AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016344

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016344 MtrunA17_Chr3g0127641 88.727 550 25 7 1 524 1 539 0.0 891
MsaG016344 MtrunA17_Chr1g0152191 50.704 142 42 4 67 182 117 256 5.44e-34 136
MsaG016344 MtrunA17_Chr4g0021261 53.153 111 35 2 92 185 25 135 1.37e-32 127
MsaG016344 MtrunA17_Chr5g0409471 57.000 100 35 2 90 182 14 112 3.26e-30 120
MsaG016344 MtrunA17_Chr8g0343881 49.541 109 37 2 93 183 12 120 1.42e-29 119
MsaG016344 MtrunA17_Chr4g0070591 49.153 118 42 3 92 191 9 126 2.37e-29 119
MsaG016344 MtrunA17_Chr2g0300511 50.000 114 35 3 92 183 7 120 3.21e-29 118
MsaG016344 MtrunA17_Chr7g0265931 44.604 139 50 3 73 189 60 193 9.28e-29 117
MsaG016344 MtrunA17_Chr8g0351521 46.218 119 51 3 91 197 53 170 1.80e-23 103
MsaG016344 MtrunA17_Chr8g0351521 56.667 60 25 1 118 176 281 340 5.96e-14 73.9
MsaG016344 MtrunA17_Chr8g0351291 52.542 59 27 1 119 176 31 89 1.21e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016344 AT4G37740.1 56.140 114 32 3 92 188 164 276 3.25e-33 133
MsaG016344 AT5G53660.1 56.140 114 46 2 90 199 57 170 1.04e-32 129
MsaG016344 AT2G22840.1 54.310 116 35 2 92 190 133 247 2.05e-31 127
MsaG016344 AT3G13960.1 51.327 113 37 2 88 182 12 124 6.53e-30 121
MsaG016344 AT4G24150.3 41.718 163 64 5 66 206 90 243 2.52e-29 120
MsaG016344 AT4G24150.2 41.718 163 64 5 66 206 128 281 4.84e-29 120
MsaG016344 AT2G36400.1 52.137 117 35 1 93 188 77 193 1.97e-28 117
MsaG016344 AT3G52910.1 49.107 112 35 2 93 182 83 194 2.16e-26 111
MsaG016344 AT4G24150.1 36.170 188 64 5 66 206 128 306 1.16e-25 110
MsaG016344 AT2G06200.2 42.759 145 48 5 66 180 23 162 1.25e-25 107
MsaG016344 AT2G06200.1 46.610 118 34 3 92 180 6 123 2.11e-25 105
MsaG016344 AT2G45480.2 44.444 108 42 2 90 179 22 129 6.75e-19 87.8
MsaG016344 AT2G45480.1 44.444 108 42 2 90 179 20 127 3.89e-18 87.4
MsaG016344 AT2G45480.1 50.000 74 32 3 118 191 287 355 1.89e-13 72.8
MsaG016344 AT2G45480.3 44.444 108 42 2 90 179 22 129 4.16e-18 87.0
MsaG016344 AT2G45480.3 50.000 74 32 3 118 191 289 357 1.94e-13 72.8
MsaG016344 AT2G06200.3 72.727 44 10 1 139 180 8 51 6.84e-16 76.3

