AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036325


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036325 MtrunA17_Chr2g0294841 44.271 192 99 3 49 234 45 234 4.65e-42 155
MsaG036325 MtrunA17_Chr2g0276841 42.857 189 103 2 49 234 70 256 7.82e-42 154
MsaG036325 MtrunA17_Chr2g0290391 39.691 194 107 5 49 234 51 242 9.49e-36 137
MsaG036325 MtrunA17_Chr5g0431001 39.487 195 106 3 49 234 61 252 3.07e-32 125
MsaG036325 MtrunA17_Chr5g0402481 74.667 75 18 1 267 340 11 85 6.87e-32 115
MsaG036325 MtrunA17_Chr1g0198761 37.500 192 108 3 52 234 50 238 6.22e-30 120
MsaG036325 MtrunA17_Chr5g0448761 32.812 192 118 5 46 232 57 242 6.39e-19 88.2
MsaG036325 MtrunA17_Chr7g0233911 40.179 112 60 2 48 157 33 139 5.92e-17 78.6
MsaG036325 MtrunA17_Chr2g0287651 31.325 166 107 4 55 218 81 241 5.06e-16 79.3
MsaG036325 MtrunA17_Chr2g0329421 37.719 114 56 5 48 156 26 129 3.96e-15 73.6
MsaG036325 MtrunA17_Chr1g0171741 30.973 113 73 2 55 166 139 247 5.67e-15 73.9
MsaG036325 MtrunA17_Chr8g0363841 30.097 206 122 8 36 232 4 196 8.80e-15 75.5
MsaG036325 MtrunA17_Chr3g0082121 30.818 159 96 5 31 185 28 176 6.87e-14 72.8
MsaG036325 MtrunA17_Chr1g0203051 26.012 173 121 4 44 214 74 241 3.34e-13 70.5
MsaG036325 MtrunA17_Chr2g0329361 29.655 145 86 4 38 175 50 185 6.14e-13 67.8
MsaG036325 MtrunA17_Chr7g0258861 29.651 172 112 4 46 215 7 171 1.52e-12 67.4
MsaG036325 MtrunA17_Chr6g0458391 34.091 132 75 5 46 173 222 345 2.02e-12 68.2
MsaG036325 MtrunA17_Chr2g0324011 29.651 172 111 4 46 215 7 170 5.10e-12 67.0
MsaG036325 MtrunA17_Chr2g0287061 33.594 128 64 4 29 154 163 271 4.34e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036325 AT1G10240.2 43.243 185 97 3 49 227 48 230 2.80e-40 150
MsaG036325 AT1G10240.1 43.243 185 97 3 49 227 48 230 2.80e-40 150
MsaG036325 AT5G28530.5 39.891 183 107 2 47 228 53 233 1.56e-37 142
MsaG036325 AT5G28530.4 39.891 183 107 2 47 228 53 233 1.69e-37 142
MsaG036325 AT5G28530.1 39.891 183 107 2 47 228 53 233 2.62e-37 142
MsaG036325 AT5G28530.3 39.891 183 107 2 47 228 53 233 2.86e-37 142
MsaG036325 AT5G28530.2 39.891 183 107 2 47 228 53 233 2.86e-37 142
MsaG036325 AT4G38180.1 33.484 221 126 8 22 232 45 254 1.14e-19 90.5
MsaG036325 AT4G12850.4 39.091 110 54 4 48 154 10 109 4.84e-11 60.5

