AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011994

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011994 MtrunA17_Chr3g0082861 97.605 167 4 0 1 167 1 167 2.21e-119 333
MsaG011994 MtrunA17_Chr8g0352871 74.545 165 41 1 3 167 8 171 1.24e-84 246
MsaG011994 MtrunA17_Chr7g0256551 67.901 162 50 1 2 163 7 166 9.48e-78 231
MsaG011994 MtrunA17_Chr3g0124861 58.491 159 52 3 3 150 21 176 1.16e-58 182
MsaG011994 MtrunA17_Chr5g0414931 56.643 143 57 1 3 145 15 152 4.11e-53 168
MsaG011994 MtrunA17_Chr4g0059571 52.761 163 68 2 2 164 24 177 4.06e-52 165
MsaG011994 MtrunA17_Chr1g0170741 54.140 157 63 2 3 159 7 154 1.27e-51 163
MsaG011994 MtrunA17_Chr3g0118211 50.307 163 72 2 1 163 20 173 2.96e-51 162
MsaG011994 MtrunA17_Chr3g0128691 55.634 142 46 3 5 141 19 148 3.25e-50 158
MsaG011994 MtrunA17_Chr4g0021731 73.864 88 14 1 3 90 10 88 8.48e-41 132
MsaG011994 MtrunA17_Chr4g0030271 29.927 137 78 2 6 142 91 209 1.36e-14 70.5
MsaG011994 MtrunA17_Chr8g0345901 27.143 140 84 1 6 145 38 159 1.39e-14 70.5
MsaG011994 MtrunA17_Chr1g0181811 27.737 137 81 1 6 142 87 205 5.77e-13 65.9
MsaG011994 MtrunA17_Chr3g0127941 27.333 150 91 2 4 153 56 187 1.40e-12 64.7
MsaG011994 MtrunA17_Chr7g0276361 24.074 162 103 2 1 162 13 154 3.05e-12 63.5
MsaG011994 MtrunA17_Chr7g0275401 29.221 154 85 4 4 154 9 141 8.30e-12 62.0
MsaG011994 MtrunA17_Chr1g0161431 28.125 160 93 4 2 161 13 150 2.44e-11 61.2
MsaG011994 MtrunA17_Chr1g0149851 28.671 143 81 3 6 148 11 132 5.14e-11 60.1
MsaG011994 MtrunA17_Chr7g0275891 28.777 139 79 3 6 144 11 129 5.40e-11 59.7
MsaG011994 MtrunA17_Chr8g0376881 26.207 145 86 3 2 146 27 150 7.10e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011994 AT3G57040.2 69.799 149 42 2 2 148 7 154 3.02e-71 215
MsaG011994 AT3G57040.1 69.799 149 42 2 2 148 7 154 3.02e-71 215
MsaG011994 AT2G41310.1 64.430 149 52 1 2 150 7 154 4.81e-67 204
MsaG011994 AT1G59940.1 57.233 159 54 4 3 160 32 177 2.12e-56 177
MsaG011994 AT1G59940.2 57.962 157 52 4 3 158 124 267 1.51e-54 175
MsaG011994 AT1G10470.3 55.556 162 57 5 1 161 17 164 3.06e-54 172
MsaG011994 AT1G10470.1 56.250 160 55 5 3 161 33 178 3.98e-54 172
MsaG011994 AT3G56380.1 55.634 142 55 2 3 144 19 152 3.06e-52 164
MsaG011994 AT3G48100.1 52.500 160 67 3 4 163 25 175 3.54e-52 164
MsaG011994 AT2G40670.1 53.521 142 60 1 3 144 28 163 2.95e-51 162
MsaG011994 AT5G62920.1 57.447 141 51 2 4 144 25 156 1.03e-50 161
MsaG011994 AT3G56380.2 55.245 143 55 3 3 144 19 153 1.74e-50 159
MsaG011994 AT2G40670.2 53.147 143 60 2 3 144 28 164 2.15e-49 157
MsaG011994 AT1G19050.1 50.000 158 69 2 3 159 23 171 3.69e-49 157
MsaG011994 AT1G74890.1 50.625 160 68 2 3 160 17 167 7.40e-49 157
MsaG011994 AT2G07440.1 66.667 60 20 0 91 150 9 68 4.17e-22 86.7
MsaG011994 AT1G10470.2 52.857 70 27 2 90 158 35 99 2.23e-16 73.2
MsaG011994 AT5G24470.1 28.777 139 79 3 6 144 54 172 5.08e-13 66.2
MsaG011994 AT5G60100.7 28.467 137 80 1 6 142 66 184 6.10e-12 63.2
MsaG011994 AT5G60100.6 28.467 137 80 1 6 142 66 184 6.10e-12 63.2
MsaG011994 AT5G60100.4 28.467 137 80 1 6 142 66 184 6.10e-12 63.2
MsaG011994 AT5G60100.2 28.467 137 80 1 6 142 66 184 6.41e-12 63.2
MsaG011994 AT5G60100.5 28.467 137 80 1 6 142 66 184 1.25e-11 62.4
MsaG011994 AT5G60100.3 28.467 137 80 1 6 142 66 184 1.25e-11 62.4
MsaG011994 AT5G60100.1 28.467 137 80 1 6 142 66 184 1.25e-11 62.4
MsaG011994 AT2G46790.3 26.619 139 84 2 4 142 37 157 1.88e-11 61.6
MsaG011994 AT5G07210.2 30.000 140 76 3 5 144 17 134 2.10e-11 61.6
MsaG011994 AT2G46790.1 26.619 139 84 2 4 142 37 157 2.10e-11 61.6
MsaG011994 AT5G02810.1 26.277 137 83 2 6 142 80 198 3.63e-11 60.8
MsaG011994 AT2G25180.1 27.451 153 89 4 6 157 19 150 4.04e-11 60.8