Find 124 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAACACAAACTAACCTTTA+AGG 0.146408 3:-96988692 None:intergenic
GTGAAAAGGTTGAAAATTTA+AGG 0.152843 3:-96988646 None:intergenic
GCTTCCAACACAACCCTTAA+AGG 0.155280 3:+96988678 MsaT016344.1:CDS
CTTTCACAGTACTTGTTATT+AGG 0.229946 3:-96989328 None:intergenic
TTCCCTTGGTGCTTCTAATT+CGG 0.262187 3:+96990041 MsaT016344.1:CDS
ACAACATACAACATGTCTTT+TGG 0.266442 3:+96988570 MsaT016344.1:CDS
AATCCAACTACAAGAAAATA+TGG 0.279540 3:+96989505 MsaT016344.1:CDS
TCCCTTGGTGCTTCTAATTC+GGG 0.284487 3:+96990042 MsaT016344.1:CDS
GTCGAATCCATTGCCACTTC+AGG 0.295879 3:+96990618 MsaT016344.1:CDS
TTAGAAGCACCAAGGGAAAT+TGG 0.307978 3:-96990036 None:intergenic
AACCTCTTGGTTTCTCAGAT+TGG 0.311180 3:-96990242 None:intergenic
GCCCTTGATGATGCAACATT+TGG 0.323926 3:-96990723 None:intergenic
TATGATTTACAAGTACTTGA+TGG 0.325776 3:+96988910 MsaT016344.1:CDS
TCAATCTGAGGCTATCAAAT+AGG 0.341073 3:+96989230 MsaT016344.1:CDS
GTGGAAATGAATTCAGATAC+TGG 0.360987 3:-96990137 None:intergenic
AAACACAAACTAACCTTTAA+GGG 0.361293 3:-96988691 None:intergenic
ACTACTAGTGTTATTGTTGT+TGG 0.363306 3:-96988400 None:intergenic
TTCCACAGGCTTTCTTGAAC+GGG 0.370446 3:-96989371 None:intergenic
GTCCACTAGCTGAAGTTCTA+AGG 0.379508 3:+96990523 MsaT016344.1:CDS
ATGATTAAACTTATTGAGTA+AGG 0.386331 3:-96990760 None:intergenic
GCTAATGCTATCATTGATAA+TGG 0.393717 3:+96988615 MsaT016344.1:CDS
ATGGCGGCTTCAATAGGAAT+AGG 0.401179 3:+96988839 MsaT016344.1:CDS
TTCATCACTTGATCTATCAA+TGG 0.407184 3:+96990371 MsaT016344.1:CDS
GGATTCAGTGTTATTATGAT+AGG 0.409147 3:-96990115 None:intergenic
ATAGTCATCATCAAATCAAA+AGG 0.419333 3:+96989422 MsaT016344.1:CDS
TTTGCATAATAGCAGCTTTG+AGG 0.429903 3:+96989588 MsaT016344.1:CDS
CTTCTGCACCTACCAGCCTC+TGG 0.433695 3:-96989265 None:intergenic
GGTGGAATGGCGGCTTCAAT+AGG 0.433909 3:+96988833 MsaT016344.1:CDS
ACCATTGTTGGAGGTGGTGG+TGG 0.435162 3:-96990322 None:intergenic
GAAAATGAAGATTGGAGATA+AGG 0.436913 3:-96989565 None:intergenic
CTCCTTTCACAATTGCTCAA+TGG 0.446940 3:+96988867 MsaT016344.1:CDS
GGCTCAATCCAGCCCAACCT+TGG 0.448375 3:+96990481 MsaT016344.1:CDS
GGATTAAGTAAGAGAGGAAA+GGG 0.448727 3:-96990195 None:intergenic
ATTGTTGGAGGTGGTGGTGG+TGG 0.456677 3:-96990319 None:intergenic
TATGCAAAGAAAATGAAGAT+TGG 0.460286 3:-96989573 None:intergenic
