AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015048

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015048 MtrunA17_Chr3g0113651 93.617 517 33 0 1 517 1 517 0.0 1015
MsaG015048 MtrunA17_Chr5g0437251 61.250 400 90 9 1 336 16 414 2.08e-158 466
MsaG015048 MtrunA17_Chr5g0437251 51.452 241 89 9 298 515 439 674 3.53e-51 185
MsaG015048 MtrunA17_Chr1g0187591 42.832 565 200 18 2 463 25 569 6.10e-126 382
MsaG015048 MtrunA17_Chr5g0430211 44.749 438 158 9 8 369 33 462 7.81e-119 365
MsaG015048 MtrunA17_Chr5g0430211 33.796 216 118 9 322 515 483 695 6.18e-16 80.9
MsaG015048 MtrunA17_Chr7g0257831 35.205 659 234 17 8 492 45 684 1.02e-109 342
MsaG015048 MtrunA17_Chr3g0088521 33.731 670 237 23 8 492 43 690 1.59e-93 300
MsaG015048 MtrunA17_Chr3g0105131 38.996 518 186 16 26 464 33 499 2.57e-92 291
MsaG015048 MtrunA17_Chr3g0105101 42.118 406 147 10 13 362 28 401 3.65e-92 286
MsaG015048 MtrunA17_Chr3g0092171 41.739 345 143 9 8 296 81 423 9.19e-77 250
MsaG015048 MtrunA17_Chr1g0171151 41.265 332 135 7 9 280 30 361 1.17e-74 247
MsaG015048 MtrunA17_Chr3g0092221 47.393 211 83 3 103 289 74 280 2.26e-61 206
MsaG015048 MtrunA17_Chr3g0105141 66.412 131 41 2 140 269 15 143 3.28e-57 188
MsaG015048 MtrunA17_Chr3g0105121 36.290 372 164 15 162 483 8 356 3.09e-50 176
MsaG015048 MtrunA17_Chr3g0135351 53.896 154 57 3 153 305 43 183 6.47e-48 167
MsaG015048 MtrunA17_Chr8g0389561 58.197 122 51 0 159 280 77 198 1.78e-47 169
MsaG015048 MtrunA17_Chr6g0487481 62.037 108 41 0 158 265 98 205 1.09e-46 167
MsaG015048 MtrunA17_Chr2g0324781 57.658 111 47 0 163 273 77 187 4.89e-42 155
MsaG015048 MtrunA17_Chr4g0040391 57.944 107 45 0 159 265 56 162 7.71e-42 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015048 AT2G40140.2 48.348 575 224 16 2 515 25 587 5.98e-157 460
MsaG015048 AT2G40140.1 48.348 575 224 16 2 515 25 587 5.98e-157 460
MsaG015048 AT3G55980.1 48.601 572 198 22 10 515 30 571 1.28e-156 459
MsaG015048 AT3G55980.2 48.601 572 198 22 10 515 97 638 2.47e-155 457
MsaG015048 AT5G58620.1 44.082 583 211 16 8 485 12 584 8.66e-142 422
MsaG015048 AT2G41900.1 43.052 439 152 12 8 352 46 480 6.41e-104 327
MsaG015048 AT5G12850.1 45.574 305 121 10 139 409 235 528 7.12e-74 248
MsaG015048 AT5G12850.1 42.982 114 64 1 8 121 40 152 2.31e-24 107
MsaG015048 AT4G29190.1 52.229 157 64 2 148 293 64 220 2.27e-48 171
MsaG015048 AT2G19810.1 60.000 120 48 0 148 267 63 182 2.52e-48 171
