AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043962

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043962 MtrunA17_Chr8g0368911 92.216 167 13 0 14 180 569 735 7.06e-112 336
MsaG043962 MtrunA17_Chr8g0368901 86.228 167 23 0 14 180 576 742 1.33e-105 319
MsaG043962 MtrunA17_Chr8g0369301 79.641 167 34 0 14 180 556 722 1.33e-97 298
MsaG043962 MtrunA17_Chr1g0163051 73.653 167 44 0 14 180 465 631 8.63e-90 275
MsaG043962 MtrunA17_Chr1g0163041 63.473 167 61 0 14 180 384 550 5.22e-76 238
MsaG043962 MtrunA17_Chr6g0467381 63.158 171 56 3 14 180 382 549 2.06e-74 233
MsaG043962 MtrunA17_Chr6g0467421 63.158 171 56 3 14 180 382 549 2.11e-74 233
MsaG043962 MtrunA17_Chr6g0467531 63.158 171 56 3 14 180 382 549 2.84e-74 233
MsaG043962 MtrunA17_Chr6g0467411 62.573 171 57 3 14 180 300 467 2.48e-73 228
MsaG043962 MtrunA17_Chr6g0467401 62.573 171 57 3 14 180 382 549 1.06e-72 229
MsaG043962 MtrunA17_Chr2g0306961 61.404 171 59 3 14 180 281 448 2.34e-70 220
MsaG043962 MtrunA17_Chr3g0094881 62.573 171 57 3 14 180 441 608 3.17e-70 224
MsaG043962 MtrunA17_Chr4g0003511 39.881 168 101 0 12 179 840 1007 5.57e-42 149
MsaG043962 MtrunA17_Chr5g0399801 38.690 168 103 0 12 179 877 1044 8.07e-41 146
MsaG043962 MtrunA17_Chr3g0080761 37.566 189 100 5 3 180 438 619 1.45e-35 130
MsaG043962 MtrunA17_Chr4g0003501 38.095 168 102 1 12 179 745 910 1.91e-35 130
MsaG043962 MtrunA17_Chr6g0476111 36.994 173 93 3 18 179 482 649 5.03e-33 124
MsaG043962 MtrunA17_Chr8g0354821 38.983 177 91 5 14 180 474 643 7.72e-33 123
MsaG043962 MtrunA17_Chr6g0476121 38.150 173 91 3 18 179 431 598 1.28e-32 122
MsaG043962 MtrunA17_Chr7g0252211 37.572 173 92 3 18 179 545 712 4.14e-32 121
MsaG043962 MtrunA17_Chr7g0255181 38.596 171 89 4 14 180 507 665 6.24e-31 117
MsaG043962 MtrunA17_Chr8g0373821 30.588 170 104 3 11 179 345 501 3.82e-21 89.7
MsaG043962 MtrunA17_Chr7g0232811 33.129 163 92 5 34 179 332 494 1.39e-20 88.2
MsaG043962 MtrunA17_Chr5g0403241 30.814 172 103 4 11 179 1311 1469 8.84e-19 83.2
MsaG043962 MtrunA17_Chr4g0075321 28.488 172 109 4 10 179 867 1026 2.50e-18 81.6
MsaG043962 MtrunA17_Chr7g0232841 32.317 164 93 6 34 179 320 483 8.27e-18 80.1
MsaG043962 MtrunA17_Chr7g0232981 32.624 141 87 2 43 179 335 471 4.07e-16 75.1
MsaG043962 MtrunA17_Chr1g0190311 37.255 102 55 4 17 114 451 547 7.03e-14 68.9
MsaG043962 MtrunA17_Chr1g0183321 30.612 147 81 7 24 165 559 689 4.27e-13 66.6
MsaG043962 MtrunA17_Chr1g0170651 29.221 154 84 2 26 179 378 506 6.81e-13 65.9
