RetrogeneDB ID:

retro_pvam_557

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3745:487743..488965(-)
Located in intron of:ENSPVAG00000012633
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KRT18
Ensembl ID:ENSPVAG00000009361
Aliases:None
Description:keratin 18 [Source:HGNC Symbol;Acc:6430]


Retrocopy-Parental alignment summary:






>retro_pvam_557
ATGAGCTTCAGCACTCACTCCAGATTCTCCACCAGCTATTGGACCCTGGGCTCCATGCAGTTACCCAGCCACCAGGTCCA
GCCGGCCGGCCAGCAGTACAGCCAGCGTGTATGCAGATGCAGAGTGCTCAGGTTCCTAGACCCCCATACCCCACTCTACC
AGCATCCATGATGGCCAGGAGTCCAGAGGCCTGGCCTCATGGATGGCTGGGGGTCTGGCAGGGAAAGGGGGCATCTAGAC
TGAGAAGGAGACTGCAATGCTTGAATGACCACCTGGCCTCCTGCGTGGGGAGAGTGAGGAGCCTGGAGGCTGATAGTTGG
AGACTGAAGAGCAATATCTGGAGACACCTGGAGAAGAAGGAACCCTAGATCAGAGACTGAGGACATTATTTTAAGACCAT
CAAGAACCCAAGGTCTCAGATCTTTGCAAGTTCTATGGACAATGCCCGTATCGTTCTATGGGTTGACAATGTCTGTCTTG
CTGCTGATGACTTCAGAGTCAAGTATGAGACAGAGCTGACCATGCACCAATCTGTGGCGAGTGACATCAATGGGCTTCGA
AAAGTCATTGATGACACCAATATCACTTGACTGTAGCTGGAGACAGAGATTGAAGCTCTCAAGGAGGAGCTGCTCTTCAT
GAAGAAGAGTATGAGAAGGAGGTAAATAGTCTGTGAAACCAGATTGCCAACTCTGGTTTGACCGTGGAGTTGGACGCCCC
GACTTTCAGGACCTCAGTATGATCATGGTAGACATCTGGGCCCTGTATGACAAGCTGGCTTGGAAGAATTGAGAGGAGCT
AGACAAGTACTGGTCCCAACAGACTGAAGAGAGCACCACAGTAGTCACATCACAGACCGCTGAGACAGGAGTGCTGCAAC
GACACTCACAGAGCTGAGACCACTGTCCAGTCCTTGGAGATCTACCTGGACTCGAAAAATCTGAAGGCCAGCTTGGAGAA
CAGCCTGAGGGAGGTGGAAGCACGCTATGCCATGCAGATGGAATAGCTCAACAGGATCCTGCTGCACCTAGAGTCAGAGC
TGGCCAAGACCCAGGCAGAGGGACAGAGCCAGACCCAGGAGTATGAGGCCCTGCTGAACATCAAGGTCAAGCTAGAGGCT
GAAATTGCCACCTACTGCCACCTGTGGGAAGAGGGGGAGGACTTTGATCTTGGTGATGCCCTGGACAGCAACTCCATGAA
ATCCATACAAAGGACCACCACC

