AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044342

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044342 MtrunA17_Chr8g0373351 86.617 269 14 1 48 316 45 291 6.37e-166 462
MsaG044342 MtrunA17_Chr8g0373001 56.780 354 97 6 10 316 65 409 1.09e-121 355
MsaG044342 MtrunA17_Chr5g0404321 49.724 362 112 8 10 316 67 413 2.63e-105 313
MsaG044342 MtrunA17_Chr8g0373331 56.634 309 98 8 10 309 64 345 3.93e-102 303
MsaG044342 MtrunA17_Chr8g0373361 50.142 353 107 9 10 311 70 404 7.33e-95 286
MsaG044342 MtrunA17_Chr1g0155301 41.279 344 145 6 17 316 89 419 3.48e-77 242
MsaG044342 MtrunA17_Chr2g0286441 39.528 339 150 6 17 311 58 385 5.83e-68 217
MsaG044342 MtrunA17_Chr2g0278511 39.011 364 152 10 9 311 65 419 1.70e-66 214
MsaG044342 MtrunA17_Chr1g0196071 38.690 336 155 6 17 311 69 394 1.12e-64 209
MsaG044342 MtrunA17_Chr1g0201891 37.950 361 149 9 17 311 72 423 1.93e-64 209
MsaG044342 MtrunA17_Chr2g0315641 37.941 340 131 10 16 311 60 363 2.60e-56 186
MsaG044342 MtrunA17_Chr8g0373341 43.092 304 122 8 11 309 63 320 6.37e-47 160
MsaG044342 MtrunA17_Chr2g0315651 35.503 338 135 10 20 311 59 359 1.36e-41 147
MsaG044342 MtrunA17_Chr1g0156151 55.000 80 32 1 17 96 70 145 4.73e-23 95.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044342 AT2G18280.2 44.220 346 129 8 15 316 65 390 3.70e-83 256
MsaG044342 AT2G18280.1 44.220 346 129 8 15 316 65 390 3.70e-83 256
MsaG044342 AT1G47270.3 41.595 351 126 7 17 316 63 385 1.14e-72 229
MsaG044342 AT1G47270.2 41.595 351 126 7 17 316 87 409 1.57e-72 230
MsaG044342 AT1G47270.1 41.595 351 126 7 17 316 88 410 1.63e-72 230
MsaG044342 AT1G25280.1 38.503 374 141 10 15 311 76 437 9.55e-69 221
MsaG044342 AT2G47900.2 39.884 346 143 8 15 311 69 398 4.18e-65 210
MsaG044342 AT2G47900.1 39.884 346 143 8 15 311 69 398 4.18e-65 210
MsaG044342 AT2G47900.3 39.769 347 143 8 15 311 69 399 6.44e-65 210
MsaG044342 AT1G76900.2 37.056 394 147 12 7 311 66 447 1.36e-61 202
MsaG044342 AT1G76900.1 37.056 394 147 12 7 311 66 447 1.36e-61 202
MsaG044342 AT1G76900.3 37.056 394 147 12 7 311 66 447 1.36e-61 202
MsaG044342 AT3G06380.1 37.356 348 155 10 8 311 44 372 5.16e-59 194
MsaG044342 AT5G18680.1 36.648 352 155 9 8 311 50 381 6.62e-59 194
MsaG044342 AT1G43640.2 37.017 362 151 12 15 311 6 355 1.05e-57 190
MsaG044342 AT1G43640.1 36.486 370 158 12 7 311 64 421 2.22e-57 191
MsaG044342 AT1G53320.1 36.812 345 144 8 11 311 57 371 5.95e-50 170
MsaG044342 AT1G25280.3 41.339 254 107 8 92 311 14 259 7.18e-47 159
MsaG044342 AT1G25280.2 41.339 254 107 8 92 311 14 259 7.18e-47 159
