RetrogeneDB ID:

retro_vpac_8

Retrocopy
location
Organism:Alpaca (Vicugna pacos)
Coordinates:scaffold_9829:8227..10081(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSVPAG00000001572
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:KLHL13
Ensembl ID:ENSVPAG00000003091
Aliases:None
Description:kelch-like family member 13 [Source:HGNC Symbol;Acc:22931]


Retrocopy-Parental alignment summary:






>retro_vpac_8
ATGAAAGTGTCTCTTGGTAACGGTGAAATGGGCGTCTCTGCCCATCTACAGCCTTGTAAGGCAGGAACTACACGTTTTTT
CACCAGCAATACTCACAGTTCGGTGGTATTGCAAGGCTTTGATCAGCTTAGAATAGAAGGGTTGCTTTGTGATGTGACCC
TGGTACCAGGTGATGGAGATGAAATCTTCCCGGTGCATCGAGCTATGATGGCGTCTGCTAGTGATTATTTCAAGGCTATG
TTCACAGGTGGAATGAAAGAACAAGATTTAATGTGCATTAAGCTTCATGGGGTTAACAAAGTTGGTCTGAAAAAAATAAT
TGATTTTATTTATACTGCAAAACTTTCTCTTAATATGGACAATCTTCAGGACACACTGGAAGCTGCCAGCTTTTTACAAA
TTTTACCTGTTTTAGACTTCTGTAAAGTATTTCTTATTTCAGGAGTCTCTTTAGATAACTGTGTTGAAGTTGGACGAATT
GCCAACACCTACAATCTTATAGAAGTAGATAAATATGTCAATAATTTCATTCTGAAGAATTTTCCTGCATTGTTGGGTAC
TGGGGAGTTTCTAAAGCTCCCTTTTGAACGGCTTGCCTTTGTGCTTTCCAGCAATAGTCTTAAGCACTGTACTGAGCTTG
AGCTCTTCAAGGCTGCCTGTCGCTGGCTAAGGTTGGAAGACCCCCGGATGGATTATGCTGCAAAATTAATGAAGAATATT
CGTTTCCCACTGATGACACCACAGGACCTCATCAATTATGTGCAGACAGTAGATTTCATGAGAACAGACAATACCTGTGT
GAATTTGCTTTTGGAAGCTAGCAATTACCAAATGATGCCATATATGCAGCCAGTGATGCAGTCAGATAGAACTGCTATTC
GATCTGACTCGACTCACTTGGTTACATTAGGAGGGGTTTTGAGGCAGCAGCTGGTTGTCAGTAAAGAATTACGCATGTAT
GATGAAAGGGCTCAAGAGTGGAGATCTTTAGCCCCCATGGATGCGCCTCGTTACCAACATGGCATTGCTGTCATTGGAAA
CTTTCTTTATGTCGTTGGTGGTCAGAGTAATTATGATACAAAAGGAAAAACTGCTGTAGATACAGTTTTCAGATTTGATC
CTCGGTATAATAAGTGGATGCAGGTTGCATCATTAAATGAAAAGCGCACATTTTTCCACTTGAGTGCTCTCAAAGGACAC
TTGTATGCGGTTGGTGGGAGAAGTGCAGCTGGTGAACTGGCCACAGTAGAATGTTACAATCCAAGAATGAATGAGTGGAG
CTATGTTGCAAAAATGAGTGAACCCCACTATGGCCATGCTGGAACAGTGTATGGAGGCTTAATGTATATTTCAGGAGGAA
TTACTCATGACACCTTCCAAAATGAGCTCATGTGCTTTGACCCCGATACAGACAAATGGACACAGAAGGCTCCAATGACT
ACAGTCAGAGGTCTGCATTGCATGTGTACAGTTGGAGACAAGCTCTACGTCATTGGTGGCAATCACTTCAGAGGAACAAG
TGATTATGATGATGTTCTAAGCTGTGAATACTATTCACCAACCCTTGACCAGTGGACACCAATTGCTGCCATGTTAAGAG
GTCAAAGTGATGTTGGAGTTGCTGTCTTTGAAAATAAAATCTATGTTGTAGGTGGATATTCTTGGAATAATCGTTGTATG
GTAGAAATTGTCCAGAAATATGACCCAGAAAAGGATGAATGGCATAAAGTTTTTGACCTTCCAGAGTCACTTGGTGGCAT
TCGAGCTTGTACTCTTACAGTTTTTCCACCTGAAGAAAACCCTGGGTCACCTTCTAGAGAGTCACCTCTTTCTGCACCCT
CAGATCATTCTTAG

