AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044470

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044470 MtrunA17_Chr8g0375011 93.625 251 16 0 227 477 3 253 7.06e-174 488
MsaG044470 MtrunA17_Chr8g0375001 95.172 145 4 1 88 229 10 154 1.03e-96 288
MsaG044470 MtrunA17_Chr2g0332121 46.512 172 86 5 109 277 128 296 2.03e-36 139
MsaG044470 MtrunA17_Chr3g0133791 48.800 125 64 0 95 219 106 230 4.59e-36 133
MsaG044470 MtrunA17_Chr4g0002411 45.794 107 58 0 105 211 62 168 9.24e-26 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044470 AT3G19184.2 51.282 117 57 0 96 212 103 219 6.38e-35 132
MsaG044470 AT3G19184.1 51.282 117 57 0 96 212 103 219 6.76e-35 132
MsaG044470 AT5G42700.2 52.586 116 51 1 98 213 64 175 1.07e-32 123
MsaG044470 AT5G42700.1 52.586 116 51 1 98 213 109 220 1.72e-32 124
MsaG044470 AT5G58280.1 44.538 119 65 1 109 227 113 230 4.14e-25 104
MsaG044470 AT5G58280.3 44.538 119 65 1 109 227 145 262 8.19e-25 104
MsaG044470 AT5G58280.2 44.538 119 65 1 109 227 146 263 8.33e-25 104