MsaG015048 AT2G25900.2 54.745 137 57 1 159 295 86 217 4.33e-48 169
MsaG015048 AT2G25900.1 54.745 137 57 1 159 295 86 217 4.33e-48 169
MsaG015048 AT5G07500.1 55.285 123 55 0 143 265 32 154 2.14e-47 165
MsaG015048 AT1G03790.1 51.748 143 59 3 139 277 64 200 1.46e-41 154
MsaG015048 AT5G44260.1 51.538 130 56 2 139 267 42 165 3.96e-39 147

Find 107 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGAACATGGTTCCTGTTT+TGG 0.154085 3:-82069595 None:intergenic
GACACGAAGCCAAAGCTTTA+TGG 0.159998 3:+82069736 MsaT015048.1:CDS
TCTGAGAATTCTGAGATATT+TGG 0.200828 3:+82069983 MsaT015048.1:CDS
GAGTTTAACAATCTCAAATT+TGG 0.214609 3:-82068826 None:intergenic
CTTATGATTGCTTCTTTGTT+TGG 0.252453 3:+82068690 MsaT015048.1:CDS
GAAGTTGAGAAGAAAGATTC+AGG 0.258178 3:+82068930 MsaT015048.1:CDS
CTTCTTTGTTTGGAAGCATT+AGG 0.280824 3:+82068700 MsaT015048.1:CDS
CAGATTGGGTTTCAAATGAT+TGG 0.282097 3:+82069825 MsaT015048.1:CDS
CAGCTATAAGGATACTTCTT+TGG 0.295350 3:-82069116 None:intergenic
CACATGTAATTTCCATTCTT+AGG 0.300468 3:-82069419 None:intergenic
ATTCAAGTAAAGTTGAGTTT+TGG 0.301880 3:-82068536 None:intergenic
TTCTTTGTTTGGAAGCATTA+GGG 0.311661 3:+82068701 MsaT015048.1:CDS
AAAACACCATTGTTTATATC+AGG 0.317396 3:-82068975 None:intergenic
CTCATAGATTGGAATTGATT+AGG 0.322495 3:-82069557 None:intergenic
GGTGTAGAAACATTTGAAAT+TGG 0.340801 3:-82069365 None:intergenic
ACTCACATGCATCTTTCTTC+TGG 0.348032 3:-82069172 None:intergenic
GCATTACATTGTGCTGTTGC+TGG 0.358959 3:+82068792 MsaT015048.1:CDS
TCGATTCGGAAGCACCGATA+TGG 0.364885 3:-82069778 None:intergenic
ATTTGAGATTGTTAAACTCT+TGG 0.381581 3:+82068830 MsaT015048.1:CDS
AGGCCTTTGTATGCTTCTAC+TGG 0.382036 3:+82069314 MsaT015048.1:CDS
GAACTCTGGTCTGTCAGATT+GGG 0.382476 3:+82069811 MsaT015048.1:CDS
ATGAGAAAATCATCAGCATA+TGG 0.391943 3:+82069653 MsaT015048.1:CDS
ATATCAATGAGGCAGGGTTT+TGG 0.392554 3:+82068616 MsaT015048.1:CDS
GCATGTCCCTTTGCGAAACT+CGG 0.397119 3:-82069150 None:intergenic
GCATTGAAATACCATGTAAC+AGG 0.408752 3:-82069523 None:intergenic
CCATTCTTAGGAGATGAATC+AGG 0.409264 3:-82069407 None:intergenic
GTTAAACTCTTGGTTGATGC+TGG 0.410340 3:+82068840 MsaT015048.1:CDS
GCATGTTGAGGCCGTGCAAC+GGG 0.411246 3:-82069914 None:intergenic
CAAACAAAGAAGCAATCATA+AGG 0.422681 3:-82068689 None:intergenic
CAAAAGGGAAGTAGAAGAAA+AGG 0.424560 3:+82068587 MsaT015048.1:CDS
ATGATATTGAAGCTTTCAAA+AGG 0.428092 3:+82068571 MsaT015048.1:CDS
TGAACTCTGGTCTGTCAGAT+TGG 0.432028 3:+82069810 MsaT015048.1:CDS
