AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001738

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001738 MtrunA17_Chr4g0067431 65.031 326 107 3 1 323 1 322 2.56e-151 427
MsaG001738 MtrunA17_Chr1g0163221 58.642 324 110 7 1 323 1 301 1.47e-111 328
MsaG001738 MtrunA17_Chr6g0467351 64.407 236 71 3 1 233 1 226 1.33e-98 290
MsaG001738 MtrunA17_Chr1g0163061 56.981 265 69 2 1 220 1 265 2.51e-77 237
MsaG001738 MtrunA17_Chr1g0163071 29.412 306 192 8 28 321 2 295 1.97e-33 125
MsaG001738 MtrunA17_Chr3g0131891 32.051 312 177 12 10 312 17 302 1.00e-31 121
MsaG001738 MtrunA17_Chr1g0163131 30.159 315 190 15 8 311 14 309 1.77e-30 117
MsaG001738 MtrunA17_Chr3g0103181 28.990 307 177 10 10 312 10 279 4.47e-29 112
MsaG001738 MtrunA17_Chr1g0163251 28.525 305 178 10 12 311 9 278 6.29e-28 112
MsaG001738 MtrunA17_Chr1g0208771 27.243 301 191 10 27 317 12 294 1.60e-27 111
MsaG001738 MtrunA17_Chr8g0390841 27.187 320 208 10 10 321 37 339 2.48e-27 111
MsaG001738 MtrunA17_Chr1g0163181 29.932 294 187 11 21 311 14 291 2.93e-26 107
MsaG001738 MtrunA17_Chr3g0103151 38.562 153 85 5 10 158 10 157 1.12e-25 100
MsaG001738 MtrunA17_Chr1g0163261 28.197 305 190 9 8 311 5 281 1.44e-25 103
MsaG001738 MtrunA17_Chr7g0233561 27.393 303 186 8 10 298 16 298 4.35e-25 103
MsaG001738 MtrunA17_Chr6g0467361 52.326 86 41 0 233 318 7 92 5.53e-25 96.7
MsaG001738 MtrunA17_Chr7g0233571 44.860 107 58 1 10 116 8 113 3.73e-24 98.2
MsaG001738 MtrunA17_Chr7g0233541 26.263 297 188 9 28 312 2 279 2.07e-23 97.8
MsaG001738 MtrunA17_Chr1g0163201 27.451 306 177 9 27 319 18 291 2.66e-23 99.4
MsaG001738 MtrunA17_Chr7g0233521 29.470 302 155 12 28 312 2 262 2.84e-23 97.1
MsaG001738 MtrunA17_Chr1g0163231 27.044 318 184 10 1 311 1 277 6.43e-23 96.7
MsaG001738 MtrunA17_Chr1g0163101 34.118 170 89 6 9 168 14 170 5.49e-22 91.3
MsaG001738 MtrunA17_Chr4g0033961 25.320 391 203 11 12 317 6 392 1.51e-21 94.4
MsaG001738 MtrunA17_Chr3g0103171 27.740 292 174 9 27 312 5 265 1.60e-21 92.0
MsaG001738 MtrunA17_Chr1g0171611 26.667 315 177 9 1 311 1 265 1.85e-21 92.4
MsaG001738 MtrunA17_Chr5g0419201 32.979 188 105 6 1 174 1 181 1.04e-20 88.2
MsaG001738 MtrunA17_Chr7g0233531 25.914 301 167 9 28 312 2 262 6.89e-20 87.8
MsaG001738 MtrunA17_Chr1g0154161 26.910 301 175 10 10 298 28 295 9.17e-20 88.2
MsaG001738 MtrunA17_Chr3g0103191 26.872 227 138 5 10 235 10 209 3.36e-19 85.5
MsaG001738 MtrunA17_Chr6g0476181 33.951 162 87 6 28 182 2 150 2.44e-18 80.9
MsaG001738 MtrunA17_Chr1g0162161 37.500 144 77 7 28 166 4 139 3.68e-18 80.5
MsaG001738 MtrunA17_Chr1g0163191 38.168 131 66 5 1 127 2 121 1.03e-17 79.0
MsaG001738 MtrunA17_Chr1g0163081 36.364 121 66 4 28 141 6 122 1.39e-17 78.2
MsaG001738 MtrunA17_Chr1g0163121 34.109 129 74 5 26 147 9 133 1.16e-16 75.9
MsaG001738 MtrunA17_Chr3g0077411 24.383 324 179 11 1 314 251 518 4.00e-16 79.0
MsaG001738 MtrunA17_Chr3g0077411 31.034 145 94 3 11 153 24 164 1.28e-12 68.2
MsaG001738 MtrunA17_Chr1g0154191 24.390 328 204 10 10 298 20 342 5.94e-16 77.8
MsaG001738 MtrunA17_Chr5g0429931 25.773 291 152 10 27 312 10 241 2.82e-15 74.3
MsaG001738 MtrunA17_Chr1g0163241 34.722 144 75 6 15 146 14 150 1.86e-14 70.1
MsaG001738 MtrunA17_Chr1g0163141 30.814 172 101 6 26 183 9 176 3.65e-14 70.1
MsaG001738 MtrunA17_Chr3g0077461 31.646 158 99 3 11 160 236 392 3.80e-14 72.8
MsaG001738 MtrunA17_Chr1g0154151 25.510 294 184 10 28 298 20 301 4.51e-14 72.0
MsaG001738 MtrunA17_Chr1g0154131 26.471 306 168 12 23 305 193 464 4.57e-14 72.8
MsaG001738 MtrunA17_Chr1g0154171 25.000 340 209 12 13 319 23 349 6.61e-13 68.6
MsaG001738 MtrunA17_Chr3g0077451 22.759 290 155 8 26 312 10 233 7.21e-13 67.4
MsaG001738 MtrunA17_Chr1g0162441 32.353 102 68 1 12 113 7 107 5.75e-11 63.2
MsaG001738 MtrunA17_Chr1g0154071 24.217 351 216 14 10 321 155 494 8.82e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001738 AT3G18990.1 25.872 344 202 13 12 314 6 337 2.89e-23 98.6
MsaG001738 AT3G18990.2 25.872 344 202 13 12 314 6 337 4.20e-23 98.6
MsaG001738 AT1G49475.1 37.903 124 74 3 5 127 26 147 7.29e-16 75.1
MsaG001738 AT3G18960.2 32.143 112 74 2 2 112 19 129 2.26e-15 73.9
MsaG001738 AT3G18960.1 32.143 112 74 2 2 112 19 129 2.34e-15 74.3
MsaG001738 AT4G01580.1 31.250 112 75 2 2 112 19 129 6.37e-15 72.4
MsaG001738 AT4G33280.1 26.426 333 186 13 10 316 23 322 5.04e-13 69.3