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTGAACCCACCAAATTTA+AGG 0.130382 8:+60709539 MsaT044470.1:CDS
CCTGAATTTAAAGAGTTAAA+AGG 0.230186 8:+60710039 MsaT044470.1:CDS
TTGTTAATTAATGTCGAAAA+TGG 0.247163 8:+60707792 None:intergenic
TTCACAAAACTAGGGAATTC+TGG 0.261063 8:-60709018 None:intergenic
AGATAGAAAACAACATTTAA+AGG 0.273772 8:-60707961 None:intergenic
AGAAAGAAGTTGCTGCTAAT+TGG 0.286931 8:+60710568 MsaT044470.1:CDS
GTGATAGTTGTATCTTTATC+AGG 0.288491 8:-60709387 None:intergenic
CTCAGAGATTAGAAGATATA+TGG 0.350074 8:+60710398 MsaT044470.1:CDS
ATTTGGTGGGTTCAATTAGT+TGG 0.352601 8:-60709533 None:intergenic
GTTAGCATAGCTTATGAAAC+TGG 0.370804 8:+60710369 MsaT044470.1:CDS
ACAACATTTAAAGGAGACTT+TGG 0.371950 8:-60707952 None:intergenic
AATTTCAGAATCATAGTTGA+TGG 0.381163 8:+60710069 MsaT044470.1:CDS
TTATGGGAGAGAGGTGTATG+AGG 0.397309 8:+60707906 MsaT044470.1:CDS
TTGATTGCAGTTCAACTAAA+GGG 0.407390 8:+60708923 MsaT044470.1:intron
AACTATTACCTTAAATTTGG+TGG 0.415378 8:-60709547 None:intergenic
ATCACATTAGAAGATGAATA+TGG 0.425783 8:+60709405 MsaT044470.1:CDS
TTTGATTGCAGTTCAACTAA+AGG 0.434875 8:+60708922 MsaT044470.1:intron
TGAAGGACTCCGATCACATT+TGG 0.435239 8:+60708993 MsaT044470.1:CDS
ACTAAGCCTAAGCAATATAC+AGG 0.437303 8:+60709958 MsaT044470.1:CDS
TTGCATTACAAGCTGACTGC+TGG 0.442933 8:+60710192 MsaT044470.1:CDS
GTAGAGAGTTCTTCTTCGAT+TGG 0.457108 8:-60710096 None:intergenic
AACGAAGCTTGAAGAATTGA+AGG 0.472041 8:+60710473 MsaT044470.1:CDS
CTTCATGACAATCTCATCAA+AGG 0.474595 8:+60710168 MsaT044470.1:CDS
GGTGTATGAGGGTGTTCCTA+TGG 0.476105 8:+60707918 MsaT044470.1:CDS
CTGTTACATGCTACAACATC+AGG 0.478138 8:-60709859 None:intergenic
GACTGCCCTGTATATTGCTT+AGG 0.485313 8:-60709964 None:intergenic
CACAATCACAAAAGTTTGCA+AGG 0.496554 8:+60708813 MsaT044470.1:CDS
ACCGTGTTGTTCAGTTCTAT+AGG 0.503974 8:-60710421 None:intergenic
ACTATTACCTTAAATTTGGT+GGG 0.516282 8:-60709546 None:intergenic
TTTCCACGAAATGATGATCA+TGG 0.525235 8:+60707868 MsaT044470.1:CDS
AGCAAGGACTTCACAAAACT+AGG 0.525979 8:-60709027 None:intergenic
AAATACATTGCATGTAAGAC+AGG 0.526557 8:+60709444 MsaT044470.1:CDS
TATGGGAGAGAGGTGTATGA+GGG 0.546719 8:+60707907 MsaT044470.1:CDS
AGCTTTGTCAGAAATATTCG+AGG 0.558647 8:+60710005 MsaT044470.1:CDS
ATTAATGTCGAAAATGGTGG+CGG 0.572487 8:+60707798 None:intergenic
GCAAGGACTTCACAAAACTA+GGG 0.574234 8:-60709026 None:intergenic
TTAATTAATGTCGAAAATGG+TGG 0.576665 8:+60707795 None:intergenic
TCAGCTGTGATTCACGCTGA+AGG 0.576667 8:+60708976 MsaT044470.1:CDS
AGAGGATGAAATAAAGAACA+TGG 0.576688 8:+60710449 MsaT044470.1:CDS
TCAGAATCATAGTTGATGGA+AGG 0.576785 8:+60710073 MsaT044470.1:CDS
GTATAAACAAAACAAGGCGG+TGG 0.581891 8:+60708204 MsaT044470.1:intron
TGGCGGTTGATGAAAAGAAG+AGG 0.598421 8:+60707815 MsaT044470.1:CDS
ACTCCATGATCATCATTTCG+TGG 0.602909 8:-60707871 None:intergenic
TGATTGCAGTTCAACTAAAG+GGG 0.603602 8:+60708924 MsaT044470.1:intron
TTTGGAGAGAAATGTGCCAT+AGG 0.605853 8:-60707934 None:intergenic
TGAAAAGAAGAGGGATCGAA+TGG 0.606536 8:+60707825 MsaT044470.1:CDS
GAAAATGATTGTATCAAACA+TGG 0.606925 8:+60709933 MsaT044470.1:CDS
GCTTTGTCAGAAATATTCGA+GGG 0.608274 8:+60710006 MsaT044470.1:CDS
GCTGTGCATGAATTGCTAGA+AGG 0.608813 8:+60709495 MsaT044470.1:CDS
TGAACAACACGGTCGAGTAG+AGG 0.611549 8:+60710431 MsaT044470.1:CDS
ATTCTGGTTCCAAATGTGAT+CGG 0.620705 8:-60709002 None:intergenic
GATTGCAGTTCAACTAAAGG+GGG 0.621159 8:+60708925 MsaT044470.1:intron
AGCTACATGTGATCTGAGCA+AGG 0.622819 8:-60709043 None:intergenic
GGCGGTTGATGAAAAGAAGA+GGG 0.624988 8:+60707816 MsaT044470.1:CDS
TTAGGTTTATATAATAAGAG+CGG 0.625618 8:+60709645 MsaT044470.1:intron
AGACAGGATTGAGTGCTGGT+TGG 0.629436 8:+60709460 MsaT044470.1:CDS
TGTAAGACAGGATTGAGTGC+TGG 0.630499 8:+60709456 MsaT044470.1:CDS
TTTGCAGTATAAACAAAACA+AGG 0.643541 8:+60708198 MsaT044470.1:intron
CATATATCTTCTAATCTCTG+AGG 0.654771 8:-60710397 None:intergenic
CAATTAGAAAATTCAACACG+CGG 0.655244 8:-60710273 None:intergenic
GAATTGAAGGAAGCTTGTAG+CGG 0.658226 8:+60710486 MsaT044470.1:CDS
GGGAACATATTCTCGTGGCG+AGG 0.659835 8:+60708945 MsaT044470.1:CDS
CTAAGCCTAAGCAATATACA+GGG 0.663691 8:+60709959 MsaT044470.1:CDS
TGAATTGCTAGAAGGTGATG+TGG 0.696443 8:+60709503 MsaT044470.1:CDS
GCCTATAGAACTGAACAACA+CGG 0.716910 8:+60710420 MsaT044470.1:CDS
GCAGTATAAACAAAACAAGG+CGG 0.774088 8:+60708201 MsaT044470.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 60707802 60710593 60707802 ID=MsaG044470
Chr8 mRNA 60707802 60710593 60707802 ID=MsaT044470.1;Parent=MsaG044470
Chr8 exon 60707802 60707969 60707802 ID=MsaT044470.1.exon1;Parent=MsaT044470.1
Chr8 CDS 60707802 60707969 60707802 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Chr8 exon 60708205 60708264 60708205 ID=MsaT044470.1.exon2;Parent=MsaT044470.1
Chr8 CDS 60708205 60708264 60708205 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Chr8 exon 60708797 60708834 60708797 ID=MsaT044470.1.exon3;Parent=MsaT044470.1
Chr8 CDS 60708797 60708834 60708797 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Chr8 exon 60708933 60709080 60708933 ID=MsaT044470.1.exon4;Parent=MsaT044470.1
Chr8 CDS 60708933 60709080 60708933 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Chr8 exon 60709354 60709560 60709354 ID=MsaT044470.1.exon5;Parent=MsaT044470.1
Chr8 CDS 60709354 60709560 60709354 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Chr8 exon 60709649 60709709 60709649 ID=MsaT044470.1.exon6;Parent=MsaT044470.1
Chr8 CDS 60709649 60709709 60709649 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Chr8 exon 60709842 60710593 60709842 ID=MsaT044470.1.exon7;Parent=MsaT044470.1
Chr8 CDS 60709842 60710593 60709842 ID=cds.MsaT044470.1;Parent=MsaT044470.1
Gene Sequence

