Bonjour,
dans notre recherche d\'ORF nous en avons beaucoup on a donc pris le plus important mais nous ne trouvons pas de domaines protéique, nous avons donc essayé d\'autres ORF, celles qui contiennent plus de 60 codons et une seule nous donne un domaine protéique de 63 acides aminés mais sans fiche interpro. Que devons nous faire?

Merci

Voilà notre liste d\'ORF

A)
>ORF number 1 in reading frame 1 on the direct strand extends from base 37 to base 216.
TGGGCGGACGGATCGGCCTGCCTGTCGAGTGCTGCACCGGACCCGGCACCCCGATCCCGA
CGCCGAGCACCGTGCTCGGGTCGACATCGAGATCGGCGAGCAGCCGTTGGGCAGCCTCGA
TCACCCAGTCGAGCGTGGCCTGGGGGCCAGCGGCGATATCGAGCTCGCGGCGCTCGGTGA


>Translation of ORF number 1 in reading frame 1 on the direct strand.
WADGSACLSSAAPDPAPRSRRRAPCSGRHRDRRAAVGQPRSPSRAWPGGQRRYRARGAR*


>ORF number 2 in reading frame 1 on the direct strand extends from base 265 to base 570.
CGCCGAGGTCGACCGCGACGACCGTGCGCGCCGATGCGTCGAACGCGACGCGGGACGCGG
GTCTTCCGCCTGACGACGCTGCGTTTCCGAGCGATGAGACCAGGCCGATCTCCTGCAGCG
CCGCGAGACGGACAACGACGGTCGTGCGCGCGAGTCCCGTCTCGTCGACGAGCTCCCCCC
GGGTGCGGGGGCTCCCATCGCGGAGGATCCGAAAGAGGTCGCCGGCCCCGACCGTACCCA
TCTCCGCTCCCTTGTCTCTTCGATGCCGCATCAGAGAATGCAGAAATCATGTCATTGCGT
CTTTAG

>Translation of ORF number 2 in reading frame 1 on the direct strand.
RRGRPRRPCAPMRRTRRGTRVFRLTTLRFRAMRPGRSPAAPRDGQRRSCARVPSRRRAPP
GCGGSHRGGSERGRRPRPYPSPLPCLFDAASENAEIMSLRL*

>ORF number 3 in reading frame 1 on the direct strand extends from base 673 to base 939.
ACAGCCATGAAGCTCGCGTTCGAGATGAATGCCTGGGGCGGTGTGGTCGGCACTCCCGGC
GCCGTGACCGACATCGGGTCCGGTTTCTATGTGACTCCGGGGCGATGTGACGGTGGGTCT
CGACGCGGCGGCTGCCGCCGGTTTCGCCGGCTTCGAACTGTTCGACGGCAACCTGCTCCC
CTTCGAGGACGACATGCAGACGCTTCGCGCGGCTGCGGCCGACCGCGGGCTCACCCCCGT
AGGCGTGTACTCGGGCGGACACTTCAT

>Translation of ORF number 3 in reading frame 1 on the direct strand.
TAMKLAFEMNAWGGVVGTPGAVTDIGSGFYVTPGRCDGGSRRGGCRRFRRLRTVRRQPAP
LRGRHADASRGCGRPRAHPRRRVLGRTLH

>ORF number 1 in reading frame 2 on the direct strand extends from base 2 to base 337.
TGCCGGGATGTCGAATCCATCCCACCCCGGCATGATGGGCGGACGGATCGGCCTGCCTGT
CGAGTGCTGCACCGGACCCGGCACCCCGATCCCGACGCCGAGCACCGTGCTCGGGTCGAC
ATCGAGATCGGCGAGCAGCCGTTGGGCAGCCTCGATCACCCAGTCGAGCGTGGCCTGGGG
GCCAGCGGCGATATCGAGCTCGCGGCGCTCGGTGATGCGCACCTCCCCGCGAAGATCGGT
GATTCCGACGACACCATGGGTAGCGCCGAGGTCGACCGCGACGACCGTGCGCGCCGATGC
GTCGAACGCGACGCGGGACGCGGGTCTTCCGCCTGA

>Translation of ORF number 1 in reading frame 2 on the direct strand.
CRDVESIPPRHDGRTDRPACRVLHRTRHPDPDAEHRARVDIEIGEQPLGSLDHPVERGLG
ASGDIELAALGDAHLPAKIGDSDDTMGSAEVDRDDRARRCVERDAGRGSSA*

>ORF number 2 in reading frame 2 on the direct strand extends from base 362 to base 595.
GACCAGGCCGATCTCCTGCAGCGCCGCGAGACGGACAACGACGGTCGTGCGCGCGAGTCC
CGTCTCGTCGACGAGCTCCCCCCGGGTGCGGGGGCTCCCATCGCGGAGGATCCGAAAGAG
GTCGCCGGCCCCGACCGTACCCATCTCCGCTCCCTTGTCTCTTCGATGCCGCATCAGAGA
ATGCAGAAATCATGTCATTGCGTCTTTAGAAGGTCAAAGTGCGGAACCTTATAG

