKYYAIEVDPVL
..CG....G..K..IITDFDMT.SRFSYKGKRCPTCHN.IDNC.LVTDECRKKL.QLK.KYYAIEVDPVL
RetrocopyVICGLIKGGAAKLQIITDFDMTFSRFSYKGKRCPTCHNSIDNCQLVTDECRKKLSQLKKKYYAIEVDPVL
ParentalTVEEKYPYMVEWYTKSHGLLVQQALPKAKLKEIVAESDVMLKEGYE-NFFDKLQQHSIPVFIFSAGIGDV
TVEEKYPYMVEWYTKSHGLL.QQALPKAKLKEIVAESDVMLKE.YE.NFFDKLQQHSIPVFIFSAGIGDV
RetrocopyTVEEKYPYMVEWYTKSHGLLGQQALPKAKLKEIVAESDVMLKERYE>NFFDKLQQHSIPVFIFSAGIGDV
ParentalLEEVIRQAGVYHPNVKVVSNFMDFDETGVLRG-FKGELIHVFNKHDGALRNTEYFNQLKDNSNIILLGDS
LEEVIRQAGVYHPNVKVVSNFMDFDETGV....FKG.LIH.FNKHDGALRNTEYFNQLK.NSNIILLG.S
RetrocopyLEEVIRQAGVYHPNVKVVSNFMDFDETGVRKD<FKGVLIHIFNKHDGALRNTEYFNQLKGNSNIILLGAS
ParentalQGDLRMADGVANVEHILKIGYLNDRVDELLEKYMDSYDIVLVQDESLEVANSILQKIL
QGDLRMADGVANVEHILKIGYLNDRVDELLEKYMDSYDIVLVQDESLEVANSILQKIL
RetrocopyQGDLRMADGVANVEHILKIGYLNDRVDELLEKYMDSYDIVLVQDESLEVANSILQKIL

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 4 .36 RPM
SRP007412_cerebellum 0 .63 RPM 6 .19 RPM
SRP007412_heart 0 .06 RPM 1 .56 RPM
SRP007412_kidney 0 .70 RPM 13 .13 RPM
SRP007412_liver 0 .40 RPM 9 .23 RPM
SRP007412_testis 0 .83 RPM 10 .26 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_2119 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2119 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3084
Pan troglodytes retro_ptro_2082

Parental genes homology:
Parental genes homology involve 11 parental genes, and 14 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066241 retrocopy
Bos taurus ENSBTAG000000167091 retrocopy
Canis familiaris ENSCAFG000000031541 retrocopy
Equus caballus ENSECAG000000117771 retrocopy
Homo sapiens ENSG000001226431 retrocopy
Gorilla gorilla ENSGGOG00000028164 1 retrocopy
retro_ggor_2119 ,
Mustela putorius furoENSMPUG000000055462 retrocopies
Pteropus vampyrus ENSPVAG000000131822 retrocopies
Rattus norvegicus ENSRNOG000000059811 retrocopy
Sus scrofa ENSSSCG000000229121 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000263632 retrocopies



Copyright © RetrogeneDB 2014-2017