>MsaT044470.1

ATGTCGAAAATGGTGGCGGTTGATGAAAAGAAGAGGGATCGAATGGTGAAAAAAGATGTGATGGAATTTCCACGAAATGATGATCATGGAGTGACTGTTGCATTTTATGGGAGAGAGGTGTATGAGGGTGTTCCTATGGCACATTTCTCTCCAAAGTCTCCTTTAAATTATAAACAAAACAAGGCGGTGGAAAATAAATACAAGCTCTTGAATAGTCCAACAAAACAAGCAACATTAGATGAGACACAATCACAAAAGTTTGCAAGTTCAACTAAAGGGGGAACATATTCTCGTGGCGAGGCGATATCATCAGCTGTGATTCACGCTGAAGGACTCCGATCACATTTGGAACCAGAATTCCCTAGTTTTGTGAAGTCCTTGCTCAGATCACATGTAGCTAGTTGTTTTTGGATGGGGTTACCTGTGTCGTTTTGTAAAAGACATTTACCTGATAAAGATACAACTATCACATTAGAAGATGAATATGGTAAAGAATACAAAACAAAATACATTGCATGTAAGACAGGATTGAGTGCTGGTTGGAGACAGTTTTCTGCTGTGCATGAATTGCTAGAAGGTGATGTGGTTGTATTCCAACTAATTGAACCCACCAAATTTAAGGTTTATATAATAAGAGCGGAACTAGAGAATCAAGAGAGTTGCACCAAACAAAAAGTGGGAGGAAGAAACAACATAGAACCTGATGTTGTAGCATGTAACAGCCCAAAAAGAAAAAGCGTTAAACATGTTCCACAAGACATCCAAAAGAAAAAGAAAATGATTGTATCAAACATGGAGACTAAGCCTAAGCAATATACAGGGCAGTCTGAAATTGATAGCGACGAAGCTTTGTCAGAAATATTCGAGGGATTTAAAATGCCTGAATTTAAAGAGTTAAAAGGTTTTGAAAATTTCAGAATCATAGTTGATGGAAGGCCAATCGAAGAAGAACTCTCTACAGAAGTTCGAAATAAGTACTACAAACTATGTTACAGTCAGCAAGTTTTTCTTCATGACAATCTCATCAAAGGTTTGCATTACAAGCTGACTGCTGGAATTATATCTGAAATTGTTAATATTGCTGATGCAATAAAAGTCAGTGTGATATCTACACCGCGTGTTGAATTTTCTAATTGGGATAAAACATTGCTAGCTTTTGAACATTTGGGCATGAATGTTGAATTTTTAAGAGTTCGATTGCGCAGGCTTGTTAGCATAGCTTATGAAACTGGTGATGCCTCAGAGATTAGAAGATATATGGCCTATAGAACTGAACAACACGGTCGAGTAGAGGATGAAATAAAGAACATGGAAACGAAGCTTGAAGAATTGAAGGAAGCTTGTAGCGGCTTTACTAATTATCTCGATAGTTTAAAGTCTAAAGCTGAAAAGCATGAACAAAAGTTTCAGAAAGAAGTTGCTGCTAATTGGTGA
Protein sequence

>MsaT044470.1

MSKMVAVDEKKRDRMVKKDVMEFPRNDDHGVTVAFYGREVYEGVPMAHFSPKSPLNYKQNKAVENKYKLLNSPTKQATLDETQSQKFASSTKGGTYSRGEAISSAVIHAEGLRSHLEPEFPSFVKSLLRSHVASCFWMGLPVSFCKRHLPDKDTTITLEDEYGKEYKTKYIACKTGLSAGWRQFSAVHELLEGDVVVFQLIEPTKFKVYIIRAELENQESCTKQKVGGRNNIEPDVVACNSPKRKSVKHVPQDIQKKKKMIVSNMETKPKQYTGQSEIDSDEALSEIFEGFKMPEFKELKGFENFRIIVDGRPIEEELSTEVRNKYYKLCYSQQVFLHDNLIKGLHYKLTAGIISEIVNIADAIKVSVISTPRVEFSNWDKTLLAFEHLGMNVEFLRVRLRRLVSIAYETGDASEIRRYMAYRTEQHGRVEDEIKNMETKLEELKEACSGFTNYLDSLKSKAEKHEQKFQKEVAANW*