>Translation of ORF number 2 in reading frame 2 on the direct strand.
DQADLLQRRETDNDGRARESRLVDELPPGAGAPIAEDPKEVAGPDRTHLRSLVSSMPHQR
MQKSCHCVFRRSKCGTL*

>ORF number 3 in reading frame 2 on the direct strand extends from base 767 to base 940.
CTCCGGGGCGATGTGACGGTGGGTCTCGACGCGGCGGCTGCCGCCGGTTTCGCCGGCTTC
GAACTGTTCGACGGCAACCTGCTCCCCTTCGAGGACGACATGCAGACGCTTCGCGCGGCT
GCGGCCGACCGCGGGCTCACCCCCGTAGGCGTGTACTCGGGCGGACACTTCATC

>Translation of ORF number 3 in reading frame 2 on the direct strand.
LRGDVTVGLDAAAAAGFAGFELFDGNLLPFEDDMQTLRAAAADRGLTPVGVYSGGHFI

>ORF number 1 in reading frame 3 on the direct strand extends from base 3 to base 617.
GCCGGGATGTCGAATCCATCCCACCCCGGCATGATGGGCGGACGGATCGGCCTGCCTGTC
GAGTGCTGCACCGGACCCGGCACCCCGATCCCGACGCCGAGCACCGTGCTCGGGTCGACA
TCGAGATCGGCGAGCAGCCGTTGGGCAGCCTCGATCACCCAGTCGAGCGTGGCCTGGGGG
CCAGCGGCGATATCGAGCTCGCGGCGCTCGGTGATGCGCACCTCCCCGCGAAGATCGGTG
ATTCCGACGACACCATGGGTAGCGCCGAGGTCGACCGCGACGACCGTGCGCGCCGATGCG
TCGAACGCGACGCGGGACGCGGGTCTTCCGCCTGACGACGCTGCGTTTCCGAGCGATGAG
ACCAGGCCGATCTCCTGCAGCGCCGCGAGACGGACAACGACGGTCGTGCGCGCGAGTCCC
GTCTCGTCGACGAGCTCCCCCCGGGTGCGGGGGCTCCCATCGCGGAGGATCCGAAAGAGG
TCGCCGGCCCCGACCGTACCCATCTCCGCTCCCTTGTCTCTTCGATGCCGCATCAGAGAA
TGCAGAAATCATGTCATTGCGTCTTTAGAAGGTCAAAGTGCGGAACCTTATAGCTCCTAC
GGTATCTACTATTGA

>Translation of ORF number 1 in reading frame 3 on the direct strand.
AGMSNPSHPGMMGGRIGLPVECCTGPGTPIPTPSTVLGSTSRSASSRWAASITQSSVAWG
PAAISSSRRSVMRTSPRRSVIPTTPWVAPRSTATTVRADASNATRDAGLPPDDAAFPSDE
TRPISCSAARRTTTVVRASPVSSTSSPRVRGLPSRRIRKRSPAPTVPISAPLSLRCRIRE
CRNHVIASLEGQSAEPYSSYGIYY*

>ORF number 2 in reading frame 3 on the direct strand extends from base 618 to base 782.
CTTGAAAAAGTCATAAGTGCTAACGTCGCTGCGACGATCCCCTACGAGGAGGTAGACAGC
CATGAAGCTCGCGTTCGAGATGAATGCCTGGGGCGGTGTGGTCGGCACTCCCGGCGCCGT
GACCGACATCGGGTCCGGTTTCTATGTGACTCCGGGGCGATGTGA

>Translation of ORF number 2 in reading frame 3 on the direct strand.
LEKVISANVAATIPYEEVDSHEARVRDECLGRCGRHSRRRDRHRVRFLCDSGAM*

>ORF number 3 in reading frame 3 on the direct strand extends from base 783 to base 914.
CGGTGGGTCTCGACGCGGCGGCTGCCGCCGGTTTCGCCGGCTTCGAACTGTTCGACGGCA
ACCTGCTCCCCTTCGAGGACGACATGCAGACGCTTCGCGCGGCTGCGGCCGACCGCGGGC
TCACCCCCGTAG

>Translation of ORF number 3 in reading frame 3 on the direct strand.
RWVSTRRLPPVSPASNCSTATCSPSRTTCRRFARLRPTAGSPP*