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTCATTCTTCCTCTTCT+TGG 0.133088 7:+32079531 None:intergenic
CGTAATGGCAAGTAACTTAT+TGG 0.221681 7:+32079814 None:intergenic
CTGTTTCGTTGTTCTTTATA+CGG 0.224757 7:+32084397 None:intergenic
TCAATAACCTGCCACTCTTC+TGG 0.264829 7:+32084307 None:intergenic
AATTGAGAACCCACTCCTTT+TGG 0.307636 7:+32084513 None:intergenic
AGAAAACACTGCCCTATAAA+AGG 0.321677 7:+32084574 None:intergenic
TTCCTCTTCTTGGTGATTGT+TGG 0.336578 7:+32079541 None:intergenic
TTACCATATGGTTCATTGTA+TGG 0.356722 7:+32084667 None:intergenic
ATCATCATATTTACTTCAAC+CGG 0.363801 7:+32079766 None:intergenic
CCACTTTCTGAATTACCATA+TGG 0.379352 7:+32084655 None:intergenic
ATGGAGATCTTCGATTTCTT+CGG 0.390535 7:-32084114 MsaT036325.1:CDS
CAAGCAAATAATGCGTGTTA+TGG 0.401498 7:-32084158 MsaT036325.1:CDS
GTATTCTCCACATTCTCAAT+AGG 0.415640 7:+32079730 None:intergenic
ATTAAAAGAAGCTGATCTTT+CGG 0.417971 7:-32084182 MsaT036325.1:CDS
TGAACATAACTTTCTTTGTC+CGG 0.422190 7:+32079565 None:intergenic
GAGAATTATGCCAAAAGGAG+TGG 0.432756 7:-32084523 MsaT036325.1:CDS
GCACAATGTTACAACTTGTC+CGG 0.470462 7:-32079584 MsaT036325.1:CDS
TTTATGAGAATTATGCCAAA+AGG 0.477231 7:-32084528 MsaT036325.1:CDS
CTTCCATACAATGAACCATA+TGG 0.487037 7:-32084670 MsaT036325.1:CDS
CCCAAAATAAAACGGTCAAA+AGG 0.490079 7:-32079661 MsaT036325.1:CDS
CCGCCAAGGTCTAATACAAA+AGG 0.501842 7:-32079688 MsaT036325.1:CDS
TTGCATCCACATCTTGAAGA+TGG 0.518152 7:+32084373 None:intergenic
ATTCATCAAGATAACATGAA+TGG 0.519717 7:-32084064 MsaT036325.1:CDS
AGTGGGTTCTCAATTAGAAA+AGG 0.520009 7:-32084505 MsaT036325.1:CDS
CCATATGGTAATTCAGAAAG+TGG 0.524408 7:-32084655 MsaT036325.1:CDS
TCGTGATGAATTTCAAAGAC+CGG 0.536511 7:-32079785 MsaT036325.1:CDS
AAAACGGTCAAAAGGAGGAA+TGG 0.537926 7:-32079653 MsaT036325.1:CDS
TCATCACGACACCAACGTAA+TGG 0.541318 7:+32079799 None:intergenic
AGGAAGTGCACTTGATCTGA+AGG 0.561598 7:+32084253 None:intergenic
ATCTTCAAGATGTGGATGCA+AGG 0.570838 7:-32084371 MsaT036325.1:CDS
AAGGTCGTCCCAAAATAAAA+CGG 0.571942 7:-32079669 MsaT036325.1:CDS
AGGAGGACCTATTGAGAATG+TGG 0.586619 7:-32079737 MsaT036325.1:CDS
GTAAATATGATGATTAGTGA+AGG 0.591344 7:-32079757 MsaT036325.1:CDS
TTTCAAAGAAAGAAGAGAAG+CGG 0.595519 7:-32084213 MsaT036325.1:CDS
GGTTCTCAATTAGAAAAGGT+AGG 0.597383 7:-32084501 MsaT036325.1:CDS
AGAATTATGCCAAAAGGAGT+GGG 0.597719 7:-32084522 MsaT036325.1:CDS
AGCCAACAATCACCAAGAAG+AGG 0.598183 7:-32079543 MsaT036325.1:CDS
AAAATAAAACGGTCAAAAGG+AGG 0.608652 7:-32079658 MsaT036325.1:CDS
AACAGACCATCTTCAAGATG+TGG 0.612169 7:-32084379 MsaT036325.1:CDS
TAAGTTACTTGCCATTACGT+TGG 0.620713 7:-32079810 MsaT036325.1:CDS
GTAGCACCATGTGGAGGACG+AGG 0.625228 7:-32089994 None:intergenic
AATATGATGATTAGTGAAGG+AGG 0.627315 7:-32079754 MsaT036325.1:CDS
AATTAACCTCGTCCTCCACA+TGG 0.634644 7:+32089988 None:intergenic
ACCCTAGTAGCACCATGTGG+AGG 0.680973 7:-32090000 None:intergenic
AAGGTAGTAAATCATGATTG+TGG 0.681848 7:+32084272 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 32079528 32090008 32079528 ID=MsaG036325
Chr7 mRNA 32079528 32090008 32079528 ID=MsaT036325.1;Parent=MsaG036325
Chr7 exon 32079528 32079850 32079528 ID=MsaT036325.1.exon3;Parent=MsaT036325.1
Chr7 CDS 32079528 32079850 32079528 ID=cds.MsaT036325.1;Parent=MsaT036325.1
Chr7 exon 32084038 32084726 32084038 ID=MsaT036325.1.exon2;Parent=MsaT036325.1
Chr7 CDS 32084038 32084726 32084038 ID=cds.MsaT036325.1;Parent=MsaT036325.1
Chr7 exon 32089995 32090008 32089995 ID=MsaT036325.1.exon1;Parent=MsaT036325.1
Chr7 CDS 32089995 32090008 32089995 ID=cds.MsaT036325.1;Parent=MsaT036325.1
Gene Sequence

