AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036399

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036399 MtrunA17_Chr6g0468491 64.506 324 70 7 24 312 1 314 1.31e-133 382
MsaG036399 MtrunA17_Chr7g0225901 69.338 287 20 4 24 288 1 241 1.36e-133 379
MsaG036399 MtrunA17_Chr2g0307131 60.388 361 87 9 1 311 1 355 3.13e-129 372
MsaG036399 MtrunA17_Chr2g0307141 60.606 363 89 9 1 312 1 360 1.38e-121 353
MsaG036399 MtrunA17_Chr4g0033391 59.292 339 89 10 1 310 1 319 1.16e-115 337
MsaG036399 MtrunA17_Chr4g0033291 58.382 346 93 10 1 312 1 329 4.44e-113 330
MsaG036399 MtrunA17_Chr4g0033281 55.840 351 89 11 1 311 1 325 1.45e-102 303
MsaG036399 MtrunA17_Chr6g0468461 56.250 336 73 11 1 287 1 311 2.73e-100 298
MsaG036399 MtrunA17_Chr4g0054581 47.423 388 119 11 1 312 1 379 1.47e-93 282
MsaG036399 MtrunA17_Chr4g0054621 42.424 363 137 15 1 312 1 342 1.72e-64 206
MsaG036399 MtrunA17_Chr5g0400621 37.736 318 170 7 18 311 20 333 1.02e-43 152
MsaG036399 MtrunA17_Chr5g0400661 32.754 345 164 11 14 307 7 334 2.00e-39 141
MsaG036399 MtrunA17_Chr4g0054561 43.195 169 70 4 157 302 155 320 5.16e-36 132
MsaG036399 MtrunA17_Chr2g0280161 39.524 210 87 6 134 310 151 353 7.01e-36 132
MsaG036399 MtrunA17_Chr4g0002801 39.423 208 89 8 134 308 128 331 8.71e-35 129
MsaG036399 MtrunA17_Chr5g0400641 46.341 164 57 6 160 296 1 160 1.38e-33 121
MsaG036399 MtrunA17_Chr4g0054551 39.645 169 76 3 157 302 155 320 2.02e-33 125
MsaG036399 MtrunA17_Chr4g0049331 40.110 182 75 5 157 310 135 310 8.99e-31 117
MsaG036399 MtrunA17_Chr4g0002781 37.566 189 89 6 147 308 164 350 3.38e-29 114
MsaG036399 MtrunA17_Chr8g0336681 39.326 178 75 6 157 303 156 331 7.10e-28 110
MsaG036399 MtrunA17_Chr2g0333641 35.294 187 93 6 140 302 120 302 1.68e-27 108
MsaG036399 MtrunA17_Chr4g0054571 36.245 229 102 8 122 309 106 331 6.53e-26 105
MsaG036399 MtrunA17_Chr2g0333621 34.518 197 102 5 140 311 121 315 6.87e-26 104
MsaG036399 MtrunA17_Chr7g0249811 33.023 215 110 5 119 308 124 329 1.96e-25 103
MsaG036399 MtrunA17_Chr5g0400671 39.655 174 78 5 157 307 154 323 5.25e-25 102
MsaG036399 MtrunA17_Chr2g0333541 29.699 266 150 7 77 306 3 267 1.38e-23 97.8
MsaG036399 MtrunA17_Chr2g0333611 30.682 176 94 4 158 309 46 217 1.67e-19 85.5
MsaG036399 MtrunA17_Chr4g0002851 44.186 86 41 2 226 305 110 194 7.60e-17 77.4
MsaG036399 MtrunA17_Chr7g0233441 45.000 80 37 2 232 305 116 194 3.41e-16 75.9
MsaG036399 MtrunA17_Chr4g0002831 43.750 80 38 2 232 305 124 202 3.02e-15 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036399 AT2G22760.1 38.542 192 83 8 148 305 103 293 1.08e-32 122
MsaG036399 AT4G37850.2 34.694 245 110 9 113 310 87 328 8.31e-31 118
MsaG036399 AT4G37850.1 34.694 245 110 9 113 310 87 328 8.31e-31 118
MsaG036399 AT2G22760.2 36.994 173 75 7 148 287 103 274 2.42e-25 103
MsaG036399 AT2G22750.2 37.563 197 92 7 141 309 111 304 2.90e-24 100
MsaG036399 AT2G22750.1 37.563 197 91 8 141 309 111 303 7.88e-23 96.7
MsaG036399 AT2G22770.1 33.803 213 95 6 138 305 106 317 7.06e-22 94.4
MsaG036399 AT2G22750.3 29.070 344 189 13 7 309 3 332 1.06e-21 94.0
MsaG036399 AT2G22750.5 28.571 336 187 12 15 309 5 328 1.85e-20 90.5
MsaG036399 AT2G22750.4 29.070 344 188 14 7 309 3 331 2.69e-20 90.1