B)
>ORF number 1 in reading frame 1 on the reverse strand extends from base 1 to base 282.
GATGAAGTGTCCGCCCGAGTACACGCCTACGGGGGTGAGCCCGCGGTCGGCCGCAGCCGC
GCGAAGCGTCTGCATGTCGTCCTCGAAGGGGAGCAGGTTGCCGTCGAACAGTTCGAAGCC
GGCGAAACCGGCGGCAGCCGCCGCGTCGAGACCCACCGTCACATCGCCCCGGAGTCACAT
AGAAACCGGACCCGATGTCGGTCACGGCGCCGGGAGTGCCGACCACACCGCCCCAGGCAT
TCATCTCGAACGCGAGCTTCATGGCTGTCTACCTCCTCGTAG

>Translation of ORF number 1 in reading frame 1 on the reverse strand.
DEVSARVHAYGGEPAVGRSRAKRLHVVLEGEQVAVEQFEAGETGGSRRVETHRHIAPESH
RNRTRCRSRRRECRPHRPRHSSRTRASWLSTSS*

>ORF number 2 in reading frame 1 on the reverse strand extends from base 391 to base 939.
TTTCTGCATTCTCTGATGCGGCATCGAAGAGACAAGGGAGCGGAGATGGGTACGGTCGGG
GCCGGCGACCTCTTTCGGATCCTCCGCGATGGGAGCCCCCGCACCCGGGGGGAGCTCGTC
GACGAGACGGGACTCGCGCGCACGACCGTCGTTGTCCGTCTCGCGGCGCTGCAGGAGATC
GGCCTGGTCTCATCGCTCGGAAACGCAGCGTCGTCAGGCGGAAGACCCGCGTCCCGCGTC
GCGTTCGACGCATCGGCGCGCACGGTCGTCGCGGTCGACCTCGGCGCTACCCATGGTGTC
GTCGGAATCACCGATCTTCGCGGGGAGGTGCGCATCACCGAGCGCCGCGAGCTCGATATC
GCCGCTGGCCCCCAGGCCACGCTCGACTGGGTGATCGAGGCTGCCCAACGGCTGCTCGCC
GATCTCGATGTCGACCCGAGCACGGTGCTCGGCGTCGGGATCGGGGTGCCGGGTCCGGTG
CAGCACTCGACAGGCAGGCCGATCCGTCCGCCCATCATGCCGGGGTGGGATGGATTCGAC
ATCCCGGCA

>Translation of ORF number 2 in reading frame 1 on the reverse strand.
FLHSLMRHRRDKGAEMGTVGAGDLFRILRDGSPRTRGELVDETGLARTTVVVRLAALQEI
GLVSSLGNAASSGGRPASRVAFDASARTVVAVDLGATHGVVGITDLRGEVRITERRELDI
AAGPQATLDWVIEAAQRLLADLDVDPSTVLGVGIGVPGPVQHSTGRPIRPPIMPGWDGFD
IPA

>ORF number 1 in reading frame 2 on the reverse strand extends from base 2 to base 304.
ATGAAGTGTCCGCCCGAGTACACGCCTACGGGGGTGAGCCCGCGGTCGGCCGCAGCCGCG
CGAAGCGTCTGCATGTCGTCCTCGAAGGGGAGCAGGTTGCCGTCGAACAGTTCGAAGCCG
GCGAAACCGGCGGCAGCCGCCGCGTCGAGACCCACCGTCACATCGCCCCGGAGTCACATA
GAAACCGGACCCGATGTCGGTCACGGCGCCGGGAGTGCCGACCACACCGCCCCAGGCATT
CATCTCGAACGCGAGCTTCATGGCTGTCTACCTCCTCGTAGGGGATCGTCGCAGCGACGT
TAG

>Translation of ORF number 1 in reading frame 2 on the reverse strand.
MKCPPEYTPTGVSPRSAAAARSVCMSSSKGSRLPSNSSKPAKPAAAAASRPTVTSPRSHI
ETGPDVGHGAGSADHTAPGIHLERELHGCLPPRRGSSQRR*

>ORF number 2 in reading frame 2 on the reverse strand extends from base 407 to base 784.
TGCGGCATCGAAGAGACAAGGGAGCGGAGATGGGTACGGTCGGGGCCGGCGACCTCTTTC
GGATCCTCCGCGATGGGAGCCCCCGCACCCGGGGGGAGCTCGTCGACGAGACGGGACTCG
CGCGCACGACCGTCGTTGTCCGTCTCGCGGCGCTGCAGGAGATCGGCCTGGTCTCATCGC
TCGGAAACGCAGCGTCGTCAGGCGGAAGACCCGCGTCCCGCGTCGCGTTCGACGCATCGG
CGCGCACGGTCGTCGCGGTCGACCTCGGCGCTACCCATGGTGTCGTCGGAATCACCGATC
TTCGCGGGGAGGTGCGCATCACCGAGCGCCGCGAGCTCGATATCGCCGCTGGCCCCCAGG
CCACGCTCGACTGGGTGA