AACTGATGCAGAACCATTGT+TGG 0.462885 3:-96990334 None:intergenic
GAAAGAAGATGAGAAGGAAC+AGG 0.467897 3:-96988941 None:intergenic
TCATCACTTGATCTATCAAT+GGG 0.468999 3:+96990372 MsaT016344.1:CDS
CTGATGCATAACAACAAACT+TGG 0.470877 3:+96990075 MsaT016344.1:CDS
AGAATTTGTTGCATCACTGC+TGG 0.475974 3:-96990562 None:intergenic
GAACCTACCCAAGGTTGGGC+TGG 0.475979 3:-96990489 None:intergenic
TCCATTGCCACTTCAGGGAC+AGG 0.476778 3:+96990624 MsaT016344.1:CDS
AAGATTGGAGATAAGGATGA+AGG 0.477847 3:-96989558 None:intergenic
CTAAAATAGCATTCTCAAGT+TGG 0.478113 3:+96990460 MsaT016344.1:CDS
AATAACACTAGTAGTGTTGT+TGG 0.478175 3:+96988408 MsaT016344.1:CDS
CTAACCTTTAAGGGTTGTGT+TGG 0.481457 3:-96988682 None:intergenic
GGAACAGCCACAGTAAAATC+AGG 0.486638 3:-96989478 None:intergenic
AGTTCAGAACTGTTATATAG+TGG 0.490372 3:-96990156 None:intergenic
TGATAGATCAAGTGATGAAA+GGG 0.490826 3:-96990367 None:intergenic
TCAATGAAACTAAAACCTCT+TGG 0.493104 3:-96990255 None:intergenic
GAGATAAGGATGAAGGGGAG+TGG 0.496353 3:-96989551 None:intergenic
GTCCAAATGTTGCATCATCA+AGG 0.496502 3:+96990721 MsaT016344.1:CDS
AGATTGGAGATAAGGATGAA+GGG 0.498515 3:-96989557 None:intergenic
TTATTTGTGTGAAGTTCCAC+AGG 0.498667 3:-96989385 None:intergenic
CTGCTGGAAGTAACATTGCT+TGG 0.498835 3:-96990546 None:intergenic
TCGAATCCATTGCCACTTCA+GGG 0.500942 3:+96990619 MsaT016344.1:CDS
TCCTGTCCCTGAAGTGGCAA+TGG 0.504102 3:-96990625 None:intergenic
GCTCAATCCAGCCCAACCTT+GGG 0.505605 3:+96990482 MsaT016344.1:CDS
AGAACCATTGTTGGAGGTGG+TGG 0.506509 3:-96990325 None:intergenic
GTTCCACAGGCTTTCTTGAA+CGG 0.508728 3:-96989372 None:intergenic
TGTTGAACCTACCCAAGGTT+GGG 0.509162 3:-96990493 None:intergenic
TTTCTTGTAGTTGGATTAGG+AGG 0.509981 3:-96989499 None:intergenic
GGCTTGGAGTGGATGCTGAA+TGG 0.510711 3:+96990009 MsaT016344.1:CDS
GATTGGAGATAAGGATGAAG+GGG 0.516351 3:-96989556 None:intergenic
TGGCGGCTTCAATAGGAATA+GGG 0.523564 3:+96988840 MsaT016344.1:CDS
TCAGATTGGAGAGTTTGCAT+TGG 0.524106 3:-96990228 None:intergenic
GAATTGAATGAAAAGGGGCT+TGG 0.524945 3:+96989993 MsaT016344.1:intron
CACTAGTAGTGTTGTTGGGT+CGG 0.525074 3:+96988413 MsaT016344.1:CDS
GAAGCAGAAATGTTGTGAAA+AGG 0.532749 3:-96988660 None:intergenic
GGGATTAAGTAAGAGAGGAA+AGG 0.533228 3:-96990196 None:intergenic