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATTTATAGTGGATGAATT+TGG 0.185655 7:+33365794 None:intergenic
AATTTATAGTGGATGAATTT+GGG 0.217326 7:+33365795 None:intergenic
CAAGTGGAAGCAAGAGTCTT+AGG 0.227099 7:-33364768 MsaT036399.1:CDS
TCTTGTTCCTAACCTTAAAA+AGG 0.267726 7:-33365579 MsaT036399.1:intron
AATAGTAGTGTCTTACCTTT+TGG 0.280739 7:-33364669 MsaT036399.1:CDS
CAACAGCTGGTTATCTGATT+TGG 0.283101 7:-33367331 MsaT036399.1:intron
TCCACATCTATAAGGAAATT+CGG 0.302534 7:+33366007 None:intergenic
GATGAGTTGGAAGAAAGTTT+TGG 0.324709 7:+33365851 None:intergenic
ATAAATTCCTCACAATTTAG+TGG 0.347904 7:-33365779 MsaT036399.1:CDS
CAGAAGAGTCATCGAGAAAA+AGG 0.350658 7:-33365688 MsaT036399.1:CDS
GAAGCTCTTCCACATCTATA+AGG 0.379411 7:+33365999 None:intergenic
ACTCTTGCTTCCACTTGAAA+TGG 0.394913 7:+33364774 None:intergenic
AGCTGTGTCTCCAACTGAAA+TGG 0.401088 7:-33365738 MsaT036399.1:CDS
CCACATCTATAAGGAAATTC+GGG 0.402643 7:+33366008 None:intergenic
ATAAACAATGTTTGACTTCG+AGG 0.433014 7:-33365937 MsaT036399.1:CDS
TAGGGAAATATATGTTGATT+CGG 0.438258 7:-33364749 MsaT036399.1:CDS
AAGTGGAAGCAAGAGTCTTA+GGG 0.455524 7:-33364767 MsaT036399.1:CDS
GAGAACCTTCATAGTGTTGT+TGG 0.457272 7:-33364801 MsaT036399.1:CDS
AGGCTACAACATGAACATAA+AGG 0.462195 7:-33364114 MsaT036399.1:CDS
TTGAAACTGAAAAGATGAGT+TGG 0.465335 7:+33365838 None:intergenic
AAATTGTGAGGAATTTATAG+TGG 0.484308 7:+33365784 None:intergenic
GTCACTATAAATGCCTGGTT+TGG 0.489903 7:+33364845 None:intergenic
GGATCCAATGCCAAGAGCAC+AGG 0.490309 7:-33364728 MsaT036399.1:CDS
AAAAGGTCTCGTGGTAATCA+TGG 0.502601 7:-33365671 MsaT036399.1:CDS
ATTTCAGTTGGAGACACAGC+TGG 0.503534 7:+33365740 None:intergenic
GGTCTCTACCTGAGCAATGA+TGG 0.507552 7:+33364626 None:intergenic
CAAGTGGTTGTGACCAAACC+AGG 0.515887 7:-33364858 MsaT036399.1:CDS
CGACGTGACCATCATTGCTC+AGG 0.526856 7:-33364634 MsaT036399.1:intron
TTGTCGTCACTATAAATGCC+TGG 0.527391 7:+33364840 None:intergenic
CCCGAATTTCCTTATAGATG+TGG 0.531562 7:-33366008 MsaT036399.1:CDS
TTCAAATCCACTAAATTGTG+AGG 0.531739 7:+33365772 None:intergenic
CGAATACAATTTAATTGCTG+AGG 0.543999 7:-33366038 MsaT036399.1:CDS
GATCCAATGCCAAGAGCACA+GGG 0.550651 7:-33364727 MsaT036399.1:CDS
TCATGGTTATGATCATATCA+TGG 0.552683 7:-33365654 MsaT036399.1:CDS
GTAAACCAACAACACTATGA+AGG 0.554409 7:+33364796 None:intergenic
TCCAATGCCAAGAGCACAGG+GGG 0.560849 7:-33364725 MsaT036399.1:CDS
CAAATCAGATAACCAGCTGT+TGG 0.564229 7:+33367332 None:intergenic
AAGGTTCTCATCACATGAAG+AGG 0.579692 7:+33364815 None:intergenic
TTTGGGGTGTTGTCAAAACA+TGG 0.585137 7:+33365812 None:intergenic
ATTTATAGTGGATGAATTTG+GGG 0.591446 7:+33365796 None:intergenic
TATCATCATCAACCAACAGC+TGG 0.596947 7:-33367344 MsaT036399.1:CDS
TCGATGATAGAATCTCCAAA+AGG 0.598134 7:+33364654 None:intergenic
TGTTGGTTTACCATTTCAAG+TGG 0.603001 7:-33364784 MsaT036399.1:CDS
GTTGCTGAGAGTTGTGTGAG+TGG 0.604875 7:+33365913 None:intergenic
ACTTGTGAAGAACATACGCA+TGG 0.680721 7:-33364090 MsaT036399.1:CDS
ATCCAATGCCAAGAGCACAG+GGG 0.741839 7:-33364726 MsaT036399.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 33364064 33367397 33364064 ID=MsaG036399
Chr7 mRNA 33364064 33367397 33364064 ID=MsaT036399.1;Parent=MsaG036399
Chr7 exon 33364064 33364144 33364064 ID=MsaT036399.1.exon4;Parent=MsaT036399.1
Chr7 CDS 33364064 33364144 33364064 ID=cds.MsaT036399.1;Parent=MsaT036399.1
Chr7 exon 33364635 33364937 33364635 ID=MsaT036399.1.exon3;Parent=MsaT036399.1
Chr7 CDS 33364635 33364937 33364635 ID=cds.MsaT036399.1;Parent=MsaT036399.1
Chr7 exon 33365580 33366068 33365580 ID=MsaT036399.1.exon2;Parent=MsaT036399.1
Chr7 CDS 33365580 33366068 33365580 ID=cds.MsaT036399.1;Parent=MsaT036399.1
Chr7 exon 33367332 33367397 33367332 ID=MsaT036399.1.exon1;Parent=MsaT036399.1
Chr7 CDS 33367332 33367397 33367332 ID=cds.MsaT036399.1;Parent=MsaT036399.1
Gene Sequence