MsaG044342 AT5G18680.2 35.831 307 129 9 53 311 3 289 3.80e-45 155
MsaG044342 AT3G06380.2 36.486 296 125 10 60 311 4 280 2.33e-44 153
MsaG044342 AT1G61940.2 46.753 77 37 1 15 91 15 87 4.41e-16 77.0

Find 84 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCCGGCTTGATCGACAATT+TGG 0.228814 8:+58807900 None:intergenic
TATGTTGATCGACAATTCTT+TGG 0.237593 8:+58807852 None:intergenic
TTTCAGTTGTACTTAGGTTT+GGG 0.243955 8:-58808506 MsaT044342.1:CDS
ATGATGCAATGTATTCTTCT+TGG 0.252868 8:+58807771 None:intergenic
AAGCCGGATATTTAATAATA+AGG 0.302115 8:-58807886 MsaT044342.1:CDS
ATTACCTGCATCAGTGAAAT+AGG 0.310386 8:+58811778 None:intergenic
ATCTTACAGTTTGGAAAGAT+TGG 0.311656 8:-58807417 MsaT044342.1:CDS
AATTATGTCTAAAAGCAATT+CGG 0.348399 8:+58811926 None:intergenic
ATCCGATGCAGTGCTTTATT+CGG 0.354028 8:-58808562 MsaT044342.1:CDS
GAACTTGTTGAGCCCAAAAC+TGG 0.355370 8:+58807965 None:intergenic
CTGTCTCAGCTATTCATAAA+GGG 0.367799 8:-58807737 MsaT044342.1:CDS
ATTACCCTTTCTTGCTCCTC+AGG 0.370302 8:+58807438 None:intergenic
GAAAGGGTAATCTTACAGTT+TGG 0.371540 8:-58807426 MsaT044342.1:CDS
ATACCTTATTATTAAATATC+CGG 0.376545 8:+58807883 None:intergenic
CCAAGCCTTTGCCATCTGCT+TGG 0.383935 8:-58807349 MsaT044342.1:CDS
TCAAAAGCAAGGCTCCTAGA+TGG 0.387776 8:-58807569 MsaT044342.1:CDS
GGTTGAACTGCAGCATCATC+TGG 0.388445 8:+58807921 None:intergenic
CCTGTCTCAGCTATTCATAA+AGG 0.399999 8:-58807738 MsaT044342.1:CDS
ATTATGTCTAAAAGCAATTC+GGG 0.401390 8:+58811927 None:intergenic
TCAGTCCTGGTAGCTCTGAT+TGG 0.423592 8:+58807607 None:intergenic
TCTTCTTGGCGAGTGGACTT+TGG 0.427811 8:+58807785 None:intergenic
ATTTCCTATTTCACTGATGC+AGG 0.447311 8:-58811782 MsaT044342.1:intron
CATCGGATGATCACGGGGAC+CGG 0.448035 8:+58808577 None:intergenic
GTGCTTCGGTATGTAAATCA+TGG 0.451227 8:-58811858 MsaT044342.1:CDS
ATTCGAAGGGTGAGACATCT+TGG 0.459333 8:-58811906 MsaT044342.1:CDS
GGGTTGGCACCTAGACTTCA+AGG 0.460220 8:-58807532 MsaT044342.1:CDS
GAGGTAAAGATGTCAATGTC+AGG 0.460528 8:+58807706 None:intergenic
GAAAACGTTTCATCAGATAC+TGG 0.463759 8:+58807684 None:intergenic
TTCTCCTTCGCCAACACTGA+AGG 0.471471 8:-58807664 MsaT044342.1:CDS
ATAAGTTTAGGGCGCGGAAA+AGG 0.480468 8:+58807320 None:intergenic
TTGCACTGCTCATCCCATCT+AGG 0.486778 8:+58807555 None:intergenic
AAGACAACAACAGCACGCAC+AGG 0.491476 8:+58811883 None:intergenic
TTTCTCCTGAGGAGCAAGAA+AGG 0.491680 8:-58807443 MsaT044342.1:CDS
TGGCGAGTGGACTTTGGAAA+TGG 0.496588 8:+58807791 None:intergenic
TAACACGTCCCTTGAAGTCT+AGG 0.498472 8:+58807523 None:intergenic
