RetrogeneDB ID:

retro_nleu_1578

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397300.1:8425392..8426690(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSNLEG00000019050
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:PSMC2
Ensembl ID:ENSNLEG00000009274
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1578
ATGCCAGATTACCTTGGTGCCCATCAGCGGAAGACCAAAGAAGATGAGAAGGACGACAAGCTCATCCAAGTTCTGGATGA
GGCGGATATTGTCTTGCTGAAAACTTATGGTCAGAGCACTTACTCTAGGCAGATCAAGCAAGTCGAAGATGGCATTCAGC
AACTTCTCAAGAAAATTAATGAGCTCATTGGTATTAAGGAATCTGACACTGGCCTGGCCCCACCAGCACTCTGGGATTTG
GCTGCAGATAAGCAGACACTCCAGAGTAAACAGCCTTTACAGGTTGCCAGGTGTACAAAGATAATCAATGCTGATTCAGA
GGACCCAAAATACATTGTCAATGTAAAGCGGTTTGCCAAGTTTGTGATGGACTTTAGTGATCAGGTGGCACCCACTGACA
TTGAAGAAGGGATGAGAGTAGGTGTGGACCGAAATAAATATCAAATTCACATTCCATTGCCTCCTAAGACTGACCCAACA
GTTACCACGATGCAGGTGGAGGAAAAACCTGATGTCACATACAGTAATGTCAGTGACTGTAAGGAGCAGATTGAGAAATT
GCGAGAAGTAGTTGAAACCCCATTACTTCATCCAGACAGGTTTGTGAATCTCAGCATTGAGGCTCCCAAGGGCATGCTGC
TCTTTAATCCACCCAGTACAGGAAGACACTCTGTGTGCAGGCAGTTGCTAATCAGACTGATGCGTGCTTCATTCGAGTTA
TTGGATCTGAGCAGTACAGAAATATGTCAGTTAGAGGGCTCAAATGGTTAATGAGCCCTTTGAAATGGCCAGAACAAAAA
AAGCCTGCCTTATCTTCTTTGATGAAATTGATGCTATTGGAGGGGCTCGGTTTGATGACGGTGCTAGAGGTGACAATGAA
GTGCAGAGAACAATGTTGGAACTGATCAATCAGCTTGATGGTTTTGATCCTCGAGGCAATATTAAAGTGCTGATGGCCAC
TAACTGACCTGATAATTTGGATCCAGCACTGATGAGGCCAGGGAGATTAGATAGAAAAAATTGAATTTAGCTTGCCCGAT
CTAAAGGGTCGGACCCACATCTTTAAGATTCATGCTCATTCAATGAGTGTTGAAAGACATATCAGATTTGAATTGTTAGC
ACGACTGTGTCCAAATGGCACTGCTGCTGAGATTAGAAGTGTCTGCACAGAAGCTGGTATGTTTGCCATCAGAGCACGGC
GAAAAATTGCTACTGAGAAGGATTTCTTGGAAGCTGTAAATAATGTCATTAAGTCTTATGCCAAATTCAGTGCTACTCCT
CGCTACATGACATACAAC

ORF - retro_nleu_1578 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMPDYLGADQRKTKEDEKDDKPIRALDEGDIALLKTYGQSTYSRQIKQVEDDIQQLLKKINELTGIKESDT
MPDYLGA.QRKTKEDEKDDK.I..LDE.DI.LLKTYGQSTYSRQIKQVED.IQQLLKKINEL.GIKESDT
RetrocopyMPDYLGAHQRKTKEDEKDDKLIQVLDEADIVLLKTYGQSTYSRQIKQVEDGIQQLLKKINELIGIKESDT
ParentalGLAPPALWDLAADKQTLQSEQPLQVARCTKIINADSEDPKYIINVKQFAKFVVDLSDQVAPTDIEEGMRV
GLAPPALWDLAADKQTLQS.QPLQVARCTKIINADSEDPKYI.NVK.FAKFV.D.SDQVAPTDIEEGMRV
RetrocopyGLAPPALWDLAADKQTLQSKQPLQVARCTKIINADSEDPKYIVNVKRFAKFVMDFSDQVAPTDIEEGMRV
ParentalGVDRNKYQIHIPLPPKIDPTVTMMQVEEKPDVTYSDVGGCKEQIEKLREVVETPLLHPERFVNLGIEPPK
GVDRNKYQIHIPLPPK.DPTVT.MQVEEKPDVTYS.V..CKEQIEKLREVVETPLLHP.RFVNL.IE.PK
RetrocopyGVDRNKYQIHIPLPPKTDPTVTTMQVEEKPDVTYSNVSDCKEQIEKLREVVETPLLHPDRFVNLSIEAPK
ParentalGVLLFGPPGTG-KTLCARAVANRTDACFIRVIGSE-LVQKYVGEGARMVRELFEMARTKKACLIFFDEID
G.LLF.PP.TG.KTLC..AVAN.TDACFIRVIGSE..VQKYV...A.MV.E.FEMARTKKACLIFFDEID
RetrocopyGMLLFNPPSTG<KTLCVQAVANQTDACFIRVIGSE<AVQKYVS*RAQMVNEPFEMARTKKACLIFFDEID
ParentalAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDR-KIEFSLPD
AIGGARFDDGA.GDNEVQRTMLELINQLDGFDPRGNIKVLMATN.PD.LDPALMRPGRLDR.KIEFSLPD
RetrocopyAIGGARFDDGARGDNEVQRTMLELINQLDGFDPRGNIKVLMATN*PDNLDPALMRPGRLDR>KIEFSLPD
ParentalLEGRTHIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKIATEKDFLEAVNKVI
L.GRTHIFKIHA.SMSVER.IRFELLARLCPN.T.AEIRSVCTEAGMFAIRARRKIATEKDFLEAVN.VI
RetrocopyLKGRTHIFKIHAHSMSVERHIRFELLARLCPNGTAAEIRSVCTEAGMFAIRARRKIATEKDFLEAVNNVI
ParentalKSYAKFSATPRYMTYN
KSYAKFSATPRYMTYN
RetrocopyKSYAKFSATPRYMTYN

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_1578 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 13 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG000000057291 retrocopy
Homo sapiens ENSG000001610572 retrocopies
Gorilla gorilla ENSGGOG000000091673 retrocopies
Myotis lucifugus ENSMLUG000000088531 retrocopy
Macaca mulatta ENSMMUG000000034322 retrocopies
Monodelphis domestica ENSMODG000000172381 retrocopy
Mustela putorius furoENSMPUG000000182683 retrocopies
Nomascus leucogenys ENSNLEG00000009274 2 retrocopies
retro_nleu_1578 , retro_nleu_2042,
Otolemur garnettii ENSOGAG000000051642 retrocopies
Pongo abelii ENSPPYG000000178832 retrocopies
Pan troglodytes ENSPTRG000000195532 retrocopies
Tarsius syrichta ENSTSYG000000006664 retrocopies
Vicugna pacos ENSVPAG000000089211 retrocopy



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