GGCCTTAGAACTTCAGCTAG+TGG 0.534033 3:-96990525 None:intergenic
TTGATAGATCAAGTGATGAA+AGG 0.535432 3:-96990368 None:intergenic
AATGGAGATCCAATTTCCCT+TGG 0.538520 3:+96990027 MsaT016344.1:CDS
CTCCATTGAGCAATTGTGAA+AGG 0.540021 3:-96988869 None:intergenic
GGAATGGTATCATCTCCATC+TGG 0.544391 3:+96990645 MsaT016344.1:CDS
ATTATGATAGGAACTTCCAT+TGG 0.546307 3:-96990103 None:intergenic
ACCACCACCACCTCCAACAA+TGG 0.549376 3:+96990321 MsaT016344.1:CDS
ATACATGAAAGAAGATGAGA+AGG 0.554354 3:-96988947 None:intergenic
GGTGGTCACAGCAGGTGGAA+TGG 0.556637 3:+96988820 MsaT016344.1:intron
AACAATGGTTCTGCATCAGT+TGG 0.557664 3:+96990336 MsaT016344.1:CDS
TTATTATGCAAAACACCAGA+TGG 0.559997 3:-96990660 None:intergenic
AAAGACATGTTGTATGTTGT+GGG 0.561732 3:-96988567 None:intergenic
AAAAGACATGTTGTATGTTG+TGG 0.562174 3:-96988568 None:intergenic
AACAATACTGATCCAGAGGC+TGG 0.566845 3:+96989253 MsaT016344.1:CDS
TACCATTCCTGTCCCTGAAG+TGG 0.567178 3:-96990631 None:intergenic
TGAGTTTCGCGTTCAAGACA+AGG 0.567509 3:+96988362 MsaT016344.1:CDS
AGTTTGTTGTTATGCATCAG+AGG 0.569252 3:-96990072 None:intergenic
TTGGTGCTTCTAATTCGGGA+TGG 0.574820 3:+96990046 MsaT016344.1:CDS
ATAACACTAGTAGTGTTGTT+GGG 0.575929 3:+96988409 MsaT016344.1:CDS
AACAAACTTGGAATGACCAA+TGG 0.577256 3:+96990087 MsaT016344.1:CDS
TAGTCATCATCAAATCAAAA+GGG 0.580379 3:+96989423 MsaT016344.1:CDS
GTGTTGAACCTACCCAAGGT+TGG 0.586263 3:-96990494 None:intergenic
TGCAGAACCATTGTTGGAGG+TGG 0.586637 3:-96990328 None:intergenic
GAGTTTGCATTGGAACAACA+AGG 0.591725 3:-96990218 None:intergenic
ATACTGATCCAGAGGCTGGT+AGG 0.593096 3:+96989257 MsaT016344.1:CDS
ACACGATTTGTTGTTGTGAG+AGG 0.596043 3:-96990597 None:intergenic
TGGAAATGAATTCAGATACT+GGG 0.603286 3:-96990136 None:intergenic
ACAAGGGGATTAAGTAAGAG+AGG 0.605379 3:-96990201 None:intergenic
GTTTGCATTGGAACAACAAG+GGG 0.608134 3:-96990216 None:intergenic
CCTTGGGTAGGTTCAACACC+TGG 0.608292 3:+96990498 MsaT016344.1:CDS
TCCCGAATTAGAAGCACCAA+GGG 0.609726 3:-96990043 None:intergenic
TGGATGGTGGTTTCAATCTG+AGG 0.616315 3:+96989218 MsaT016344.1:CDS
TCCCCGTTCAAGAAAGCCTG+TGG 0.619148 3:+96989369 MsaT016344.1:CDS
GGTAGGTGCAGAAGAACAGA+TGG 0.619651 3:+96989274 MsaT016344.1:CDS
