RetrogeneDB ID:

retro_pvam_112

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_143:182964..183902(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPVAG00000012710
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:WDR5
Ensembl ID:ENSPVAG00000001666
Aliases:None
Description:WD repeat domain 5 [Source:HGNC Symbol;Acc:12757]


Retrocopy-Parental alignment summary:






>retro_pvam_112
TCATCAGCCAATGGAAGCAAGCAAGCATCTGAAAACCCAAACTATACTCTCAAATTTACTCTGGTGGGACATACGGAAGC
AGTGTCATCAGTTAAGTTTAGTCCTAATGGAGAATGGCTAGCAAGTCTTCTGCTGATAAAGTAATTATAATTTGGGGAGC
CTATGATGGAAAATATGAGAAAACACTTTATGGTCACAATTTGGAAATATCGGATGTTGATTGGTCATCAGATTCCAGTC
GTCTTGTTTCTGCCTCAGATGATAAAACTCTAAAGATTTGGGATGTGAGGTCTGGAAAATGTCTGAAAACGCTGAAAGGG
CACAGTAATTATGTTTTCTGCTGTAATTTCAATCCACTATCTAACCTTATAATTTCAGGCTCTTTTGATGAGAGTGTGAA
AATATGGGAGGTGAAAACGGGAAAGTGCCTCAAGACTCTATCTGCTCATTCTGATCCAGTTTCTGCTGTTCATTTTAATT
GTAGTGGGTCCTTGATAGTATCAGGTAGCTATGATGGTGTCTGTAGAATCTGGGATGCTGCATCAGGTCAGTGTTTAAAA
GCACTTGTTGATGATGATAACCCTCCTGTATCTTTTGTAAAATTTTCTCCAAATGGTAAATATATTCTGATGGCGACTTT
GGACAATACTCTTAAATTATGGGATTATAGCAGAGGCAGATGCCTGAAGACATACACTGGCCATAAGAATGAGAAATACT
GCATATTTGCCAATTTTTCGGTTACTGGTGGAAAGTGGATTGTGTCTGGTTCAGAGGATAACCTGATTTACATTTGGAAC
CTTCAGACAAAAGAGATTGTACAGAAATTACAAGGGCATACAGATGTTGTAATCTCAGCAGCTTGTCATCCTACAGAAAA
CATCATTGCATCAGCAGCATTAGAAAATGACAAAACAATTAAACTGTGGATGAGTAAC

ORF - retro_pvam_112 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.62 %
Parental protein coverage: 93.71 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSSATQSKPAPVKPNYALKFTLAGHTKAVSSVKFSPNGEWLAS-SSADKLIKIWGAYDGKFEKTISGHKLG
SSA..SK.A...PNY.LKFTL.GHT.AVSSVKFSPNGEWLAS.SSADK.I.IWGAYDGK.EKT..GH.L.
RetrocopySSANGSKQASENPNYTLKFTLVGHTEAVSSVKFSPNGEWLAS<SSADKVIIIWGAYDGKYEKTLYGHNLE
ParentalISDVAWSSDSNLLVSASDDKTLKIWDVSSGKCLKTLKGHSNYVFCCNFNPQSNLIVSGSFDESVRIWDVK
ISDV.WSSDS..LVSASDDKTLKIWDV.SGKCLKTLKGHSNYVFCCNFNP.SNLI.SGSFDESV.IW.VK
RetrocopyISDVDWSSDSSRLVSASDDKTLKIWDVRSGKCLKTLKGHSNYVFCCNFNPLSNLIISGSFDESVKIWEVK
ParentalTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLCRIWDTASGQCLKTLIDDDNPPVSFVKFSPNGKYI
TGKCLKTL.AHSDPVSAVHFN..GSLIVS.SYDG.CRIWD.ASGQCLK.L.DDDNPPVSFVKFSPNGKYI
RetrocopyTGKCLKTLSAHSDPVSAVHFNCSGSLIVSGSYDGVCRIWDAASGQCLKALVDDDNPPVSFVKFSPNGKYI
ParentalLAATLDNTLKLWDYSKGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDSLVYIWNLQTKEVVQKLQG
L.ATLDNTLKLWDYS.G.CLKTYTGHKNEKYCIFANFSVTGGKWIVSGSED.L.YIWNLQTKE.VQKLQG
RetrocopyLMATLDNTLKLWDYSRGRCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNLIYIWNLQTKEIVQKLQG
ParentalHTDVVISTACHPTENIIASAALENDKTIKLWKSD
HTDVVIS.ACHPTENIIASAALENDKTIKLW.S.
RetrocopyHTDVVISAACHPTENIIASAALENDKTIKLWMSN

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_112 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 26 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000111791 retrocopy
Bos taurus ENSBTAG000000470311 retrocopy
Canis familiaris ENSCAFG000000198301 retrocopy
Callithrix jacchus ENSCJAG000000101231 retrocopy
Cavia porcellus ENSCPOG000000147901 retrocopy
Dipodomys ordii ENSDORG000000150101 retrocopy
Equus caballus ENSECAG000000173891 retrocopy
Echinops telfairi ENSETEG000000157311 retrocopy
Felis catus ENSFCAG000000057121 retrocopy
Homo sapiens ENSG000001963631 retrocopy
Gorilla gorilla ENSGGOG000000049972 retrocopies
Loxodonta africana ENSLAFG000000111921 retrocopy
Microcebus murinus ENSMICG000000080851 retrocopy
Myotis lucifugus ENSMLUG000000022361 retrocopy
Macaca mulatta ENSMMUG000000141591 retrocopy
Mustela putorius furoENSMPUG000000121841 retrocopy
Mus musculus ENSMUSG000000269171 retrocopy
Nomascus leucogenys ENSNLEG000000134721 retrocopy
Otolemur garnettii ENSOGAG000000089601 retrocopy
Procavia capensis ENSPCAG000000134761 retrocopy
Pan troglodytes ENSPTRG000000236532 retrocopies
Pteropus vampyrus ENSPVAG00000001666 1 retrocopy
retro_pvam_112 ,
Rattus norvegicus ENSRNOG000000082121 retrocopy
Sus scrofa ENSSSCG000000249121 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000158991 retrocopy
Drosophila melanogaster FBgn00400661 retrocopy



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