AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028473

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028473 MtrunA17_Chr5g0432941 78.926 242 25 6 1 234 1 224 6.93e-129 363
MsaG028473 MtrunA17_Chr5g0432921 76.349 241 33 5 1 234 1 224 4.55e-125 353
MsaG028473 MtrunA17_Chr1g0162081 36.318 201 114 8 9 201 3 197 2.67e-31 116
MsaG028473 MtrunA17_Chr1g0210471 36.410 195 112 7 20 211 23 208 1.99e-29 110
MsaG028473 MtrunA17_Chr1g0192061 42.675 157 57 3 70 224 19 144 6.19e-29 107
MsaG028473 MtrunA17_Chr8g0365011 35.468 203 92 9 15 201 2 181 4.44e-23 94.7
MsaG028473 MtrunA17_Chr3g0104071 35.928 167 96 6 12 173 34 194 5.47e-21 89.4
MsaG028473 MtrunA17_Chr7g0241761 32.500 200 119 9 20 211 34 225 3.32e-20 87.4
MsaG028473 MtrunA17_Chr4g0062741 29.018 224 122 10 21 210 8 228 4.63e-19 84.0
MsaG028473 MtrunA17_Chr5g0429521 32.796 186 110 8 15 194 23 199 3.45e-18 81.6
MsaG028473 MtrunA17_Chr5g0436501 29.949 197 113 8 9 194 12 194 4.95e-16 75.1
MsaG028473 MtrunA17_Chr5g0409841 36.552 145 87 3 69 210 36 178 6.59e-16 74.3
MsaG028473 MtrunA17_Chr5g0440741 40.000 110 54 4 106 210 86 188 1.23e-14 71.6
MsaG028473 MtrunA17_Chr5g0440731 36.429 140 72 6 86 210 56 193 9.91e-14 68.9
MsaG028473 MtrunA17_Chr4g0059701 39.773 88 40 2 86 172 55 130 1.51e-12 65.5
MsaG028473 MtrunA17_Chr8g0389241 45.205 73 37 2 129 200 107 177 2.47e-12 65.1
MsaG028473 MtrunA17_Chr5g0409831 47.059 68 34 2 108 174 59 125 2.68e-12 64.3
MsaG028473 MtrunA17_Chr6g0488471 51.613 62 27 2 129 189 99 158 4.92e-12 64.3
MsaG028473 MtrunA17_Chr6g0452791 60.870 46 17 1 129 173 82 127 7.45e-12 62.0
MsaG028473 MtrunA17_Chr5g0415191 46.875 64 33 1 111 173 86 149 1.39e-11 63.2
MsaG028473 MtrunA17_Chr3g0092621 45.455 66 34 2 129 193 86 150 1.48e-11 61.2
MsaG028473 MtrunA17_Chr4g0055931 36.170 94 56 3 102 193 70 161 3.09e-11 62.0
MsaG028473 MtrunA17_Chr3g0135671 60.870 46 17 1 129 173 93 138 6.27e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028473 AT5G08520.1 35.028 177 109 5 21 194 12 185 5.78e-26 102
MsaG028473 AT5G04760.1 35.135 185 105 4 18 201 3 173 2.55e-24 96.7
MsaG028473 AT5G23650.1 36.723 177 103 7 21 192 13 185 6.24e-23 95.5
MsaG028473 AT2G38090.1 32.683 205 114 9 17 212 25 214 4.72e-20 87.0
MsaG028473 AT3G10580.2 33.548 155 83 2 21 174 8 143 5.04e-20 86.3
MsaG028473 AT3G10580.1 33.766 154 82 2 21 173 8 142 6.22e-20 86.7
MsaG028473 AT5G58900.1 32.184 174 90 7 16 174 29 189 1.10e-18 83.2
MsaG028473 AT5G01200.1 30.811 185 116 4 21 194 30 213 1.50e-18 82.4
MsaG028473 AT1G49010.1 30.964 197 110 8 21 194 8 201 5.04e-18 81.6
MsaG028473 AT5G05790.2 30.526 190 119 6 17 201 27 208 8.84e-17 77.8
MsaG028473 AT5G05790.1 30.526 190 119 6 17 201 27 208 8.84e-17 77.8
MsaG028473 AT4G09450.1 34.839 155 76 5 20 172 6 137 3.28e-16 74.7
MsaG028473 AT3G11280.2 31.928 166 74 6 21 172 33 173 6.64e-14 69.7
MsaG028473 AT3G11280.1 31.928 166 74 6 21 172 33 173 6.64e-14 69.7
MsaG028473 AT3G10590.1 28.409 176 121 3 18 192 4 175 5.47e-13 66.2
MsaG028473 AT1G70000.1 52.542 59 27 1 116 173 87 145 7.71e-13 66.6
MsaG028473 AT1G70000.2 52.542 59 27 1 116 173 87 145 7.71e-13 66.6
MsaG028473 AT5G47390.1 37.374 99 51 4 118 209 87 181 4.36e-12 65.1
MsaG028473 AT5G61620.1 43.529 85 45 2 123 206 104 186 4.06e-11 62.0