ORF - retro_vpac_8 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.49 %
Parental protein coverage: 63.34 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMKLSLGSSEMGLSSHLQSSKAGTTRIFTSNTHSSVVLQGFDQLRLEGLLCDVTLMPGDTDDAFPVHRVMM
MK.SLG..EMG.S.HLQ..KAGTTR.FTSNTHSSVVLQGFDQLR.EGLLCDVTL.PGD.D..FPVHR.MM
RetrocopyMKVSLGNGEMGVSAHLQPCKAGTTRFFTSNTHSSVVLQGFDQLRIEGLLCDVTLVPGDGDEIFPVHRAMM
ParentalASASDYFKAMFTGGMKEQDLMCIKLHGVSKVGLRKIIDFIYTAKLSLNMDNLQDTLEAASFLQILPVLDF
ASASDYFKAMFTGGMKEQDLMCIKLHGV.KVGL.KIIDFIYTAKLSLNMDNLQDTLEAASFLQILPVLDF
RetrocopyASASDYFKAMFTGGMKEQDLMCIKLHGVNKVGLKKIIDFIYTAKLSLNMDNLQDTLEAASFLQILPVLDF
ParentalCKVFLISGVTLDNCVEVGRIANTYNLTEVDKYVNSFVLKNFPALLSTGEFLKLPFERLAFVLSSNSLKHC
CKVFLISGV.LDNCVEVGRIANTYNL.EVDKYVN.F.LKNFPALL.TGEFLKLPFERLAFVLSSNSLKHC
RetrocopyCKVFLISGVSLDNCVEVGRIANTYNLIEVDKYVNNFILKNFPALLGTGEFLKLPFERLAFVLSSNSLKHC
ParentalTELELFKATCRWLRLEEPRMDFAAKLMKNIRFPLMTPQELINYVQTVDFMRTDNTCVNLLLEASNYQMMP
TELELFKA.CRWLRLE.PRMD.AAKLMKNIRFPLMTPQ.LINYVQTVDFMRTDNTCVNLLLEASNYQMMP
RetrocopyTELELFKAACRWLRLEDPRMDYAAKLMKNIRFPLMTPQDLINYVQTVDFMRTDNTCVNLLLEASNYQMMP
ParentalYMQPVMQSDRTAIRSDTTHLVTLGGVLRQQLVVSKELRMYDEKAHEWKSLAPMDAPRYQHGIAVIGNFLY
YMQPVMQSDRTAIRSD.THLVTLGGVLRQQLVVSKELRMYDE.A.EW.SLAPMDAPRYQHGIAVIGNFLY
RetrocopyYMQPVMQSDRTAIRSDSTHLVTLGGVLRQQLVVSKELRMYDERAQEWRSLAPMDAPRYQHGIAVIGNFLY
ParentalVVGGQSNYDTKGKTAVDTVFRFDPRYNKWMQVASLNEKRTFFHLSALKGYLYAVGGRNAAGEL
VVGGQSNYDTKGKTAVDTVFRFDPRYNKWMQVASLNEKRTFFHLSALKG.LYAVGGR.AAGEL
RetrocopyVVGGQSNYDTKGKTAVDTVFRFDPRYNKWMQVASLNEKRTFFHLSALKGHLYAVGGRSAAGEL

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






RNA-Seq - click to see more details

Vicugna pacos was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Vicugna pacos was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_vpac_8 retrocopy.

TSS - click to see more details

Vicugna pacos was not studied using FANTOM5 data.

Lab - click to see more details

retro_vpac_8 was not experimentally validated.

Retrocopy orthology:
Vicugna pacos 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 20 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000017821 retrocopy
retro_amel_749,
Bos taurus ENSBTAG000000005011 retrocopy
retro_btau_44,
Canis familiaris ENSCAFG000000182721 retrocopy
retro_cfam_422,
Callithrix jacchus ENSCJAG000000024471 retrocopy
retro_cjac_3406,
Cavia porcellus ENSCPOG000000112681 retrocopy
retro_cpor_590,
Equus caballus ENSECAG000000082371 retrocopy
retro_ecab_622,
Loxodonta africana ENSLAFG000000081221 retrocopy
retro_lafr_1018,
Myotis lucifugus ENSMLUG000000273931 retrocopy
retro_mluc_204,
Macaca mulatta ENSMMUG000000022931 retrocopy
retro_mmul_42,
Mustela putorius furoENSMPUG000000017301 retrocopy
retro_mputfur_169,
Mus musculus ENSMUSG000000367821 retrocopy
retro_mmus_121,
Nomascus leucogenys ENSNLEG000000147361 retrocopy
retro_nleu_1031,
Oryctolagus cuniculus ENSOCUG000000019931 retrocopy
retro_ocun_254,
Pongo abelii ENSPPYG000000206581 retrocopy
retro_pabe_60,
Rattus norvegicus ENSRNOG000000140291 retrocopy
retro_rnor_154,
Sus scrofa ENSSSCG000000126371 retrocopy
retro_sscr_51,
Ictidomys tridecemlineatus ENSSTOG000000120351 retrocopy
retro_itri_124,
Tarsius syrichta ENSTSYG000000025211 retrocopy
retro_tsyr_19,
Tursiops truncatus ENSTTRG000000140981 retrocopy
retro_ttru_26,
Vicugna pacos ENSVPAG00000003091 1 retrocopy
retro_vpac_8 ,


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