>MsaT036399.1

ATGGAAGAAATCAACAACACAGCATTGAACGTATCATCATCAACCAACAGCTGGTTATCTGATTTGGAAATGAACGAATACAATTTAATTGCTGAGGAATGCAACCCGAATTTCCTTATAGATGTGGAAGAGCTTCTTTCACATGACATAGCTAATGTCTCCCAAGAACAAAACAATAAACAATGTTTGACTTCGAGGTCCACTCACACAACTCTCAGCAACACAATTGATCATATCAACAAAATCAATGAAACCTTTTCACCAAAACTTTCTTCCAACTCATCTTTTCAGTTTCAAATTCCATGTTTTGACAACACCCCAAATTCATCCACTATAAATTCCTCACAATTTAGTGGATTTGAAAAATATGAACCAGCTGTGTCTCCAACTGAAATGGAAAATATGAATCACTCAATGCAAACCTCAGAAGAGTCATCGAGAAAAAGGTCTCGTGGTAATCATGGTTATGATCATATCATGGCTGAGAGACAGAGAAGAGAGAAACTCACACAGCACTTCATTGCTCTTGCAGCTCTTGTTCCTAACCTTAAAAAGCTTAAAAAGCGTTTGGAAGTTTTGGAAGAACAAAATGAGAAAACAAAAATAGAGTCACAAGTGGTTGTGACCAAACCAGGCATTTATAGTGACGACAATTCCTCTTCATGTGATGAGAACCTTCATAGTGTTGTTGGTTTACCATTTCAAGTGGAAGCAAGAGTCTTAGGGAAATATATGTTGATTCGGATCCAATGCCAAGAGCACAGGGGGCTTATAATTCAAAGGTTTCAACTATTTGTTGTTAATAGTAGTGTCTTACCTTTTGGAGATTCTATCATCGACGTGACCATCATTGCTCAGATGGATGAAGGCTACAACATGAACATAAAGGAACTTGTGAAGAACATACGCATGGCAGCATTGAAGTTTATGTCATCATAA
Protein sequence

>MsaT036399.1

MEEINNTALNVSSSTNSWLSDLEMNEYNLIAEECNPNFLIDVEELLSHDIANVSQEQNNKQCLTSRSTHTTLSNTIDHINKINETFSPKLSSNSSFQFQIPCFDNTPNSSTINSSQFSGFEKYEPAVSPTEMENMNHSMQTSEESSRKRSRGNHGYDHIMAERQRREKLTQHFIALAALVPNLKKLKKRLEVLEEQNEKTKIESQVVVTKPGIYSDDNSSSCDENLHSVVGLPFQVEARVLGKYMLIRIQCQEHRGLIIQRFQLFVVNSSVLPFGDSIIDVTIIAQMDEGYNMNIKELVKNIRMAALKFMSS*