RetrogeneDB ID:

retro_pcap_68

Retrocopy
location
Organism:Hyrax (Procavia capensis)
Coordinates:GeneScaffold_3869:3396..3932(+)
Located in intron of:ENSPCAG00000008797
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDH
Ensembl ID:ENSPCAG00000006928
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase [Source:HGNC Symbol;Acc:4141]


Retrocopy-Parental alignment summary:






>retro_pcap_68
ATGGTGAAGGTTAGAGTGAACAGATTTGGCTATACTGGGCACTGGGTCACCAGGGCTGCTTTTTACTCCCACAAAGCTGC
CATTTTTACCATCGATGACCCTTTCACTGACCTCTACTACATGGTCTACATGTTCCAGTATGATTCTACCCTTGGCAAGT
TACATGGCATTGTCAAAGCTGAGAACGGAAACCTTGTCATCAATGGAAAGTACGTCTCTATCTTCCAGGAAGGACATCCC
CCCACATAAAGTGAGGTGATGCCGGTGCTGGCTATGTTGTGGAGTCCACTGATGTATTCACAACCATGGAGAAGGCTGCA
GCTTGCTAGAAGGGTAGTATCAAAAGGGTAATCATCTCTCTCTCTTCTGCCAGGGCCCCCATGTTTGTGATGGAGTGAAC
CTCAGAAGTATGACAATTTCCTTATGACTGTCAGAAATGGTTCCTGCACCACCAGCTGCTTGGCCACCGTGGCCAAGGTC
ATCCATGACACCTTTGCATCTTGGAGGGACACATGACCACAGTCCAGGCCATCACT

ORF - retro_pcap_68 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.02 %
Parental protein coverage: 54.05 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMVKVGVNGFGRIGRLVTRAAFNSGKVDIVAINDPFIDLHYMVYMFQYDSTHGKFHGTVKAENGKLVINGK
MVKV.VN.FG..G..VTRAAF.S.K..I..I.DPF.DL.YMVYMFQYDST.GK.HG.VKAENG.LVINGK
RetrocopyMVKVRVNRFGYTGHWVTRAAFYSHKAAIFTIDDPFTDLYYMVYMFQYDSTLGKLHGIVKAENGNLVINGK
ParentalHITIFQERDP-ANIKWGDAGAEYVVESTGVFTTMEKAGAHLKGGAKRVIISAPSADAPMFVM-GVN-HEK
...IFQE..P...IK.GDAGA.YVVEST.VFTTMEKA.A..KG..KRVIIS..SA.APMFVM.GVN...K
RetrocopyYVSIFQEGHP<PHIK*GDAGAGYVVESTDVFTTMEKAAAC*KGSIKRVIISLSSARAPMFVM<GVN<PQK
ParentalYDKSLKIVSNASCTTNCLAPLAKVIHDNFG-IVEGLMTTVHAIT
YD..L..V.N.SCTT.CLA..AKVIHD.F..I.EG.MTTV.AIT
RetrocopyYDNFLMTVRNGSCTTSCLATVAKVIHDTFA<ILEGHMTTVQAIT

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