AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010961

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010961 MtrunA17_Chr2g0331031 95.480 354 8 2 1 347 1 353 0.0 691
MsaG010961 MtrunA17_Chr4g0055931 53.009 349 128 14 1 336 1 326 3.32e-100 298
MsaG010961 MtrunA17_Chr6g0488471 55.233 172 63 4 1 168 1 162 2.59e-50 169
MsaG010961 MtrunA17_Chr5g0415191 50.246 203 57 7 1 182 3 182 2.52e-48 165
MsaG010961 MtrunA17_Chr8g0389241 50.847 177 65 5 3 168 4 169 2.10e-44 154
MsaG010961 MtrunA17_Chr4g0059701 51.534 163 73 5 22 183 6 163 2.80e-33 124
MsaG010961 MtrunA17_Chr1g0210471 61.538 91 34 1 97 187 118 207 5.78e-33 122
MsaG010961 MtrunA17_Chr3g0104071 47.651 149 60 5 98 245 142 273 2.09e-32 123
MsaG010961 MtrunA17_Chr4g0062741 74.286 70 18 0 98 167 133 202 2.21e-32 122
MsaG010961 MtrunA17_Chr5g0429521 73.239 71 19 0 98 168 127 197 5.96e-32 121
MsaG010961 MtrunA17_Chr7g0241761 74.648 71 18 0 98 168 135 205 3.65e-31 119
MsaG010961 MtrunA17_Chr1g0162081 54.545 110 42 1 98 207 117 218 6.21e-31 119
MsaG010961 MtrunA17_Chr5g0436501 62.222 90 32 1 98 185 120 209 3.72e-30 116
MsaG010961 MtrunA17_Chr3g0092621 69.014 71 21 1 103 172 84 154 3.83e-29 110
MsaG010961 MtrunA17_Chr3g0135671 42.529 174 77 5 1 168 3 159 5.52e-28 109
MsaG010961 MtrunA17_Chr6g0452791 61.429 70 24 1 84 153 64 130 5.26e-22 91.7
MsaG010961 MtrunA17_Chr5g0409841 45.161 93 49 1 99 189 88 180 4.77e-21 90.5
MsaG010961 MtrunA17_Chr5g0440731 52.113 71 31 1 99 166 101 171 4.00e-20 89.4
MsaG010961 MtrunA17_Chr5g0440741 56.923 65 25 1 105 166 102 166 1.73e-19 87.4
MsaG010961 MtrunA17_Chr5g0409831 57.895 57 24 0 99 155 73 129 2.74e-17 80.1
MsaG010961 MtrunA17_Chr8g0364731 62.069 58 20 1 112 167 10 67 4.75e-15 72.8
MsaG010961 MtrunA17_Chr8g0365011 39.806 103 42 3 85 167 68 170 8.29e-15 73.9
MsaG010961 MtrunA17_Chr1g0192061 53.846 65 25 2 105 165 63 126 3.85e-14 70.1
MsaG010961 MtrunA17_Chr5g0432921 51.562 64 27 2 105 165 115 177 1.92e-13 68.9
MsaG010961 MtrunA17_Chr5g0432941 50.000 64 28 2 105 165 115 177 5.92e-13 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010961 AT3G16350.1 54.476 391 130 14 1 347 1 387 2.60e-108 322
MsaG010961 AT5G47390.1 48.021 379 137 14 1 338 1 360 9.47e-90 274
MsaG010961 AT1G70000.1 54.000 200 63 8 1 189 1 182 1.40e-51 172
MsaG010961 AT1G70000.2 54.000 200 63 8 1 189 1 182 1.40e-51 172
MsaG010961 AT5G61620.1 39.370 254 116 8 1 247 8 230 7.88e-48 164
MsaG010961 AT5G56840.1 51.479 169 69 4 1 168 1 157 3.22e-47 160