GGTCACAGCAGGTGGAATGG+CGG 0.620189 3:+96988823 MsaT016344.1:intron
TCCAAATGTTGCATCATCAA+GGG 0.620644 3:+96990722 MsaT016344.1:CDS
CTCCAATCTGAGAAACCAAG+AGG 0.625201 3:+96990240 MsaT016344.1:CDS
GAATGAAAAGGGGCTTGGAG+TGG 0.630089 3:+96989998 MsaT016344.1:intron
TGCCACTTCAGGGACAGGAA+TGG 0.633479 3:+96990629 MsaT016344.1:CDS
ACTTCAGCTAGTGGACCACC+AGG 0.635831 3:-96990516 None:intergenic
TCCACAGGCTTTCTTGAACG+GGG 0.635923 3:-96989370 None:intergenic
AGGCTTCAAATAAGCAACCA+AGG 0.637520 3:+96989608 MsaT016344.1:CDS
AATCCAGCCCAACCTTGGGT+AGG 0.638869 3:+96990486 MsaT016344.1:CDS
TAGGAACAATACTGATCCAG+AGG 0.641405 3:+96989249 MsaT016344.1:CDS
TGATGCAGAACCATTGTTGG+AGG 0.644016 3:-96990331 None:intergenic
CATTGAGCAATTGTGAAAGG+AGG 0.644246 3:-96988866 None:intergenic
ATCCCGAATTAGAAGCACCA+AGG 0.660495 3:-96990044 None:intergenic
AGTTTGCATTGGAACAACAA+GGG 0.661506 3:-96990217 None:intergenic
CCAGGTGTTGAACCTACCCA+AGG 0.666817 3:-96990498 None:intergenic
TCACTTGATCTATCAATGGG+AGG 0.680795 3:+96990375 MsaT016344.1:CDS
TTGGTCTAATGCAGAGACAG+TGG 0.682367 3:+96990281 MsaT016344.1:CDS
TGGGTAGGTTCAACACCTGG+TGG 0.687244 3:+96990501 MsaT016344.1:CDS
TGTGAAAGACATATGCATAG+AGG 0.723539 3:+96989343 MsaT016344.1:CDS
AATGCTATCATTGATAATGG+CGG 0.749635 3:+96988618 MsaT016344.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 96988357 96990800 96988357 ID=MsaG016344
Chr3 mRNA 96988357 96990800 96988357 ID=MsaT016344.1;Parent=MsaG016344
Chr3 exon 96988357 96988450 96988357 ID=MsaT016344.1.exon1;Parent=MsaT016344.1
Chr3 CDS 96988357 96988450 96988357 ID=cds.MsaT016344.1;Parent=MsaT016344.1
Chr3 exon 96988559 96988699 96988559 ID=MsaT016344.1.exon2;Parent=MsaT016344.1
Chr3 CDS 96988559 96988699 96988559 ID=cds.MsaT016344.1;Parent=MsaT016344.1
Chr3 exon 96988831 96988965 96988831 ID=MsaT016344.1.exon3;Parent=MsaT016344.1
Chr3 CDS 96988831 96988965 96988831 ID=cds.MsaT016344.1;Parent=MsaT016344.1
Chr3 exon 96989218 96989629 96989218 ID=MsaT016344.1.exon4;Parent=MsaT016344.1
Chr3 CDS 96989218 96989629 96989218 ID=cds.MsaT016344.1;Parent=MsaT016344.1
Chr3 exon 96990008 96990800 96990008 ID=MsaT016344.1.exon5;Parent=MsaT016344.1
Chr3 CDS 96990008 96990800 96990008 ID=cds.MsaT016344.1;Parent=MsaT016344.1