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGGCACAGTTTCATATTT+TGG 0.112277 3:-16426822 MsaT011994.1:CDS
TCAGTTACTGTGGTTGATTC+TGG 0.242120 3:-16426272 MsaT011994.1:intron
CTCAAAACCTCTTCATTTCA+TGG 0.264136 3:-16426755 MsaT011994.1:intron
GGCTTTGAAGTTTCTTGGTT+TGG 0.274386 3:-16426243 MsaT011994.1:CDS
ACTAAGGCTTTGAAGTTTCT+TGG 0.296459 3:-16426248 MsaT011994.1:CDS
GGTTACCTGTTAATCCTTGA+TGG 0.331015 3:+16425370 None:intergenic
TGTGGTTGATTCTGGTACTA+AGG 0.342411 3:-16426264 MsaT011994.1:CDS
TTAACATCTGATTGTTGAAC+TGG 0.359149 3:+16425199 None:intergenic
AGATCATAGCCTGTCATTCC+TGG 0.369947 3:+16426007 None:intergenic
ATGTTCCATCAAGGATTAAC+AGG 0.384039 3:-16425375 MsaT011994.1:intron
GTTTCTGCAGCAATAGTTTG+AGG 0.420290 3:+16426194 None:intergenic
TACTGTATGCCAGGAATGAC+AGG 0.454246 3:-16426016 MsaT011994.1:CDS
TGAATCAGATGCTTAGAAGA+AGG 0.516221 3:-16425244 MsaT011994.1:intron
ATAACTGATTACTGTATGCC+AGG 0.518630 3:-16426025 MsaT011994.1:CDS
ACCTAATCAACAACAAAAGA+AGG 0.519626 3:-16425129 MsaT011994.1:CDS
TTGACAGAATGTTGATTGAA+AGG 0.523765 3:-16426781 MsaT011994.1:CDS
AAAATTACCATGAAATGAAG+AGG 0.534519 3:+16426748 None:intergenic
TATTGCTGCAGAAACAGATC+AGG 0.546049 3:-16426186 MsaT011994.1:intron
TCTTGGTTTGGTTGAAGATG+AGG 0.555035 3:-16426231 MsaT011994.1:CDS
CCTCAGAGAATGTTCCATCA+AGG 0.587746 3:-16425384 MsaT011994.1:CDS
TCTGAGGACATAATCACCAC+TGG 0.603381 3:+16425400 None:intergenic
GTTTGGTTGAAGATGAGGTG+AGG 0.669904 3:-16426226 MsaT011994.1:CDS
TTCTCTTAAAGACATACCAG+TGG 0.689344 3:-16425416 MsaT011994.1:CDS
CCTTGATGGAACATTCTCTG+AGG 0.703773 3:+16425384 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 16425096 16426843 16425096 ID=MsaG011994
Chr3 mRNA 16425096 16426843 16425096 ID=MsaT011994.1;Parent=MsaG011994
Chr3 exon 16425096 16425258 16425096 ID=MsaT011994.1.exon5;Parent=MsaT011994.1
Chr3 CDS 16425096 16425258 16425096 ID=cds.MsaT011994.1;Parent=MsaT011994.1
Chr3 exon 16425376 16425446 16425376 ID=MsaT011994.1.exon4;Parent=MsaT011994.1
Chr3 CDS 16425376 16425446 16425376 ID=cds.MsaT011994.1;Parent=MsaT011994.1
Chr3 exon 16425991 16426068 16425991 ID=MsaT011994.1.exon3;Parent=MsaT011994.1
Chr3 CDS 16425991 16426068 16425991 ID=cds.MsaT011994.1;Parent=MsaT011994.1
Chr3 exon 16426187 16426290 16426187 ID=MsaT011994.1.exon2;Parent=MsaT011994.1
Chr3 CDS 16426187 16426290 16426187 ID=cds.MsaT011994.1;Parent=MsaT011994.1
Chr3 exon 16426756 16426843 16426756 ID=MsaT011994.1.exon1;Parent=MsaT011994.1
Chr3 CDS 16426756 16426843 16426756 ID=cds.MsaT011994.1;Parent=MsaT011994.1
Gene Sequence

>MsaT011994.1

ATGGCACAGTTTCATATTTTGGCTGTTGATGACAGTGTTATTGACAGAATGTTGATTGAAAGGCTGCTCAAAACCTCTTCATTTCATGTTACTGTGGTTGATTCTGGTACTAAGGCTTTGAAGTTTCTTGGTTTGGTTGAAGATGAGGTGAGGAATGAAAAGCCTCAAACTATTGCTGCAGAAACAGATCAGGTTGTAGAAGTGAATCTGATCATAACTGATTACTGTATGCCAGGAATGACAGGCTATGATCTGCTGAGAAAAATCAAGGAATCTAATTCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTTCCATCAAGGATTAACAGATGCTTAGAAGAAGGAGCTGAAGAATTCTTTCTGAAACCAGTTCAACAATCAGATGTTAACAAGTTGAAACCACATTTGTTGAAGACAAAAGTTAAGAATGAAGATGACCTAATCAACAACAAAAGAAGGATACAAAACAATGCAATTCCATTGAAAAACTAG
Protein sequence

>MsaT011994.1

MAQFHILAVDDSVIDRMLIERLLKTSSFHVTVVDSGTKALKFLGLVEDEVRNEKPQTIAAETDQVVEVNLIITDYCMPGMTGYDLLRKIKESNSLKDIPVVIMSSENVPSRINRCLEEGAEEFFLKPVQQSDVNKLKPHLLKTKVKNEDDLINNKRRIQNNAIPLKN*