TGGAATTGATTAGGAGTTGA+AGG 0.434731 3:-82069548 None:intergenic
GCTGAAACCTACTCATAGAT+TGG 0.445115 3:-82069568 None:intergenic
AAACAAAGAAGCAATCATAA+GGG 0.448581 3:-82068688 None:intergenic
GGGCACGGAACACAGCTATA+AGG 0.448836 3:-82069128 None:intergenic
ACGGCCTCAACATGCTGAAC+CGG 0.452409 3:+82069922 MsaT015048.1:CDS
CACCGCGATCCATAAAGCTT+TGG 0.452463 3:-82069745 None:intergenic
TTCTCCCCTGGATGAACAAA+TGG 0.453606 3:-82069077 None:intergenic
CTGCAGCAGTGATGAATTCA+AGG 0.455073 3:+82069699 MsaT015048.1:CDS
CATGTCCCTTTGCGAAACTC+GGG 0.458325 3:-82069149 None:intergenic
AATCTCATCTTTACAAAGCC+TGG 0.458636 3:-82069243 None:intergenic
GGCTATGATATCAATGAGGC+AGG 0.459884 3:+82068609 MsaT015048.1:CDS
GGTTTCAGCAGAACCAAAAC+AGG 0.464964 3:+82069582 MsaT015048.1:CDS
GGCTTTGTAAAGATGAGATT+AGG 0.465521 3:+82069246 MsaT015048.1:CDS
CCTGATTCATCTCCTAAGAA+TGG 0.468944 3:+82069407 MsaT015048.1:CDS
GTTTGATTCATCAGCTGCTA+TGG 0.471231 3:+82069676 MsaT015048.1:CDS
GAGTGTCCATTTGTTCATCC+AGG 0.473709 3:+82069071 MsaT015048.1:CDS
AGATTGGGTTTCAAATGATT+GGG 0.479244 3:+82069826 MsaT015048.1:CDS
GTTCATCCTACTGTTCGATT+CGG 0.479491 3:-82069792 None:intergenic
TTCATCCAGGGGAGAATGCT+AGG 0.479775 3:+82069084 MsaT015048.1:CDS
GATGAAACAATGCTGTTGAA+TGG 0.488330 3:-82069626 None:intergenic
AAGGGATTTGTATCAAGAAA+TGG 0.494896 3:+82069499 MsaT015048.1:CDS
CAAGGGGTTACACTCATGAT+TGG 0.497804 3:+82069045 MsaT015048.1:CDS
AGCATGTTGAGGCCGTGCAA+CGG 0.498076 3:-82069915 None:intergenic
GAATGAACCCACGAGACATC+CGG 0.501123 3:-82069941 None:intergenic
TGATATTGAAGCTTTCAAAA+GGG 0.524486 3:+82068572 MsaT015048.1:CDS
CAAGAAATGGACCTGTTACA+TGG 0.528005 3:+82069512 MsaT015048.1:CDS
TACACCACCTATGTCTCCAT+TGG 0.528386 3:+82069382 MsaT015048.1:CDS
AAAAGGGAAGTAGAAGAAAA+GGG 0.532219 3:+82068588 MsaT015048.1:CDS
CTTCTCCTAGCATTCTCCCC+TGG 0.532406 3:-82069089 None:intergenic
ATTGGTAAAGATTCTTGTGA+AGG 0.532807 3:-82069347 None:intergenic
CTGCTGCTTCGCCCGTTGCA+CGG 0.534070 3:+82069903 MsaT015048.1:CDS
GTTAATGTGAACATGGCAAT+TGG 0.535532 3:+82068753 MsaT015048.1:CDS
TGAGAAAATCATCAGCATAT+GGG 0.536370 3:+82069654 MsaT015048.1:CDS
GGTTCATTCGCTTGTTCAAG+AGG 0.536739 3:+82069955 MsaT015048.1:CDS
CCGTGCCCCGAGTTTCGCAA+AGG 0.542263 3:+82069143 MsaT015048.1:CDS
CGTGCCCCGAGTTTCGCAAA+GGG 0.545575 3:+82069144 MsaT015048.1:CDS
TCAGGTACCAATGGAGACAT+AGG 0.550055 3:-82069389 None:intergenic
CAAAGTGAAGACTTGCTCAA+GGG 0.550348 3:+82069028 MsaT015048.1:CDS