>Translation of ORF number 2 in reading frame 2 on the reverse strand.
CGIEETRERRWVRSGPATSFGSSAMGAPAPGGSSSTRRDSRARPSLSVSRRCRRSAWSHR
SETQRRQAEDPRPASRSTHRRARSSRSTSALPMVSSESPIFAGRCASPSAASSISPLAPR
PRSTG*

>ORF number 3 in reading frame 2 on the reverse strand extends from base 785 to base 940.
TCGAGGCTGCCCAACGGCTGCTCGCCGATCTCGATGTCGACCCGAGCACGGTGCTCGGCG
TCGGGATCGGGGTGCCGGGTCCGGTGCAGCACTCGACAGGCAGGCCGATCCGTCCGCCCA
TCATGCCGGGGTGGGATGGATTCGACATCCCGGCAT

>Translation of ORF number 3 in reading frame 2 on the reverse strand.
SRLPNGCSPISMSTRARCSASGSGCRVRCSTRQAGRSVRPSCRGGMDSTSRH

>ORF number 1 in reading frame 3 on the reverse strand extends from base 39 to base 182.
GCCCGCGGTCGGCCGCAGCCGCGCGAAGCGTCTGCATGTCGTCCTCGAAGGGGAGCAGGT
TGCCGTCGAACAGTTCGAAGCCGGCGAAACCGGCGGCAGCCGCCGCGTCGAGACCCACCG
TCACATCGCCCCGGAGTCACATAG

>Translation of ORF number 1 in reading frame 3 on the reverse strand.
ARGRPQPREASACRPRRGAGCRRTVRSRRNRRQPPRRDPPSHRPGVT*

>ORF number 2 in reading frame 3 on the reverse strand extends from base 183 to base 374.
AAACCGGACCCGATGTCGGTCACGGCGCCGGGAGTGCCGACCACACCGCCCCAGGCATTC
ATCTCGAACGCGAGCTTCATGGCTGTCTACCTCCTCGTAGGGGATCGTCGCAGCGACGTT
AGCACTTATGACTTTTTCAAGTCAATAGTAGATACCGTAGGAGCTATAAGGTTCCGCACT
TTGACCTTCTAA

>Translation of ORF number 2 in reading frame 3 on the reverse strand.
KPDPMSVTAPGVPTTPPQAFISNASFMAVYLLVGDRRSDVSTYDFFKSIVDTVGAIRFRT
LTF*

>ORF number 3 in reading frame 3 on the reverse strand extends from base 375 to base 938.
AGACGCAATGACATGATTTCTGCATTCTCTGATGCGGCATCGAAGAGACAAGGGAGCGGA
GATGGGTACGGTCGGGGCCGGCGACCTCTTTCGGATCCTCCGCGATGGGAGCCCCCGCAC
CCGGGGGGAGCTCGTCGACGAGACGGGACTCGCGCGCACGACCGTCGTTGTCCGTCTCGC
GGCGCTGCAGGAGATCGGCCTGGTCTCATCGCTCGGAAACGCAGCGTCGTCAGGCGGAAG
ACCCGCGTCCCGCGTCGCGTTCGACGCATCGGCGCGCACGGTCGTCGCGGTCGACCTCGG
CGCTACCCATGGTGTCGTCGGAATCACCGATCTTCGCGGGGAGGTGCGCATCACCGAGCG
CCGCGAGCTCGATATCGCCGCTGGCCCCCAGGCCACGCTCGACTGGGTGATCGAGGCTGC
CCAACGGCTGCTCGCCGATCTCGATGTCGACCCGAGCACGGTGCTCGGCGTCGGGATCGG
GGTGCCGGGTCCGGTGCAGCACTCGACAGGCAGGCCGATCCGTCCGCCCATCATGCCGGG
GTGGGATGGATTCGACATCCCGGC

>Translation of ORF number 3 in reading frame 3 on the reverse strand.
RRNDMISAFSDAASKRQGSGDGYGRGRRPLSDPPRWEPPHPGGARRRDGTRAHDRRCPSR
GAAGDRPGLIARKRSVVRRKTRVPRRVRRIGAHGRRGRPRRYPWCRRNHRSSRGGAHHRA
PRARYRRWPPGHARLGDRGCPTAARRSRCRPEHGARRRDRGAGSGAALDRQADPSAHHAG
VGWIRHPG

Bonjour,

dans votre cas, vous avez 3 ORF qui sont environ de même longueur (les 3 plus grands). Sur ces trois, l'un donne des domaines interpro (avec fiche interpro). Si les 2 autres ne vous donnent ni domaines protéiques, ni homologues dans blast, alors partez sur l'analyse de celui qui donne des domaines interpro.
Par contre, il est extrêmement important de justifier votre choix, en indiquant que vous avez testé les 3 plus grands orf, et en décrivant les raisons de votre choix!

c