MsaG043962 MtrunA17_Chr7g0262001 39.024 82 44 2 24 104 515 591 7.36e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043962 AT2G33290.1 62.286 175 66 0 6 180 450 624 7.01e-83 258
MsaG043962 AT2G33290.3 62.286 175 66 0 6 180 450 624 7.01e-83 258
MsaG043962 AT2G33290.4 62.286 175 66 0 6 180 450 624 7.01e-83 258
MsaG043962 AT2G33290.2 62.286 175 66 0 6 180 450 624 7.01e-83 258
MsaG043962 AT4G13460.1 65.882 170 57 1 11 179 453 622 2.60e-82 256
MsaG043962 AT4G13460.2 65.882 170 57 1 11 179 453 622 2.60e-82 256
MsaG043962 AT2G35160.5 36.810 163 77 2 18 180 578 714 2.36e-34 128
MsaG043962 AT2G35160.2 36.810 163 77 2 18 180 614 750 2.43e-34 128
MsaG043962 AT2G35160.3 36.810 163 77 2 18 180 614 750 2.43e-34 128
MsaG043962 AT2G35160.1 36.810 163 77 2 18 180 614 750 2.43e-34 128
MsaG043962 AT2G35160.4 36.810 163 77 2 18 180 614 750 2.43e-34 128
MsaG043962 AT2G22740.2 33.889 180 118 1 1 179 566 745 4.03e-32 121
MsaG043962 AT2G22740.1 33.889 180 118 1 1 179 566 745 4.03e-32 121
MsaG043962 AT5G13960.2 36.095 169 99 2 18 179 279 445 9.66e-31 116
MsaG043962 AT5G13960.1 36.095 169 99 2 18 179 413 579 1.16e-30 117
MsaG043962 AT5G04940.2 35.263 190 95 4 5 180 450 625 1.63e-29 114
MsaG043962 AT5G04940.1 35.263 190 95 4 5 180 450 625 1.63e-29 114
MsaG043962 AT1G73100.1 32.768 177 90 4 19 180 462 624 4.27e-26 104
MsaG043962 AT1G17770.1 35.838 173 87 6 19 180 487 646 4.67e-23 95.9
MsaG043962 AT2G23740.1 31.928 166 95 4 17 179 1184 1334 1.00e-22 94.7
MsaG043962 AT2G23740.3 31.928 166 95 4 17 179 1191 1341 1.00e-22 94.7
MsaG043962 AT2G23740.6 31.928 166 95 4 17 179 1191 1341 1.00e-22 94.7
MsaG043962 AT2G23740.2 31.928 166 95 4 17 179 1191 1341 1.00e-22 94.7
MsaG043962 AT2G24740.1 35.673 171 85 7 19 180 555 709 9.55e-20 86.3
MsaG043962 AT2G23740.4 32.374 139 76 4 17 152 1191 1314 3.56e-19 84.7
MsaG043962 AT2G23740.5 32.374 139 76 4 17 152 1191 1314 3.56e-19 84.7
MsaG043962 AT3G03750.2 30.921 152 92 3 29 179 169 308 9.38e-15 71.2
MsaG043962 AT1G04050.2 46.479 71 35 2 17 86 534 602 3.71e-12 64.3
MsaG043962 AT1G04050.1 46.479 71 35 2 17 86 534 602 3.71e-12 64.3
MsaG043962 AT1G04050.3 46.479 71 35 2 17 86 430 498 4.19e-12 63.9
MsaG043962 AT5G43990.3 47.541 61 31 1 27 86 526 586 8.71e-12 63.2
MsaG043962 AT5G43990.11 47.541 61 31 1 27 86 526 586 8.71e-12 63.2
MsaG043962 AT5G43990.1 47.541 61 31 1 27 86 526 586 8.71e-12 63.2
MsaG043962 AT5G43990.4 47.541 61 31 1 27 86 526 586 8.71e-12 63.2
MsaG043962 AT5G43990.9 47.541 61 31 1 27 86 549 609 8.76e-12 63.2
MsaG043962 AT5G43990.2 47.541 61 31 1 27 86 549 609 8.76e-12 63.2