AGTGTCCATTTGTTCATCCA+GGG 0.552058 3:+82069072 MsaT015048.1:CDS
TGCTGAACCGGATGTCTCGT+GGG 0.564361 3:+82069934 MsaT015048.1:CDS
ATGCTGAACCGGATGTCTCG+TGG 0.566787 3:+82069933 MsaT015048.1:CDS
TCAAAGTGAAGACTTGCTCA+AGG 0.569283 3:+82069027 MsaT015048.1:CDS
GGAGATGAATCAGGTACCAA+TGG 0.570813 3:-82069398 None:intergenic
ATCAATTCCAATCTATGAGT+AGG 0.579232 3:+82069561 MsaT015048.1:CDS
GCTACAATCTGCTCTGCCCA+TGG 0.583391 3:-82070049 None:intergenic
AGCCTGGTTCTGTATTGTGC+AGG 0.587665 3:-82069227 None:intergenic
CCTTTGCGAAACTCGGGGCA+CGG 0.588011 3:-82069143 None:intergenic
TTACATTGTGCTGTTGCTGG+TGG 0.591769 3:+82068795 MsaT015048.1:CDS
ATCCTGCACAATACAGAACC+AGG 0.592720 3:+82069225 MsaT015048.1:CDS
AAAGTGAAGACTTGCTCAAG+GGG 0.602277 3:+82069029 MsaT015048.1:CDS
CTGAGATATTTGGTGCTGAG+AGG 0.605138 3:+82069993 MsaT015048.1:CDS
AAACATGGTTAATGTGAACA+TGG 0.608674 3:+82068746 MsaT015048.1:CDS
ATGGATAACTTGCTTGAACA+TGG 0.610654 3:-82069607 None:intergenic
GTGCTTCCGAATCGAACAGT+AGG 0.611938 3:+82069786 MsaT015048.1:CDS
CTAAGAATGGAAATTACATG+TGG 0.612183 3:+82069420 MsaT015048.1:CDS
TTTGTTTGGAAGCATTAGGG+TGG 0.614081 3:+82068704 MsaT015048.1:CDS
CACACAAACATGAAGAGTTG+AGG 0.614467 3:+82069294 MsaT015048.1:CDS
TAAACAGAAGTTATCACCAT+GGG 0.614531 3:+82070033 MsaT015048.1:CDS
ATGTCCCTTTGCGAAACTCG+GGG 0.621584 3:-82069148 None:intergenic
TCATTGCCTGATATAAACAA+TGG 0.636775 3:+82068969 MsaT015048.1:CDS
AACAAAGAAGCAATCATAAG+GGG 0.639045 3:-82068687 None:intergenic
TCGAACAGTAGGATGAACTC+TGG 0.639055 3:+82069797 MsaT015048.1:CDS
GTGTCCATTTGTTCATCCAG+GGG 0.641621 3:+82069073 MsaT015048.1:CDS
GGTGTGTCAAGACACCATAT+CGG 0.652931 3:+82069764 MsaT015048.1:CDS
AGCCAAAGCTTTATGGATCG+CGG 0.654674 3:+82069743 MsaT015048.1:CDS
GCTTTGGCTTCGTGTCACAA+AGG 0.657576 3:-82069729 None:intergenic
ATATATCATTGAAACAAACA+TGG 0.659164 3:+82068731 MsaT015048.1:CDS
GCTATGATATCAATGAGGCA+GGG 0.681589 3:+82068610 MsaT015048.1:CDS
ATAAACAGAAGTTATCACCA+TGG 0.684013 3:+82070032 MsaT015048.1:CDS
ACATCCGGTTCAGCATGTTG+AGG 0.690924 3:-82069926 None:intergenic
GGTACCAATGGAGACATAGG+TGG 0.695473 3:-82069386 None:intergenic
AAAGGGCTATGATATCAATG+AGG 0.712259 3:+82068605 MsaT015048.1:CDS
GAACCAGTAGAAGCATACAA+AGG 0.717416 3:-82069317 None:intergenic
AAATATCTCAGAATTCTCAG+AGG 0.724613 3:-82069981 None:intergenic
GATGCATGTGAGTATTCACA+TGG 0.742964 3:+82069182 MsaT015048.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 82068522 82070075 82068522 ID=MsaG015048