>MsaT036325.1

ATGTGGAGGACGAGGTTGAGAATCAAAAATTTGGTTGATTTGAACAATCTTCCATACAATGAACCATATGGTAATTCAGAAAGTGGAGTAGTTGAGTTGAGTAGAAATGAACAAGAAGCAATTACTATTGAAAACGATTTTGAACCTTTTATAGGGCAGTGTTTTCTAAGTGAGGAAGAAGCTTTCAAATTTTATGAGAATTATGCCAAAAGGAGTGGGTTCTCAATTAGAAAAGGTAGGTTTGTTAATAAAAATGGGATAATGCATAGGAGAGATTTGTTTTGTCACCGTGGAGGATTTCCTGATAAAAAAATTCATGATCCGTATAAAGAACAACGAAACAGACCATCTTCAAGATGTGGATGCAAGGCAAGCATGACAATCAAATTGAAGAAATCCTTTGAGATTTTTCCAGAAGAGTGGCAGGTTATTGAATTTATATCTAACCACAATCATGATTTACTACCTTCAGATCAAGTGCACTTCCTTGCATCTTACCGCAAAATTTCAAAGAAAGAAGAGAAGCGGATACTGCTATTAAAAGAAGCTGATCTTTCGGTCAAGCAAATAATGCGTGTTATGGAGCTTGAGAAAAATGTAAAACATGGAGATCTTCGATTTCTTCGGAAAGATATTCATAATTTCTTTAATAAGATTCATCAAGATAACATGAATGGTGATGCTAATGATCTTTTACAACTTTATTGTTTTGAGATTCCAATAAGTTACTTGCCATTACGTTGGTGTCGTGATGAATTTCAAAGACCGGTTGAAGTAAATATGATGATTAGTGAAGGAGGACCTATTGAGAATGTGGAGAATACAGTAGACTTAATTAAAAATCCGCCAAGGTCTAATACAAAAGGTCGTCCCAAAATAAAACGGTCAAAAGGAGGAATGGAATTGTCAAAGAAAGCAAGAAGCTGTACTTTTTGCAAGAGAAGGGGGCACAATGTTACAACTTGTCCGGACAAAGAAAGTTATGTTCAGCCAACAATCACCAAGAAGAGGAAGAATGAAGATTAA

Protein sequence

>MsaT036325.1

MWRTRLRIKNLVDLNNLPYNEPYGNSESGVVELSRNEQEAITIENDFEPFIGQCFLSEEEAFKFYENYAKRSGFSIRKGRFVNKNGIMHRRDLFCHRGGFPDKKIHDPYKEQRNRPSSRCGCKASMTIKLKKSFEIFPEEWQVIEFISNHNHDLLPSDQVHFLASYRKISKKEEKRILLLKEADLSVKQIMRVMELEKNVKHGDLRFLRKDIHNFFNKIHQDNMNGDANDLLQLYCFEIPISYLPLRWCRDEFQRPVEVNMMISEGGPIENVENTVDLIKNPPRSNTKGRPKIKRSKGGMELSKKARSCTFCKRRGHNVTTCPDKESYVQPTITKKRKNED*