MsaG043962 AT5G43990.15 47.541 61 31 1 27 86 529 589 8.97e-12 63.2
MsaG043962 AT5G43990.10 47.541 61 31 1 27 86 529 589 8.97e-12 63.2
MsaG043962 AT5G43990.16 47.541 61 31 1 27 86 506 566 9.17e-12 63.2
MsaG043962 AT5G43990.5 47.541 61 31 1 27 86 506 566 9.17e-12 63.2
MsaG043962 AT5G43990.17 47.541 61 31 1 27 86 506 566 9.17e-12 63.2
MsaG043962 AT5G43990.14 47.541 61 31 1 27 86 506 566 9.17e-12 63.2
MsaG043962 AT5G43990.8 47.541 61 31 1 27 86 457 517 1.06e-11 62.8
MsaG043962 AT5G43990.12 47.541 61 31 1 27 86 457 517 1.06e-11 62.8
MsaG043962 AT5G43990.6 47.541 61 31 1 27 86 457 517 1.06e-11 62.8
MsaG043962 AT5G43990.13 47.541 61 31 1 27 86 457 517 1.06e-11 62.8
MsaG043962 AT5G43990.7 47.541 61 31 1 27 86 437 497 1.14e-11 62.8
MsaG043962 AT3G04380.1 29.545 132 76 4 24 152 275 392 1.74e-11 62.4
MsaG043962 AT3G04380.6 29.545 132 76 4 24 152 248 365 1.78e-11 62.0
MsaG043962 AT3G04380.2 29.545 132 76 4 24 152 248 365 1.81e-11 62.0
MsaG043962 AT3G04380.3 29.545 132 76 4 24 152 259 376 1.86e-11 62.0
MsaG043962 AT3G04380.4 29.545 132 76 4 24 152 275 392 1.88e-11 62.0
MsaG043962 AT3G04380.5 29.545 132 76 4 24 152 232 349 1.97e-11 62.0

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCGTTAATATATCCAAAA+AGG 0.268007 8:-53863017 MsaT043962.1:CDS
AAGCAAACCACGAAGATTAT+AGG 0.299784 8:+53863272 None:intergenic
AGCAACACGATTCCGACAAT+TGG 0.337163 8:+53863197 None:intergenic
ATACATTTGGACTCGAACTA+TGG 0.339033 8:+53862857 None:intergenic
TTGGGAGGACAAGAGCAAAA+AGG 0.339571 8:+53863216 None:intergenic
CACAAACTGGTTGGGGAGTT+AGG 0.342051 8:-53863134 MsaT043962.1:CDS
ACCTGATATAGATTATTCTA+TGG 0.365689 8:-53862917 MsaT043962.1:CDS
TCCTGTATACTCGCAGATAA+AGG 0.370071 8:+53863086 None:intergenic
AGCATAGGTTGGAAGTGTTT+AGG 0.373570 8:-53863161 MsaT043962.1:CDS
TCCATAGAATAATCTATATC+AGG 0.373576 8:+53862916 None:intergenic
TATAGATAGATGGGCAGAAT+GGG 0.382516 8:-53862992 MsaT043962.1:CDS
TAATCTATATCAGGTATTAA+TGG 0.385147 8:+53862925 None:intergenic
TAGGTCTGCACAAACTGGTT+GGG 0.389899 8:-53863142 MsaT043962.1:CDS
TCGGAATCGTGTTGCTCAAA+AGG 0.400305 8:-53863190 MsaT043962.1:CDS
ACAAGCTGAACAAATACATT+TGG 0.402149 8:+53862844 None:intergenic
TAAAGGCTCCAGCTTGAATA+AGG 0.402182 8:+53863103 None:intergenic
GCTCTTGTCCTCCCAATTGT+CGG 0.405346 8:-53863209 MsaT043962.1:CDS
GCCTTTATCTGCGAGTATAC+AGG 0.424211 8:-53863087 MsaT043962.1:CDS
CGGAATCGTGTTGCTCAAAA+GGG 0.435395 8:-53863189 MsaT043962.1:CDS
GTGTTTAGGTCTGCACAAAC+TGG 0.452666 8:-53863147 MsaT043962.1:CDS
TCCTTGGACCTTATTCAAGC+TGG 0.472407 8:-53863111 MsaT043962.1:CDS