Chr3 mRNA 82068522 82070075 82068522 ID=MsaT015048.1;Parent=MsaG015048
Chr3 exon 82068522 82070075 82068522 ID=MsaT015048.1.exon1;Parent=MsaT015048.1
Chr3 CDS 82068522 82070075 82068522 ID=cds.MsaT015048.1;Parent=MsaT015048.1
Gene Sequence

>MsaT015048.1

ATGGAAAACAAGTTCCAAAACTCAACTTTACTTGAATTATCAGCAATAGATGATATTGAAGCTTTCAAAAGGGAAGTAGAAGAAAAGGGCTATGATATCAATGAGGCAGGGTTTTGGTATTGTAGAAAAATAGGATCAAAGAAGATGTGTTATGAAAAGAGAACACCCCTTATGATTGCTTCTTTGTTTGGAAGCATTAGGGTGGTGAAATATATCATTGAAACAAACATGGTTAATGTGAACATGGCAATTGGTAGTGAAAATGTCACTGCATTACATTGTGCTGTTGCTGGTGGTTCTAAATCCAAATTTGAGATTGTTAAACTCTTGGTTGATGCTGGAGCAGATGTTGATACCCTTGACGAAAAAATTAAGCAGAATTTTCTAGTGCCTAAATCAAAAGAATTAGAAGTTGAGAAGAAAGATTCAGGATATGCTATTGATATATCATTGCCTGATATAAACAATGGTGTTTTTGTAACAGATGAATTTAGAATGTTTAGTTTCAAAGTGAAGACTTGCTCAAGGGGTTACACTCATGATTGGACTGAGTGTCCATTTGTTCATCCAGGGGAGAATGCTAGGAGAAGAGATCCAAAGAAGTATCCTTATAGCTGTGTTCCGTGCCCCGAGTTTCGCAAAGGGACATGCCAGAAGAAAGATGCATGTGAGTATTCACATGGTGTTTTTGAGTCTTTGCTTCATCCTGCACAATACAGAACCAGGCTTTGTAAAGATGAGATTAGGTGTACTAGAAAAGTGTGTTTCTTTGCACACAAACATGAAGAGTTGAGGCCTTTGTATGCTTCTACTGGTTCAGCTATGCCTTCACAAGAATCTTTACCAATTTCAAATGTTTCTACACCACCTATGTCTCCATTGGTACCTGATTCATCTCCTAAGAATGGAAATTACATGTGGAAGAATAAAATCAATCTCACTCCACCTTCATTGCAGCTGAAAAATTCTTTGAGTGCAAGGGATTTGTATCAAGAAATGGACCTGTTACATGGTATTTCAATGCAACCTTCAACTCCTAATCAATTCCAATCTATGAGTAGGTTTCAGCAGAACCAAAACAGGAACCATGTTCAAGCAAGTTATCCATTCAACAGCATTGTTTCATCTCCTATGAGAAAATCATCAGCATATGGGTTTGATTCATCAGCTGCTATGGCTGCAGCAGTGATGAATTCAAGGTCTTCAGCCTTTGTGACACGAAGCCAAAGCTTTATGGATCGCGGTGTGTCAAGACACCATATCGGTGCTTCCGAATCGAACAGTAGGATGAACTCTGGTCTGTCAGATTGGGTTTCAAATGATTGGGATGAGCTGCATAAGTTGAAAAAATCTGCTTCTTTTGGATTTAGAAATAATATGGCTGCTGCTTCGCCCGTTGCACGGCCTCAACATGCTGAACCGGATGTCTCGTGGGTTCATTCGCTTGTTCAAGAGGTTTCCTCTGAGAATTCTGAGATATTTGGTGCTGAGAGGCTACATTATGATCTCTATAAACAGAAGTTATCACCATGGGCAGAGCAGATTGTAGCATAA
Protein sequence

>MsaT015048.1

MENKFQNSTLLELSAIDDIEAFKREVEEKGYDINEAGFWYCRKIGSKKMCYEKRTPLMIASLFGSIRVVKYIIETNMVNVNMAIGSENVTALHCAVAGGSKSKFEIVKLLVDAGADVDTLDEKIKQNFLVPKSKELEVEKKDSGYAIDISLPDINNGVFVTDEFRMFSFKVKTCSRGYTHDWTECPFVHPGENARRRDPKKYPYSCVPCPEFRKGTCQKKDACEYSHGVFESLLHPAQYRTRLCKDEIRCTRKVCFFAHKHEELRPLYASTGSAMPSQESLPISNVSTPPMSPLVPDSSPKNGNYMWKNKINLTPPSLQLKNSLSARDLYQEMDLLHGISMQPSTPNQFQSMSRFQQNQNRNHVQASYPFNSIVSSPMRKSSAYGFDSSAAMAAAVMNSRSSAFVTRSQSFMDRGVSRHHIGASESNSRMNSGLSDWVSNDWDELHKLKKSASFGFRNNMAAASPVARPQHAEPDVSWVHSLVQEVSSENSEIFGAERLHYDLYKQKLSPWAEQIVA*