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTAAACAATTCAGAATAAA+TGG 0.142583 1:-25628606 MsaT001738.1:CDS
TTGATGACAAAGATAGAAAA+TGG 0.181722 1:-25628653 MsaT001738.1:CDS
CATGCGAAGCAATCTTTATC+AGG 0.243715 1:+25629809 None:intergenic
GCTGACCATAATGTTAAATT+TGG 0.262407 1:-25628564 MsaT001738.1:CDS
TTACTGAAAAGAAAGTTTAT+TGG 0.274412 1:-25630394 MsaT001738.1:CDS
TGCCTCGTAGCAAAATTATT+TGG 0.278239 1:+25628711 None:intergenic
TCTGAGTGATTCACAACTTT+TGG 0.293072 1:-25630306 MsaT001738.1:CDS
GAAGACGGTGATGAAGATTT+TGG 0.298750 1:+25630116 None:intergenic
TACTGAAAAGAAAGTTTATT+GGG 0.299312 1:-25630393 MsaT001738.1:CDS
TTATCTCTAATCCACATTTA+CGG 0.314447 1:+25630240 None:intergenic
TTAGGAAGTCGTAGAGTAAC+TGG 0.331524 1:+25630419 None:intergenic
CATCACCAAATTTAACATTA+TGG 0.341952 1:+25628559 None:intergenic
AAACTAGTGATTATGATGTT+TGG 0.387209 1:-25630367 MsaT001738.1:CDS
TACCCTTCAAGAAGGAAAAC+TGG 0.397147 1:-25630688 MsaT001738.1:intron
TGTCTTCTCACAAAACTTGC+GGG 0.410110 1:+25630461 None:intergenic
CTAAACAATTCAGAATAAAT+GGG 0.412198 1:-25628605 MsaT001738.1:CDS
TTTATTCTGAATTGTTTAGT+TGG 0.418278 1:+25628609 None:intergenic
TCTTCACTAATTTCTCTTGA+AGG 0.423792 1:+25630212 None:intergenic
TGATGACAAAGATAGAAAAT+GGG 0.439585 1:-25628652 MsaT001738.1:CDS
ATACATGGAAAATGATCTCT+TGG 0.468132 1:-25629771 MsaT001738.1:intron
TATGAAATGTTGCATGTGCT+TGG 0.471551 1:+25630024 None:intergenic
CTTCACTAATTTCTCTTGAA+GGG 0.483268 1:+25630213 None:intergenic
TATGATGCAAAAGGCATACA+TGG 0.492834 1:-25629786 MsaT001738.1:CDS
CTTCGCATGTATGATGCAAA+AGG 0.497440 1:-25629795 MsaT001738.1:CDS
CTTGAAAGTACCCTTCAAGA+AGG 0.526405 1:-25630696 MsaT001738.1:CDS
TCTTCTCATGAACCTGATCA+TGG 0.532265 1:-25630741 MsaT001738.1:CDS
ATGTCTTCTCACAAAACTTG+CGG 0.538262 1:+25630460 None:intergenic
TAGTTCTCTTATAGTTGTTG+AGG 0.538518 1:-25630165 MsaT001738.1:CDS
TTGCTACGAGGCATCTGCAA+AGG 0.565526 1:-25628701 MsaT001738.1:CDS
AGGCATCTGCAAAGGATGGA+AGG 0.586157 1:-25628693 MsaT001738.1:CDS
TAAACAATTCAGAATAAATG+GGG 0.597019 1:-25628604 MsaT001738.1:CDS
ATGCGAAGCAATCTTTATCA+GGG 0.607508 1:+25629810 None:intergenic
TTTGTGAGAAGACATTGGCA+AGG 0.610981 1:-25630452 MsaT001738.1:CDS
TACGAGGCATCTGCAAAGGA+TGG 0.619258 1:-25628697 MsaT001738.1:CDS
TAGGAAGTCGTAGAGTAACT+GGG 0.629187 1:+25630420 None:intergenic
GTGATTGTACTCCGTAAATG+TGG 0.632873 1:-25630251 MsaT001738.1:CDS
GAGGATCCTTCATCTTCGCG+AGG 0.649374 1:-25630146 MsaT001738.1:CDS
AAACAATTCAGAATAAATGG+GGG 0.702685 1:-25628603 MsaT001738.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 25628464 25630766 25628464 ID=MsaG001738
Chr1 mRNA 25628464 25630766 25628464 ID=MsaT001738.1;Parent=MsaG001738
Chr1 exon 25628464 25628739 25628464 ID=MsaT001738.1.exon4;Parent=MsaT001738.1
Chr1 CDS 25628464 25628739 25628464 ID=cds.MsaT001738.1;Parent=MsaT001738.1
Chr1 exon 25629772 25629902 25629772 ID=MsaT001738.1.exon3;Parent=MsaT001738.1
Chr1 CDS 25629772 25629902 25629772 ID=cds.MsaT001738.1;Parent=MsaT001738.1
Chr1 exon 25630003 25630489 25630003 ID=MsaT001738.1.exon2;Parent=MsaT001738.1
Chr1 CDS 25630003 25630489 25630003 ID=cds.MsaT001738.1;Parent=MsaT001738.1
Chr1 exon 25630689 25630766 25630689 ID=MsaT001738.1.exon1;Parent=MsaT001738.1
Chr1 CDS 25630689 25630766 25630689 ID=cds.MsaT001738.1;Parent=MsaT001738.1
Gene Sequence