Gene Sequence

>MsaT016344.1

ATGGGTGAGTTTCGCGTTCAAGACAAGGAACCTACAAAAAAAACCAACAACAATAACACTAGTAGTGTTGTTGGGTCGGTGCAGAGTTTTGAAGGTTATGGTCCCACAACATACAACATGTCTTTTGGGGGTGATTCTTCTGCTCTAGGTGCTAATGCTATCATTGATAATGGCGGTGTATCCTTAAATTTTCAACCTTTTCACAACATTTCTGCTTCCAACACAACCCTTAAAGCAGGTGGAATGGCGGCTTCAATAGGAATAGGGTATCCTCCTTTCACAATTGCTCAATGGAGAGAGCTTGAAAGACAAGCTATGATTTACAAGTACTTGATGGCTTCACTTCCTGTTCCTTCTCATCTTCTTTCATTGGATGGTGGTTTCAATCTGAGGCTATCAAATAGGAACAATACTGATCCAGAGGCTGGTAGGTGCAGAAGAACAGATGGTAAAAAATGGAGATGTTCAAGAGATGTAGCTCCTAATAACAAGTACTGTGAAAGACATATGCATAGAGGTCGTCCCCGTTCAAGAAAGCCTGTGGAACTTCACACAAATAACAATAACAATAGCAATAGTCATCATCAAATCAAAAGGGCTCGTTGTGATTCTTCTAATTCTTTTTCTCTGCCTGATTTTACTGTGGCTGTTCCTCCTAATCCAACTACAAGAAAATATGGATCTTCATCACATTTTCTTGCTTCCACTCCCCTTCATCCTTATCTCCAATCTTCATTTTCTTTGCATAATAGCAGCTTTGAGGCTTCAAATAAGCAACCAAGGGGCTTGGAGTGGATGCTGAATGGAGATCCAATTTCCCTTGGTGCTTCTAATTCGGGATGGAATCCTCTGATGCATAACAACAAACTTGGAATGACCAATGGAAGTTCCTATCATAATAACACTGAATCCCAGTATCTGAATTCATTTCCACTATATAACAGTTCTGAACTAGCTCAACATGAAAAACCCTTTCCTCTCTTACTTAATCCCCTTGTTGTTCCAATGCAAACTCTCCAATCTGAGAAACCAAGAGGTTTTAGTTTCATTGATGCTTGGTCTAATGCAGAGACAGTGGAAAACAATGCCAACACCACCACCACCACCTCCAACAATGGTTCTGCATCAGTTGGTAAATTATCCCTTTCATCACTTGATCTATCAATGGGAGGTAGTGCTGTGAGTGAAGAAATGAGTACTATTGAAATGAATGCTGCGAGTGATGATGATAGTACTAAAATAGCATTCTCAAGTTGGCTCAATCCAGCCCAACCTTGGGTAGGTTCAACACCTGGTGGTCCACTAGCTGAAGTTCTAAGGCCAAGCAATGTTACTTCCAGCAGTGATGCAACAAATTCTAATTCATCATCACCTCTCACAACAACAAATCGTGTCGAATCCATTGCCACTTCAGGGACAGGAATGGTATCATCTCCATCTGGTGTTTTGCATAATAAAACACTTGCTTCATTTTCTGATAGTAGTGGTAATAGCAGTCCAAATGTTGCATCATCAAGGGCTAATTCTGAAATTGCCTTACTCAATAAGTTTAATCATATTTCATATGTAAATTAA
Protein sequence

>MsaT016344.1

MGEFRVQDKEPTKKTNNNNTSSVVGSVQSFEGYGPTTYNMSFGGDSSALGANAIIDNGGVSLNFQPFHNISASNTTLKAGGMAASIGIGYPPFTIAQWRELERQAMIYKYLMASLPVPSHLLSLDGGFNLRLSNRNNTDPEAGRCRRTDGKKWRCSRDVAPNNKYCERHMHRGRPRSRKPVELHTNNNNNSNSHHQIKRARCDSSNSFSLPDFTVAVPPNPTTRKYGSSSHFLASTPLHPYLQSSFSLHNSSFEASNKQPRGLEWMLNGDPISLGASNSGWNPLMHNNKLGMTNGSSYHNNTESQYLNSFPLYNSSELAQHEKPFPLLLNPLVVPMQTLQSEKPRGFSFIDAWSNAETVENNANTTTTTSNNGSASVGKLSLSSLDLSMGGSAVSEEMSTIEMNAASDDDSTKIAFSSWLNPAQPWVGSTPGGPLAEVLRPSNVTSSSDATNSNSSSPLTTTNRVESIATSGTGMVSSPSGVLHNKTLASFSDSSGNSSPNVASSRANSEIALLNKFNHISYVN*