AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038038

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038038 MtrunA17_Chr7g0242251 98.658 149 2 0 1 149 1 149 5.28e-100 284
MsaG038038 MtrunA17_Chr3g0143991 79.221 77 16 0 46 122 40 116 1.58e-36 123
MsaG038038 MtrunA17_Chr8g0370431 56.349 126 47 3 16 141 9 126 2.07e-35 120
MsaG038038 MtrunA17_Chr5g0407011 58.268 127 44 4 16 141 9 127 2.64e-35 119
MsaG038038 MtrunA17_Chr1g0212341 51.402 107 48 2 47 150 98 203 9.69e-28 102
MsaG038038 MtrunA17_Chr4g0052011 48.315 89 46 0 38 126 51 139 2.87e-23 89.4
MsaG038038 MtrunA17_Chr1g0155251 43.820 89 48 2 47 134 554 641 3.50e-13 65.9
MsaG038038 MtrunA17_Chr8g0387931 43.421 76 40 1 47 122 262 334 6.66e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038038 AT3G51880.2 71.141 149 40 1 3 151 5 150 4.18e-65 197
MsaG038038 AT3G51880.5 71.233 146 39 1 3 148 5 147 1.61e-63 192
MsaG038038 AT3G51880.1 71.233 146 39 1 3 148 5 147 1.61e-63 192
MsaG038038 AT3G51880.3 71.233 146 39 1 3 148 5 147 1.61e-63 192
MsaG038038 AT3G51880.4 69.784 139 39 1 3 141 5 140 3.62e-59 181
MsaG038038 AT1G20693.2 67.619 105 34 0 42 146 29 133 5.65e-41 134
MsaG038038 AT1G20696.1 62.903 124 42 1 22 141 2 125 2.24e-40 132
MsaG038038 AT1G20693.3 68.000 100 32 0 42 141 29 128 9.17e-39 129
MsaG038038 AT1G20693.1 68.000 100 32 0 42 141 29 128 9.44e-39 129
MsaG038038 AT1G20696.2 66.019 103 31 1 24 122 4 106 1.15e-35 121
MsaG038038 AT1G20696.5 66.667 102 30 1 25 122 5 106 1.55e-35 120
MsaG038038 AT2G17560.3 61.468 109 38 2 42 149 26 131 2.69e-35 119
MsaG038038 AT2G17560.2 61.468 109 38 2 42 149 26 131 3.97e-35 119
MsaG038038 AT2G17560.1 61.468 109 38 2 42 149 26 131 3.97e-35 119
MsaG038038 AT1G20696.3 63.636 88 32 0 59 146 1 88 1.04e-29 104
MsaG038038 AT1G20696.4 63.855 83 30 0 59 141 1 83 2.12e-27 98.6
MsaG038038 AT4G35570.1 50.000 94 43 1 43 132 26 119 3.61e-26 96.3
MsaG038038 AT4G35570.2 50.000 94 43 1 43 132 26 119 3.61e-26 96.3
MsaG038038 AT2G34450.4 44.944 89 49 0 51 139 63 151 5.11e-23 89.0
MsaG038038 AT2G34450.3 44.944 89 49 0 51 139 63 151 5.11e-23 89.0
MsaG038038 AT2G34450.1 44.944 89 49 0 51 139 63 151 5.11e-23 89.0
MsaG038038 AT5G23420.1 54.651 86 38 1 31 116 95 179 1.21e-21 87.4
MsaG038038 AT2G34450.2 44.444 90 49 1 51 139 63 152 1.51e-21 85.1