>MsaT001738.1

ATGTCTTCTCATGAACCTGATCATGGTGTCCACTTTTTCAAGATTATTCTTGAAAGTACCCTTCAAGAAGGAAAACTGAGAGTTCCCGCAAGTTTTGTGAGAAGACATTGGCAAGGAATAACAAACCCAGTTACTCTACGACTTCCTAATATTACTGAAAAGAAAGTTTATTGGGAGAAAACTAGTGATTATGATGTTTGGTTTTGCAATGGTTGGAAAGAATTTGCTAATTATGTGTCTCTGAGTGATTCACAACTTTTGGTATTTAAATTTAATGAAAATTCTCTCTTCAATGTGATTGTACTCCGTAAATGTGGATTAGAGATAAAATACCCTTCAAGAGAAATTAGTGAAGAATCTGAAGAAGTTGAAGAGAGCGATAGTTCTCTTATAGTTGTTGAGGATCCTTCATCTTCGCGAGGCAAAAGACCAAAATCTTCATCACCGTCTTCAAAAGTTTATAAGAAGATGAAAATCAACCTAAAAGAGCATAAAGAATCTAACCTTGAGAAGAGAAAAGTCCAAGCACATGCAACATTTCATAATTTTAAGGATATTCACAAAGGAAGAACTAGTTTCGATGATCTTAAGAAGAGAAGCATAGAGTTTTACGAGAAAGTGGAGCAAAAATTCTACCCTGATAAAGATTGCTTCGCATGTATGATGCAAAAGGCATACATGGAAAATGATCTCTTGGTCATACCAAATAATTTTGCTACGAGGCATCTGCAAAGGATGGAAGGAAGAAGAGTTACGCTTTTTGATGACAAAGATAGAAAATGGGATGTTAATTTGAAACTCACTCCAACTAAACAATTCAGAATAAATGGGGGTTGGAGTAAATTTCGTGCTGACCATAATGTTAAATTTGGTGATGTATGTGTTTTTAGGCTAAACAAATGCAAAGAAAAAGTTTCATTCAAAGTTACTATTTTCTCCATAGAAAAGGACATGATCATTCCCTATTTTTGA
Protein sequence

>MsaT001738.1

MSSHEPDHGVHFFKIILESTLQEGKLRVPASFVRRHWQGITNPVTLRLPNITEKKVYWEKTSDYDVWFCNGWKEFANYVSLSDSQLLVFKFNENSLFNVIVLRKCGLEIKYPSREISEESEEVEESDSSLIVVEDPSSSRGKRPKSSSPSSKVYKKMKINLKEHKESNLEKRKVQAHATFHNFKDIHKGRTSFDDLKKRSIEFYEKVEQKFYPDKDCFACMMQKAYMENDLLVIPNNFATRHLQRMEGRRVTLFDDKDRKWDVNLKLTPTKQFRINGGWSKFRADHNVKFGDVCVFRLNKCKEKVSFKVTIFSIEKDMIIPYF*