RetrogeneDB ID:

retro_trub_14

Retrocopy
location
Organism:Fugu rubripes (Takifugu rubripes)
Coordinates:scaffold_3:3722193..3723420(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTRUG00000017170
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF4A2
Ensembl ID:ENSTRUG00000005660
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_trub_14
GTTAATCTTAATACAAACATGTACAGACAACCAGATCATCCAGAGAATCCAGCTCCTTCAGAGACAGAGGAGATAATCAA
TGAAAACTGGGATCATGCTGCAGAGTGTTTTGAAGACATGAAGCTGAATGAGAATCTGCTCAGAGGCATCTTTGCGTATG
GATTTGAGAAGCCTTCTTTCTTTCAACAGCGAGTCATCATTCCGTGCATCAAAGGACATGATGTCATCGCACAATCACAG
TCAGGAACTGGAAAGACAGGGACCTACGTCATCTCCGTCCTGCAGAGAATTAATGTGACCATAAAAGAGACCCAGGCTAT
TATCCTGGCACCCACCAGAGAGCTGGCTCACCAAATTCAGAAAGTTGTGCTCAGTCTGGGGGACTACATGGGGGTCTGCT
GCCATGCCTGTGTTGGAGGGACAAGCTTTTGTCAGGAGATAGATACCCTGAAGTCATCGAGTCCTCACATCATCGTGGGA
ACACCAGGACGTGTCTTTGACATGTTAATGTGCAGGGTCATCTTTCCCAGGGCCATACAAATGCTGGTGCTTGATGAAGC
AGATTGGATGCTGGGTCAGGACAAGGACCAAATTTATAAAATCTTCCTTAAACTGCCAACTAATATCCAAGTGGTCCTAA
TGTCAGCAACCATGTCACCTGATGTTCTGGAGGTCACAAAATTTTTTATGCAGAATCCAAAGAAAATCCTTGTTACAAAG
GAGGAACTGTCCCTGGAGGGGATTCGACAGTTCTATGTTAACACTGAAAAAGAAGAGTATAAACTGGAAACCCTGTTTGA
CCTGTATGAGACTCTCACCATTAGCCAAGCTGTCATTTTTGTAAACACCAGCAGGAAAGCAGAGTGGCTGGCTCAGCGGC
TGACATCAGAAGATTTCACAGTCTCTGTCCTGCATGGAGAGATGGAGCAGAGCGAGAGGGATGTTGTCATGAAGGAGTTT
CGCTCTGGCTCCAGCCGAGTGCTGATTACCACTGATCTGATGGCCCGAGGAATCGATGTTCAGCATGTGTCAGTGGTGAT
CAATTACGACCTCCCCACCAACGTGGAGAACTACATCCACGGAATTGGTCGAGGTGGTCAATTTGGTAGGAAGGGAGTGA
CCATAACCATGGTGACAGAAGACAGCCAGCACACACTCTTAGAAATCCAAAAGTTTTACAGCATCCAAATTGAGGAGCTT
CCCATAGATGTGGCTGGTATCCTTTGA

