RetrogeneDB ID:

retro_lafr_112

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_34:4975805..4976552(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSLAFG00000007721
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAZ
Ensembl ID:ENSLAFG00000004944
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_112
ATGGAGAGAGCCAGCCTGATCCAGAAGGCCAAGTTGGCAGAGCAGGCCGAGCGCTATGAGGACATGGCAGCCTTCATGAA
GGGAGCCGTGGAGAAGGGTGAGGAACTATCCTGCGAAGAGCGCAACCTGCTCTCAGTGGCCTACAAGAACGTGGTGGGCG
GCCAGAGGGCTGCCTGGAGGGTCCTGTCCAGCATCGAGCAAAAAAGCAACGAGGAGGGCTCAGAAGAAAAGGGCCCTGAG
GTGCGAGAGTACCGGGACAAGGTGGAGACTGAGCTCCGGGGTGTATGCGACACTGTGCTGGGCCTGCTGGACTCCCACCT
CATCAAGGAGGCTGGTGATGCTGAGGGCCGGGTCTTCTACCTGAAGATGAAAGGTGACTACTACCGCTACCTGGCCGAGG
TGGCCACAGGTGACGACAAGAAGCGCATTATCAACGCAGCTCGGGCAGCCTACCAAGAGGCCATGGACATCAGCAAGAAG
GAGATGCCACCCACCAACCCCATCCGCCTGGGCCTGGCACTGAACTTTTCTGTCTTCCACTATGAGATTGCCAACGTCCC
TGAGGAGGCCATCTCGCTGGCCAAGACCACCTTTGATGAGGCCATGGCTGACCTGCACACTCTCAGCGAGGACTCCTACA
AAGACAGCACCCTCATCATGCAGCTGCTGCGAGACAATCTGACGCTGTGGACGGCCGACAGTGCTGGGGAAGAGGGGGGC
GAGGCTCCGGAGGAGCCCCAGAGCTGA

ORF - retro_lafr_112 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.01 %
Parental protein coverage: 96.33 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDKNELVQKAKLAEQAERYDDMAACMKSVTEQGAELSNEERNLLSVAYKNVVGARRSSWRVVSSIEQKT-
M....L.QKAKLAEQAERY.DMAA.MK...E.G.ELS.EERNLLSVAYKNVVG..R..WRV.SSIEQK..
RetrocopyMERASLIQKAKLAEQAERYEDMAAFMKGAVEKGEELSCEERNLLSVAYKNVVGGQRAAWRVLSSIEQKSN
Parental-EGAEKKQQMAREYREKIETELRDICNDVLSLLEKFLIPNASQAESKVFYLKMKGDYYRYLAEVAAGDDK
.EG.E.K....REYR.K.ETELR..C..VL.LL...LI..A..AE..VFYLKMKGDYYRYLAEVA.GDDK
RetrocopyEEGSEEKGPEVREYRDKVETELRGVCDTVLGLLDSHLIKEAGDAEGRVFYLKMKGDYYRYLAEVATGDDK
ParentalKGIVDQSQQAYQEAFEISKKEMQPTHPIRLGLALNFSVFYYEILNSPEKACSLAKTAFDEAIAELDTLSE
K.I......AYQEA..ISKKEM.PT.PIRLGLALNFSVF.YEI.N.PE.A.SLAKT.FDEA.A.L.TLSE
RetrocopyKRIINAARAAYQEAMDISKKEMPPTNPIRLGLALNFSVFHYEIANVPEEAISLAKTTFDEAMADLHTLSE
ParentalESYKDSTLIMQLLRDNLTLWTSDTQGDE
.SYKDSTLIMQLLRDNLTLWT.D..G.E
RetrocopyDSYKDSTLIMQLLRDNLTLWTADSAGEE

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






Loxodonta africana was not studied using RNA-Seq expression data.
Loxodonta africana was not studied using ChIP-Seq data.
Loxodonta africana was not studied using EST data.
Loxodonta africana was not studied using FANTOM5 data.
retro_lafr_112 was not experimentally validated.

Retrocopy orthology:
Loxodonta africana 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 24 parental genes, and 94 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000086942 retrocopies
Bos taurus ENSBTAG000000002364 retrocopies
Canis familiaris ENSCAFG000000005806 retrocopies
Choloepus hoffmanni ENSCHOG000000027989 retrocopies
Callithrix jacchus ENSCJAG000000158445 retrocopies
Cavia porcellus ENSCPOG000000202855 retrocopies
Dasypus novemcinctus ENSDNOG0000000167210 retrocopies
Ficedula albicollis ENSFALG000000058601 retrocopy
Felis catus ENSFCAG000000320174 retrocopies
Gallus gallus ENSGALG000000107251 retrocopy
Gorilla gorilla ENSGGOG000000221339 retrocopies
Loxodonta africana ENSLAFG00000004944 2 retrocopies
retro_lafr_1089, retro_lafr_112 ,
Myotis lucifugus ENSMLUG000000173233 retrocopies
Macaca mulatta ENSMMUG000000064897 retrocopies
Mus musculus ENSMUSG000000222853 retrocopies
Oryctolagus cuniculus ENSOCUG000000007342 retrocopies
Pongo abelii ENSPPYG000000187917 retrocopies
Pelodiscus sinensis ENSPSIG000000037031 retrocopy
Sarcophilus harrisii ENSSHAG000000126712 retrocopies
Sus scrofa ENSSSCG000000060622 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000238643 retrocopies
Taeniopygia guttata ENSTGUG000000120781 retrocopy
Tursiops truncatus ENSTTRG000000159064 retrocopies
Vicugna pacos ENSVPAG000000058651 retrocopy



Copyright © RetrogeneDB 2014-2017