GCAGATGGCAAAGGCTTGGA+AGG 0.500254 8:+58807353 None:intergenic
ATCCTTCCACATTGCTGAGT+TGG 0.504963 8:+58811808 None:intergenic
CCTTTATGAATAGCTGAGAC+AGG 0.505478 8:+58807738 None:intergenic
TTCAGTTGTACTTAGGTTTG+GGG 0.513779 8:-58808505 MsaT044342.1:CDS
CTCCTTCGCCAACACTGAAG+GGG 0.516445 8:-58807662 MsaT044342.1:CDS
CCAAGCAGATGGCAAAGGCT+TGG 0.517089 8:+58807349 None:intergenic
GCACTGCATCGGATGATCAC+GGG 0.519512 8:+58808571 None:intergenic
CAAAAGCAAGGCTCCTAGAT+GGG 0.521682 8:-58807568 MsaT044342.1:CDS
TCTCCTTCGCCAACACTGAA+GGG 0.525573 8:-58807663 MsaT044342.1:CDS
GTCAAGGGCTCACTCAGTCC+TGG 0.526580 8:+58807594 None:intergenic
GCAAGCCAATCAGAGCTACC+AGG 0.536157 8:-58807612 MsaT044342.1:CDS
ATCGGATGATCACGGGGACC+GGG 0.536395 8:+58808578 None:intergenic
TTCCCCTTCAGTGTTGGCGA+AGG 0.546113 8:+58807660 None:intergenic
GATCGACAATTCTTTGGAGA+CGG 0.555282 8:+58807858 None:intergenic
TTCTCCTGAGGAGCAAGAAA+GGG 0.559662 8:-58807442 MsaT044342.1:CDS
AAAGGCAGAAGCCAAGCAGA+TGG 0.561114 8:+58807338 None:intergenic
AGAAGCCAAGCAGATGGCAA+AGG 0.563592 8:+58807344 None:intergenic
CGATGCAGTGCTTTATTCGG+AGG 0.578350 8:-58808559 MsaT044342.1:CDS
AAGAATTGTCGATCAACATA+CGG 0.580042 8:-58807849 MsaT044342.1:CDS
AACCAAATTGTCGATCAAGC+CGG 0.584672 8:-58807902 MsaT044342.1:CDS
AAGGCTTGGAAGGCGGAGAG+TGG 0.587325 8:+58807363 None:intergenic
CGCCAACTCAGCAATGTGGA+AGG 0.589078 8:-58811810 MsaT044342.1:CDS
CTAACAAGACGGCTACATGT+TGG 0.589236 8:+58807816 None:intergenic
AGCACTGCATCGGATGATCA+CGG 0.590485 8:+58808570 None:intergenic
TAGATGGGATGAGCAGTGCA+AGG 0.593291 8:-58807553 MsaT044342.1:CDS
GGAGCAACCGAATACTTACA+TGG 0.602497 8:+58808482 None:intergenic
CTCCGAATAAAGCACTGCAT+CGG 0.604271 8:+58808560 None:intergenic
TGTCTCAGCTATTCATAAAG+GGG 0.608301 8:-58807736 MsaT044342.1:CDS
TAGCTCTGATTGGCTTGCAG+AGG 0.609870 8:+58807617 None:intergenic
GCCCTTGACACTCAAAAGCA+AGG 0.612932 8:-58807580 MsaT044342.1:CDS
GGGATGAGCAGTGCAAGGGT+TGG 0.613229 8:-58807548 MsaT044342.1:CDS
GTCTCATAATGTTTCTCCTG+AGG 0.621196 8:-58807454 MsaT044342.1:CDS
CACTGCATCGGATGATCACG+GGG 0.621816 8:+58808572 None:intergenic
AATGTATTCTTCTTGGCGAG+TGG 0.627171 8:+58807778 None:intergenic
TGGAAATGGTGCTAACAAGA+CGG 0.633735 8:+58807805 None:intergenic
AGATGGGATGAGCAGTGCAA+GGG 0.635701 8:-58807552 MsaT044342.1:CDS
TCAGGAGAAACATTATGAGA+CGG 0.641318 8:+58807456 None:intergenic
AGGTAAAGATGTCAATGTCA+GGG 0.644230 8:+58807707 None:intergenic
GATGGCAAAGGCTTGGAAGG+CGG 0.644428 8:+58807356 None:intergenic
TGGAACAGATATATTCACCA+TGG 0.646888 8:-58807397 MsaT044342.1:CDS