ORF - retro_trub_14 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.65 %
Parental protein coverage: 96.09 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPDGMEPDGIIESNWTEITDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKT
P...E...II..NW......F.DM.L.E.LLRGI.AYGFEKPS..QQR.IIPCIKG.DVIAQ.QSGTGKT
RetrocopyPAPSETEEIINENWDHAAECFEDMKLNENLLRGIFAYGFEKPSFFQQRVIIPCIKGHDVIAQSQSGTGKT
ParentalATFAISILQQLEIDQKETQALVLAPTRELAQQIQKVILALGDYMGAACHACIGGTNLRNEIQKLQAEAPH
.T..IS.LQ......KETQA..LAPTRELA.QIQKV.L.LGDYMG..CHAC.GGT....EI..L....PH
RetrocopyGTYVISVLQRINVTIKETQAIILAPTRELAHQIQKVVLSLGDYMGVCCHACVGGTSFCQEIDTLKSSSPH
ParentalIVVGTPGRVFDMLTRGHLYSKLIKMFVLDEADEMLSRGFKDQIYEIFQKLSTNIQVVLLSATMPAEVLEV
I.VGTPGRVFDML.........I.M.VLDEAD.ML....KDQIY.IF.KL.TNIQVVL.SATM...VLEV
RetrocopyIIVGTPGRVFDMLMCRVIFPRAIQMLVLDEADWMLGQD-KDQIYKIFLKLPTNIQVVLMSATMSPDVLEV
ParentalTKKFMRDPVRILVKKEELTLEGIKQFYINVEREEWKLDTLCDLYETLTITQAVIFLNTRRKVDWLTEKMH
TK.FM..P..ILV.KEEL.LEGI.QFY.N.E.EE.KL.TL.DLYETLTI.QAVIF.NT.RK..WL.....
RetrocopyTKFFMQNPKKILVTKEELSLEGIRQFYVNTEKEEYKLETLFDLYETLTISQAVIFVNTSRKAEWLAQRLT
ParentalARDFTVSALHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRG
..DFTVS.LHG.M.Q.ERDV.M.EFRSGSSRVLITTDL.ARGIDVQ.VS.VINYDLPTN.ENYIH.IGRG
RetrocopySEDFTVSVLHGEMEQSERDVVMKEFRSGSSRVLITTDLMARGIDVQHVSVVINYDLPTNVENYIHGIGRG
ParentalGRFGRKGVAINFVTEDDRRVLRDIETFYNTTVEEMPMNVADLI
G.FGRKGV.I..VTED....L..I..FY....EE.P..VA...
RetrocopyGQFGRKGVTITMVTEDSQHTLLEIQKFYSIQIEELPIDVAGIL

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






RNA-Seq - click to see more details

Takifugu rubripes was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Takifugu rubripes was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_trub_14 retrocopy.

TSS - click to see more details

Takifugu rubripes was not studied using FANTOM5 data.

Lab - click to see more details

retro_trub_14 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_trub_14 has 0 orthologous retrocopies within teleost group .

Parental genes homology:
Parental genes homology involve 21 parental genes, and 49 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000147242 retrocopies
retro_btau_258, retro_btau_522,
Canis familiaris ENSCAFG000000136591 retrocopy
retro_cfam_378,
Cavia porcellus ENSCPOG000000111831 retrocopy
retro_cpor_639,
Dasypus novemcinctus ENSDNOG000000115025 retrocopies
retro_dnov_1264, retro_dnov_2018, retro_dnov_2066, retro_dnov_648, retro_dnov_869,
Echinops telfairi ENSETEG000000185653 retrocopies
retro_etel_1174, retro_etel_2164, retro_etel_451,
Homo sapiens ENSG000001569762 retrocopies
retro_hsap_593, retro_hsap_878,
Gorilla gorilla ENSGGOG000000058672 retrocopies
retro_ggor_525, retro_ggor_712,
Macropus eugenii ENSMEUG000000117371 retrocopy
retro_meug_237,
Microcebus murinus ENSMICG000000073771 retrocopy
retro_mmur_525,
Macaca mulatta ENSMMUG000000037022 retrocopies
retro_mmul_1055, retro_mmul_2450,
Nomascus leucogenys ENSNLEG000000066331 retrocopy
retro_nleu_2589,
Oryctolagus cuniculus ENSOCUG000000050113 retrocopies
retro_ocun_392, retro_ocun_696, retro_ocun_763,
Otolemur garnettii ENSOGAG000000107292 retrocopies
retro_ogar_2830, retro_ogar_943,
Ochotona princeps ENSOPRG000000041701 retrocopy
retro_opri_498,
Pongo abelii ENSPPYG000000143842 retrocopies
retro_pabe_596, retro_pabe_677,
Pan troglodytes ENSPTRG000000157181 retrocopy
retro_ptro_437,
Rattus norvegicus ENSRNOG000000018152 retrocopies
retro_rnor_1163, retro_rnor_2340,
Ictidomys tridecemlineatus ENSSTOG000000126011 retrocopy
retro_itri_858,
Tupaia belangeri ENSTBEG0000000226811 retrocopies
retro_tbel_114, retro_tbel_1488, retro_tbel_1500, retro_tbel_2048, retro_tbel_2524, retro_tbel_2729, retro_tbel_2733, retro_tbel_3159, retro_tbel_3793, retro_tbel_4599, retro_tbel_841,
Takifugu rubripes ENSTRUG00000005660 2 retrocopies
retro_trub_14 , retro_trub_6,
Tarsius syrichta ENSTSYG000000130503 retrocopies
retro_tsyr_1905, retro_tsyr_903, retro_tsyr_935,




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