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCTCCTTCTTAGTCTT+TGG 0.199866 7:-70237833 None:intergenic
TGGTTTGTTGGGATCTTTCT+TGG 0.220642 7:-70237858 None:intergenic
GCTGATACGGCCTTCACATT+AGG 0.277113 7:-70238026 None:intergenic
TTTGCAGCCTTGGCTTCATA+TGG 0.316878 7:-70238458 None:intergenic
TTAGTCTTTGGCACCTTCTC+AGG 0.326317 7:-70237821 None:intergenic
CTGATACGGCCTTCACATTA+GGG 0.334691 7:-70238025 None:intergenic
AAGATCCCAACAAACCAAAA+AGG 0.405230 7:+70237864 MsaT038038.1:CDS
ATGAAGCCAAGGCTGCAAAA+AGG 0.405842 7:+70238462 MsaT038038.1:CDS
TCTGTTGTTTACAGAAAAGT+AGG 0.423191 7:+70237776 MsaT038038.1:intron
TGATTGTAGGTTGGAAAGGC+TGG 0.424093 7:+70238130 MsaT038038.1:intron
TCGTCATCGTCCGCTGAACT+TGG 0.455762 7:-70238612 None:intergenic
GGACGATGACGAGGAGGAAT+CGG 0.459250 7:+70238623 MsaT038038.1:CDS
GAAAGGCTGGAGGAGAGAAA+TGG 0.460200 7:+70238143 MsaT038038.1:CDS
GAAACTAACCGGTCATCAAC+TGG 0.469423 7:-70236752 None:intergenic
AGGGAACAGCAAAGACTTCA+AGG 0.490288 7:+70236717 MsaT038038.1:CDS
CATGTAACTTACAGCTGATA+CGG 0.500809 7:-70238039 None:intergenic
GAAATGGAAATCCTTGACTA+AGG 0.502988 7:+70238159 MsaT038038.1:CDS
CAGAAAAGTAGGAAAGAGAA+AGG 0.505983 7:+70237787 MsaT038038.1:intron
AGAACGAAGACGATGACAAA+GGG 0.518815 7:+70236692 None:intergenic
AAAGACTAAGAAGGAGAAGA+AGG 0.533667 7:+70237835 MsaT038038.1:CDS
CAGGAAGACGAAGAAAGCGC+TGG 0.539312 7:-70237891 None:intergenic
GGATTTCAGAAAGACTTTCA+AGG 0.542513 7:+70237995 MsaT038038.1:CDS
GAAGGTGCCAAAGACTAAGA+AGG 0.548134 7:+70237826 MsaT038038.1:CDS
AATAATGAAGATGAAGCAAG+TGG 0.555668 7:+70238666 MsaT038038.1:CDS
GGCTGCTGCTAAACCTGAGA+AGG 0.556201 7:+70237808 MsaT038038.1:CDS
TGAAGATGAAGCAAGTGGAG+AGG 0.558529 7:+70238671 MsaT038038.1:CDS
ACTTTGATTGTAGGTTGGAA+AGG 0.560820 7:+70238126 MsaT038038.1:intron
GGCAGAGAACCCTAATGTGA+AGG 0.592629 7:+70238016 MsaT038038.1:CDS
GAAGACGATGACAAAGGGCA+AGG 0.595311 7:+70236697 None:intergenic
AAAAGCTCCATATGAAGCCA+AGG 0.600500 7:+70238451 MsaT038038.1:CDS
TTCAGCGGACGATGACGAGG+AGG 0.606822 7:+70238617 MsaT038038.1:CDS
TTGTAGGTTGGAAAGGCTGG+AGG 0.616392 7:+70238133 MsaT038038.1:intron
AAGACGATGACAAAGGGCAA+GGG 0.619855 7:+70236698 None:intergenic
AAGTTCAGCGGACGATGACG+AGG 0.620749 7:+70238614 MsaT038038.1:CDS
TGACGAGGAGGAATCGGACA+AGG 0.621585 7:+70238629 MsaT038038.1:CDS
ATTGCTTACAGCCTTAGTCA+AGG 0.624911 7:-70238170 None:intergenic
AGGAAGACGAAGAAAGCGCT+GGG 0.627394 7:-70237890 None:intergenic
GGGAACAGCAAAGACTTCAA+GGG 0.641543 7:+70236718 MsaT038038.1:CDS
ATGGTGACAGCCAAGTTCAG+CGG 0.644657 7:+70238602 MsaT038038.1:intron
TAGAACGAAGACGATGACAA+AGG 0.648840 7:+70236691 None:intergenic
TATGAATGCTTATAATAACA+AGG 0.656932 7:+70238505 MsaT038038.1:CDS
AAGACGAAGAAAGCGCTGGG+AGG 0.711277 7:-70237887 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 70236704 70238701 70236704 ID=MsaG038038
Chr7 mRNA 70236704 70238701 70236704 ID=MsaT038038.1;Parent=MsaG038038
Chr7 exon 70236704 70236765 70236704 ID=MsaT038038.1.exon1;Parent=MsaT038038.1
Chr7 CDS 70236704 70236765 70236704 ID=cds.MsaT038038.1;Parent=MsaT038038.1
Chr7 exon 70237790 70237912 70237790 ID=MsaT038038.1.exon2;Parent=MsaT038038.1
Chr7 CDS 70237790 70237912 70237790 ID=cds.MsaT038038.1;Parent=MsaT038038.1
Chr7 exon 70237992 70238049 70237992 ID=MsaT038038.1.exon3;Parent=MsaT038038.1
Chr7 CDS 70237992 70238049 70237992 ID=cds.MsaT038038.1;Parent=MsaT038038.1
Chr7 exon 70238139 70238183 70238139 ID=MsaT038038.1.exon4;Parent=MsaT038038.1
Chr7 CDS 70238139 70238183 70238139 ID=cds.MsaT038038.1;Parent=MsaT038038.1
Chr7 exon 70238449 70238526 70238449 ID=MsaT038038.1.exon5;Parent=MsaT038038.1
Chr7 CDS 70238449 70238526 70238449 ID=cds.MsaT038038.1;Parent=MsaT038038.1
Chr7 exon 70238612 70238701 70238612 ID=MsaT038038.1.exon6;Parent=MsaT038038.1
Chr7 CDS 70238612 70238701 70238612 ID=cds.MsaT038038.1;Parent=MsaT038038.1
Gene Sequence

>MsaT038038.1

ATGACAAAGGGCAAGGGAACAGCAAAGACTTCAAGGGATGTTTTGAAACCAGTTGATGACCGAAAAGTAGGAAAGAGAAAGGCTGCTGCTAAACCTGAGAAGGTGCCAAAGACTAAGAAGGAGAAGAAGGCCAAGAAAGATCCCAACAAACCAAAAAGGCCTCCCAGCGCTTTCTTCGTCTTCCTTGAGGATTTCAGAAAGACTTTCAAGGCAGAGAACCCTAATGTGAAGGCCGTATCAGCTGTTGGAAAGGCTGGAGGAGAGAAATGGAAATCCTTGACTAAGGCTGAAAAAGCTCCATATGAAGCCAAGGCTGCAAAAAGGAAAGTTGAGTATGAAAAGCTTATGAATGCTTATAATAACAAGCCAAGTTCAGCGGACGATGACGAGGAGGAATCGGACAAGGACAAATCTGAAGTTAATAATGAAGATGAAGCAAGTGGAGAGGTAGTGTAA
Protein sequence

>MsaT038038.1

MTKGKGTAKTSRDVLKPVDDRKVGKRKAAAKPEKVPKTKKEKKAKKDPNKPKRPPSAFFVFLEDFRKTFKAENPNVKAVSAVGKAGGEKWKSLTKAEKAPYEAKAAKRKVEYEKLMNAYNNKPSSADDDEEESDKDKSEVNNEDEASGEVV*