GGTTGGCACCTAGACTTCAA+GGG 0.657836 8:-58807531 MsaT044342.1:CDS
GGTATGTAAATCATGGAGGT+CGG 0.660173 8:-58811851 MsaT044342.1:CDS
GAGTGGATAAGAGTAATCCA+TGG 0.660494 8:+58807380 None:intergenic
CTTCAAGGGACGTGTTACAG+TGG 0.670332 8:-58807517 MsaT044342.1:CDS
AACGTTTCATCAGATACTGG+AGG 0.677184 8:+58807687 None:intergenic
ATGTCTAAAAGCAATTCGGG+TGG 0.680227 8:+58811930 None:intergenic
ATTACGCCAACTCAGCAATG+TGG 0.692751 8:-58811814 MsaT044342.1:CDS
TGAACTGCAGCATCATCTGG+AGG 0.713495 8:+58807924 None:intergenic
CTTCGGTATGTAAATCATGG+AGG 0.716243 8:-58811855 MsaT044342.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 58807326 58811965 58807326 ID=MsaG044342
Chr8 mRNA 58807326 58811965 58807326 ID=MsaT044342.1;Parent=MsaG044342
Chr8 exon 58807326 58807989 58807326 ID=MsaT044342.1.exon3;Parent=MsaT044342.1
Chr8 CDS 58807326 58807989 58807326 ID=cds.MsaT044342.1;Parent=MsaT044342.1
Chr8 exon 58808497 58808600 58808497 ID=MsaT044342.1.exon2;Parent=MsaT044342.1
Chr8 CDS 58808497 58808600 58808497 ID=cds.MsaT044342.1;Parent=MsaT044342.1
Chr8 exon 58811783 58811965 58811783 ID=MsaT044342.1.exon1;Parent=MsaT044342.1
Chr8 CDS 58811783 58811965 58811783 ID=cds.MsaT044342.1;Parent=MsaT044342.1
Gene Sequence

>MsaT044342.1

ATGGGCAACTCTACCACCCGAATTGCTTTTAGACATAATTCGAAGGGTGAGACATCTTGGCCTGTGCGTGCTGTTGTTGTCTTTTGTGCTTCGGTATGTAAATCATGGAGGTCGGTCACTAAAGAGACTATTACGCCAACTCAGCAATGTGGAAGGATCACATTTCCTATTTCACTGATGCAGCCCGGTCCCCGTGATCATCCGATGCAGTGCTTTATTCGGAGGAACAAAATGAGAGAATCATCACTTCAAACTTTTCAGTTGTACTTAGGTTTGGGGCCATGTAAGTCCAGTTTTGGGCTCAACAAGTTCTTTGTATACGACAATCAACCTCCAGATGATGCTGCAGTTCAACCAAATTGTCGATCAAGCCGGATATTTAATAATAAGGTATCACCGTCTCCAAAGAATTGTCGATCAACATACGGAAGAATTGCTCCAACATGTAGCCGTCTTGTTAGCACCATTTCCAAAGTCCACTCGCCAAGAAGAATACATTGCATCATGAATTCTATACCTGTCTCAGCTATTCATAAAGGGGAAAATGCCCTGACATTGACATCTTTACCTCCAGTATCTGATGAAACGTTTTCTCCTTCGCCAACACTGAAGGGGAAAACTCAAATGAGAGATTCATCCTCTGCAAGCCAATCAGAGCTACCAGGACTGAGTGAGCCCTTGACACTCAAAAGCAAGGCTCCTAGATGGGATGAGCAGTGCAAGGGTTGGCACCTAGACTTCAAGGGACGTGTTACAGTGGCATCTGTGAAAAACTTTCAATTTGTAGCTGCTGTTGATCCGTCTCATAATGTTTCTCCTGAGGAGCAAGAAAGGGTAATCTTACAGTTTGGAAAGATTGGAACAGATATATTCACCATGGATTACTCTTATCCACTCTCCGCCTTCCAAGCCTTTGCCATCTGCTTGGCTTCTGCCTTTTCCGCGCCCTAA
Protein sequence

>MsaT044342.1

MGNSTTRIAFRHNSKGETSWPVRAVVVFCASVCKSWRSVTKETITPTQQCGRITFPISLMQPGPRDHPMQCFIRRNKMRESSLQTFQLYLGLGPCKSSFGLNKFFVYDNQPPDDAAVQPNCRSSRIFNNKVSPSPKNCRSTYGRIAPTCSRLVSTISKVHSPRRIHCIMNSIPVSAIHKGENALTLTSLPPVSDETFSPSPTLKGKTQMRDSSSASQSELPGLSEPLTLKSKAPRWDEQCKGWHLDFKGRVTVASVKNFQFVAAVDPSHNVSPEEQERVILQFGKIGTDIFTMDYSYPLSAFQAFAICLASAFSAP*