ORF - retro_pvam_557 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.84 %
Parental protein coverage: 95.34 %
Number of stop codons detected: 8
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalMSFSTRSSFSTSYRTLGSVQT-PSHRV-RPASSAASVYAGAGGSGSRISVSHSTSVRGGWGSGGLAA-GM
MSFST.S.FSTSY.TLGS.Q..P..R..RPASS.ASVYA.A..SGS.....HSTS...G..S.GLA..G.
RetrocopyMSFSTHSRFSTSYWTLGSMQL>PATRSSRPASSTASVYADAECSGS*TPIPHSTSIHDGQESRGLAS>GW
ParentalAGGLAGIGGIQTEKETMQGLNDRLASYLERVRSLEADNRRLESKIREHLEKKGPQVRDWGRYFKTIEDLR
.G...G.G.........Q.LND.LAS...RVRSLEAD..RL.S.I..HLEKK.P..RD.G.YFKTI...R
RetrocopyLGVWQGKGASRLRRR-LQCLNDHLASCVGRVRSLEADSWRLKSNIWRHLEKKEP*IRD*GHYFKTIKNPR
ParentalAQIFASSVDNAHIVLQIDNARLAADDFRVKYETELAMRQSVESDINGLRKVIDDTNITRLQLETEIEALK
.QIFASS.DNA.IVL..DN..LAADDFRVKYETEL.M.QSV.SDINGLRKVIDDTNIT.L.LETEIEALK
RetrocopySQIFASSMDNARIVLWVDNVCLAADDFRVKYETELTMHQSVASDINGLRKVIDDTNIT*L*LETEIEALK
ParentalEELLFMKKN-HEEEVNGLQNQIANSGLTVELDA-PKSQDLSKIMADIRAQYDELARKNREELDKYWSQQI
EELLFMKK...E.EVN.L.NQIANSGLTVELDA.P..QDLS.IM.DI.A.YD.LA.KN.EELDKYWSQQ.
RetrocopyEELLFMKKS<YEKEVNSL*NQIANSGLTVELDA<PDFQDLSMIMVDIWALYDKLAWKN*EELDKYWSQQT
ParentalEESTTVVTSQTAEIG-AAEMTLTELR-RTVQSLEIDLNSMKNLKASLENSLTEVEARYAMQMEQLNGILL
EESTTVVTSQTAE.G..A..TLTELR..TVQSLEI.L.S.KNLKASLENSL.EVEARYAMQME.LN.ILL
RetrocopyEESTTVVTSQTAETG<SAATTLTELR<TTVQSLEIYLDS-KNLKASLENSLREVEARYAMQME*LNRILL
ParentalHLESELAQTRAEGQRQAQEYEALLNIKVKLEAEIATYRRLLEEGEDFDLSDALDSNSMQSIQKTTT
HLESELA.T.AEGQ.Q.QEYEALLNIKVKLEAEIATY..L.EEGEDFDL.DALDSNSM.SIQ.TTT
RetrocopyHLESELAKTQAEGQSQTQEYEALLNIKVKLEAEIATYCHLWEEGEDFDLGDALDSNSMKSIQRTTT

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






Pteropus vampyrus was not studied using RNA-Seq expression data.
Pteropus vampyrus was not studied using ChIP-Seq data.
Pteropus vampyrus was not studied using EST data.
Pteropus vampyrus was not studied using FANTOM5 data.
retro_pvam_557 was not experimentally validated.

Retrocopy orthology:
Pteropus vampyrus 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 17 parental genes, and 174 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000119812 retrocopies
Canis familiaris ENSCAFG0000000715410 retrocopies
Callithrix jacchus ENSCJAG0000001816529 retrocopies
Cavia porcellus ENSCPOG000000026181 retrocopy
Gorilla gorilla ENSGGOG0000001015728 retrocopies
Macropus eugenii ENSMEUG0000001226214 retrocopies
Myotis lucifugus ENSMLUG000000224398 retrocopies
Macaca mulatta ENSMMUG000000319114 retrocopies
Mustela putorius furoENSMPUG000000063692 retrocopies
Mus musculus ENSMUSG000000230432 retrocopies
Oryctolagus cuniculus ENSOCUG000000276911 retrocopy
Pongo abelii ENSPPYG0000000456360 retrocopies
Pteropus vampyrus ENSPVAG00000009361 2 retrocopies
retro_pvam_140, retro_pvam_557 ,
Rattus norvegicus ENSRNOG000000473933 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000155873 retrocopies
Tursiops truncatus ENSTTRG000000129772 retrocopies
Vicugna pacos ENSVPAG000000074213 retrocopies



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