GCAACACGATTCCGACAATT+GGG 0.484911 8:+53863198 None:intergenic
TCAGGTATTAATGGATATGA+TGG 0.489556 8:+53862934 None:intergenic
CTTCGTGGTTTGCTTGTGAA+AGG 0.491138 8:-53863264 MsaT043962.1:CDS
AGGTCTGCACAAACTGGTTG+GGG 0.507788 8:-53863141 MsaT043962.1:CDS
TAGATAGATGGGCAGAATGG+GGG 0.511424 8:-53862990 MsaT043962.1:CDS
ACATCAGATTGTTATGATCA+TGG 0.511816 8:+53862818 None:intergenic
TCGCTTTGCTCCGTGAAGAA+TGG 0.517794 8:-53863305 MsaT043962.1:CDS
TTATAGATAGATGGGCAGAA+TGG 0.518603 8:-53862993 MsaT043962.1:CDS
AAACTCTCCTCCATTCTTCA+CGG 0.527190 8:+53863295 None:intergenic
AGATAGATGGGCAGAATGGG+GGG 0.535500 8:-53862989 MsaT043962.1:CDS
AGAGTTTCCTATAATCTTCG+TGG 0.545539 8:-53863279 MsaT043962.1:CDS
TTAGGTCTGCACAAACTGGT+TGG 0.564740 8:-53863143 MsaT043962.1:CDS
GATTGCATATAGCATGAGAC+GGG 0.571191 8:+53862792 None:intergenic
ATAGATAGATGGGCAGAATG+GGG 0.576328 8:-53862991 MsaT043962.1:CDS
TGGTTGGGGAGTTAGGTCCT+TGG 0.600362 8:-53863127 MsaT043962.1:CDS
AGATTGCATATAGCATGAGA+CGG 0.601041 8:+53862791 None:intergenic
CTTTGCTCCGTGAAGAATGG+AGG 0.612917 8:-53863302 MsaT043962.1:CDS
TCCAGCTTGAATAAGGTCCA+AGG 0.620502 8:+53863110 None:intergenic
GGAATCGTGTTGCTCAAAAG+GGG 0.649701 8:-53863188 MsaT043962.1:CDS
ACACGATTCCGACAATTGGG+AGG 0.682616 8:+53863201 None:intergenic
GAATCGTGTTGCTCAAAAGG+GGG 0.690127 8:-53863187 MsaT043962.1:CDS
TTGCATATAGCATGAGACGG+GGG 0.727974 8:+53862794 None:intergenic
ATTGCATATAGCATGAGACG+GGG 0.739611 8:+53862793 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 53862789 53863331 53862789 ID=MsaG043962
Chr8 mRNA 53862789 53863331 53862789 ID=MsaT043962.1;Parent=MsaG043962
Chr8 exon 53862789 53863331 53862789 ID=MsaT043962.1.exon1;Parent=MsaT043962.1
Chr8 CDS 53862789 53863331 53862789 ID=cds.MsaT043962.1;Parent=MsaT043962.1
Gene Sequence

>MsaT043962.1

ATGGTCGCTTTGCTCCGTGAAGAATGGAGGAGAGTTTCCTATAATCTTCGTGGTTTGCTTGTGAAAGGTAAGCCTTTGATTTTTGAATGTGGCCCTTTTTGCTCTTGTCCTCCCAATTGTCGGAATCGTGTTGCTCAAAAGGGGGTCAAGCATAGGTTGGAAGTGTTTAGGTCTGCACAAACTGGTTGGGGAGTTAGGTCCTTGGACCTTATTCAAGCTGGAGCCTTTATCTGCGAGTATACAGGAGTAATTTTAACAAGGGAACAAGCTCAAATTTTAACAATGAATGGCGACTCGTTAATATATCCAAAAAGGTTTATAGATAGATGGGCAGAATGGGGGGATTTGTCTCAGATATACAATAATTATGTTCGTCCATCATATCCATTAATACCTGATATAGATTATTCTATGGATATATCAACACTGCGAAATGTTGCTAGCTATTTGAGCCATAGTTCGAGTCCAAATGTATTTGTTCAGCTTGTTCTCCATGATCATAACAATCTGATGTTCCCCCGTCTCATGCTATATGCAATCTAG
Protein sequence

>MsaT043962.1

MVALLREEWRRVSYNLRGLLVKGKPLIFECGPFCSCPPNCRNRVAQKGVKHRLEVFRSAQTGWGVRSLDLIQAGAFICEYTGVILTREQAQILTMNGDSLIYPKRFIDRWAEWGDLSQIYNNYVRPSYPLIPDIDYSMDISTLRNVASYLSHSSSPNVFVQLVLHDHNNLMFPRLMLYAI*