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGCATTTCCTTCACATAAA+TGG 0.223126 5:-62981470 MsaT028473.1:CDS
TTGAATTTCAACATTTAATT+CGG 0.308654 5:+62981281 None:intergenic
TTCTTAGTCTTATTCTTAGT+TGG 0.323967 5:+62982189 None:intergenic
AGATTCATAAGAAGGGAAAT+TGG 0.369394 5:-62981553 MsaT028473.1:CDS
GTCCTTACTGAGAAGAGGTT+TGG 0.374736 5:+62981382 None:intergenic
GAAAATCTTGCTCTTGTTTG+CGG 0.422028 5:-62982402 MsaT028473.1:CDS
CTTCAACATTACCTCATTGA+AGG 0.462445 5:-62981414 MsaT028473.1:CDS
GGGAATCGAGATTCATAAGA+AGG 0.470381 5:-62981561 MsaT028473.1:CDS
TATTTGTGTCGTTCATATGT+TGG 0.485196 5:+62982520 None:intergenic
TCCCATGAGGTAGGAGGAGA+TGG 0.491481 5:+62981353 None:intergenic
GCATGGCTAGCACATTGACT+TGG 0.494579 5:+62981497 None:intergenic
TTCAACATTTAATTCGGATG+AGG 0.495392 5:+62981287 None:intergenic
ATGAACGACACAAATAATGA+TGG 0.501312 5:-62982513 MsaT028473.1:CDS
CTAAGAAAGTGGTGAAACAT+TGG 0.507701 5:-62982173 MsaT028473.1:CDS
TTCCATCTCCTCCTACCTCA+TGG 0.508016 5:-62981355 MsaT028473.1:CDS
GGATGAGGATAAAGAAGAGC+TGG 0.516096 5:+62981302 None:intergenic
TTGATGTACCATTTATGTGA+AGG 0.524593 5:+62981462 None:intergenic
TTCCAAACCTCTTCTCAGTA+AGG 0.524962 5:-62981384 MsaT028473.1:CDS
TGCTTCAATCGATGAGAAAG+TGG 0.525998 5:-62982262 MsaT028473.1:CDS
TAAGAATAAGACTAAGAAAG+TGG 0.531612 5:-62982184 MsaT028473.1:CDS
TTCAACATTACCTCATTGAA+GGG 0.537386 5:-62981413 MsaT028473.1:CDS
ATGAGAAAGTGGTGAAACAT+TGG 0.549573 5:-62982251 MsaT028473.1:CDS
GAGCTGGAACATAGAGAAGA+GGG 0.552512 5:+62981318 None:intergenic
TCCATCTCCTCCTACCTCAT+GGG 0.558700 5:-62981354 MsaT028473.1:CDS
AGGAAGTACAAGAAGGTCGA+TGG 0.560186 5:-62982425 MsaT028473.1:CDS
ATGTTGTCCTTACTGAGAAG+AGG 0.560674 5:+62981377 None:intergenic
CGTTCTCTTTGAATATCTTG+AGG 0.562741 5:-62982445 MsaT028473.1:CDS
GAAAATCAAAGGAGTGGACA+TGG 0.573641 5:-62982491 MsaT028473.1:CDS
AGTGCTTCAATCGATGAGAA+AGG 0.579018 5:-62982219 MsaT028473.1:CDS
CTCAAGATATTCAAAGAGAA+CGG 0.580373 5:+62982446 None:intergenic
GGAATCGAGATTCATAAGAA+GGG 0.583688 5:-62981560 MsaT028473.1:CDS
AAATAATGATGGAAAATCAA+AGG 0.595595 5:-62982502 MsaT028473.1:CDS
TCTCCTCCTACCTCATGGGA+TGG 0.596171 5:-62981350 MsaT028473.1:CDS
AGAGCTGGAACATAGAGAAG+AGG 0.602888 5:+62981317 None:intergenic
GCATGACTTAGCACTCATTG+AGG 0.603466 5:-62982337 MsaT028473.1:CDS
GACTTAGCACTCATTGAGGA+AGG 0.612605 5:-62982333 MsaT028473.1:CDS
ATGATGGAAAATCAAAGGAG+TGG 0.613850 5:-62982497 MsaT028473.1:CDS
TTTCCATCCCATGAGGTAGG+AGG 0.614524 5:+62981347 None:intergenic
TATCTTGAGGAAGTACAAGA+AGG 0.618040 5:-62982432 MsaT028473.1:CDS
GGAATGATCTCCCTTCAATG+AGG 0.623973 5:+62981403 None:intergenic
AAATTTCCATCCCATGAGGT+AGG 0.632795 5:+62981344 None:intergenic
CTGGAACATAGAGAAGAGGG+TGG 0.633901 5:+62981321 None:intergenic
GGAAGTACAAGAAGGTCGAT+GGG 0.635752 5:-62982424 MsaT028473.1:CDS
AAAATCAAAGGAGTGGACAT+GGG 0.673138 5:-62982490 MsaT028473.1:CDS
ATTGGAGTGAAGAAGAACAC+AGG 0.701675 5:-62982155 MsaT028473.1:intron
GTGGAAATTTCCATCCCATG+AGG 0.722495 5:+62981340 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 62981295 62982559 62981295 ID=MsaG028473
Chr5 mRNA 62981295 62982559 62981295 ID=MsaT028473.1;Parent=MsaG028473
Chr5 exon 62981295 62981595 62981295 ID=MsaT028473.1.exon2;Parent=MsaT028473.1
Chr5 CDS 62981295 62981595 62981295 ID=cds.MsaT028473.1;Parent=MsaT028473.1
Chr5 exon 62982156 62982559 62982156 ID=MsaT028473.1.exon1;Parent=MsaT028473.1
Chr5 CDS 62982156 62982559 62982156 ID=cds.MsaT028473.1;Parent=MsaT028473.1
Gene Sequence

>MsaT028473.1

ATGTATCAATCTTCACACCAACATATGAACGACACAAATAATGATGGAAAATCAAAGGAGTGGACATGGGATGAAAATAAAATCTTTGAGACCGTTCTCTTTGAATATCTTGAGGAAGTACAAGAAGGTCGATGGGAAAATCTTGCTCTTGTTTGCGGTCGATCATCAACTGAAGTAAAAGAACACTATGAAACATTGTTGCATGACTTAGCACTCATTGAGGAAGGTCTTGTCGATTTTCAAACAGACACAAATGATTTTATTTCGAAAGGCAATGCTTCAATCGATGAGAAAGTGGTGAAACATTGGAGTGAAGAAAGTGCTTCAATCGATGAGAAAGGCAATGCTCCAACTAAGAATAAGACTAAGAAAGTGGTGAAACATTGGAGTGAAGAAGAACACAGGTTATTTGTAGAGGGAATCGAGATTCATAAGAAGGGAAATTGGAAAATGATTTCACAACATGTTCGTACAAGAACTCCAAGTCAATGTGCTAGCCATGCTCAAAAGCATTTCCTTCACATAAATGGTACATCAAAAAAGACTTATAAAAAAAGAAGCAACTTCAACATTACCTCATTGAAGGGAGATCATTCCAAACCTCTTCTCAGTAAGGACAACATTCCATCTCCTCCTACCTCATGGGATGGAAATTTCCACCCTCTTCTCTATGTTCCAGCTCTTCTTTATCCTCATCCGAATTAA
Protein sequence

>MsaT028473.1

MYQSSHQHMNDTNNDGKSKEWTWDENKIFETVLFEYLEEVQEGRWENLALVCGRSSTEVKEHYETLLHDLALIEEGLVDFQTDTNDFISKGNASIDEKVVKHWSEESASIDEKGNAPTKNKTKKVVKHWSEEEHRLFVEGIEIHKKGNWKMISQHVRTRTPSQCASHAQKHFLHINGTSKKTYKKRSNFNITSLKGDHSKPLLSKDNIPSPPTSWDGNFHPLLYVPALLYPHPN*