MsaG010961 AT2G38090.1 65.625 96 33 0 80 175 118 213 4.33e-35 130
MsaG010961 AT5G58900.1 74.286 70 18 0 98 167 136 205 3.32e-32 122
MsaG010961 AT1G49010.1 74.286 70 18 0 98 167 129 198 9.19e-32 121
MsaG010961 AT1G74840.2 48.503 167 75 6 29 192 24 182 4.85e-30 115
MsaG010961 AT5G08520.1 70.000 70 21 0 98 167 113 182 7.37e-30 116
MsaG010961 AT5G04760.1 65.278 72 25 0 97 168 93 164 1.47e-29 113
MsaG010961 AT1G74840.1 48.503 167 75 6 29 192 24 182 1.69e-29 114
MsaG010961 AT3G11280.2 71.429 70 20 0 98 167 122 191 1.21e-28 112
MsaG010961 AT3G11280.1 71.429 70 20 0 98 167 122 191 1.21e-28 112
MsaG010961 AT5G01200.1 70.000 70 21 0 98 167 141 210 2.03e-28 111
MsaG010961 AT1G19000.2 46.629 178 66 8 29 191 22 185 5.46e-28 110
MsaG010961 AT1G19000.1 46.629 178 66 8 29 191 22 185 5.46e-28 110
MsaG010961 AT5G05790.2 68.571 70 22 0 98 167 126 195 7.08e-27 107
MsaG010961 AT5G05790.1 68.571 70 22 0 98 167 126 195 7.08e-27 107
MsaG010961 AT4G09450.1 51.613 93 45 0 80 172 68 160 3.36e-24 98.6
MsaG010961 AT3G10580.2 58.667 75 29 1 94 168 86 158 2.80e-23 97.4
MsaG010961 AT3G10580.1 58.667 75 29 1 94 168 86 158 3.96e-23 97.8
MsaG010961 AT5G23650.1 53.425 73 34 0 96 168 113 185 2.88e-20 90.5
MsaG010961 AT3G10590.1 45.349 86 44 2 85 168 91 175 1.35e-16 77.8

Find 108 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTCTCCTTTGCCTAGCTTT+TGG 0.260546 2:+79799311 None:intergenic
GAAGCGCCGCCGCTGCCGGC+GGG 0.281178 2:-79801751 MsaT010961.1:CDS
CATCAAGAAAAGTGCCAGTA+TGG 0.298362 2:-79801690 MsaT010961.1:CDS
GGAAGAACATAGATTGTTCT+TGG 0.306357 2:-79799341 MsaT010961.1:CDS
GAAAATGAGGCAGGTAAATA+AGG 0.320772 2:+79798394 None:intergenic
GATGAAGAGCAGCGAGGTTT+AGG 0.321604 2:+79801663 None:intergenic
TCGAGAAGCGCCGCCGCTGC+CGG 0.338043 2:-79801755 MsaT010961.1:CDS
GGAAGTAGTACTTGCTCTTC+TGG 0.338570 2:+79798589 None:intergenic
TCCTTTGGAATGACTGGTAT+TGG 0.340477 2:+79798298 None:intergenic
CCCCTTTCCTTGAAGTTGTT+AGG 0.350389 2:-79798196 MsaT010961.1:CDS
TCTGGCATCGAAGTTGAATC+TGG 0.363477 2:+79798607 None:intergenic
TGGAATGCTGATTGCCTTGA+GGG 0.363738 2:+79798169 None:intergenic
CTTCACCCCGCCGGCAGCGG+CGG 0.373251 2:+79801745 None:intergenic
TCAACATTGACAGGTTCCTT+TGG 0.380571 2:+79798283 None:intergenic
TTTAGATCAGAACCGCTAAC+TGG 0.381028 2:+79798136 None:intergenic
TCAAAGGGAGCTCCAATTGA+TGG 0.384606 2:+79798364 None:intergenic
TGATCCCATTGTAGTCTCAT+TGG 0.391511 2:+79798453 None:intergenic
GAATGTCTCATCTGAGCATT+GGG 0.393213 2:-79798249 MsaT010961.1:CDS
TCCTTTGTTGACTTCTTCAA+AGG 0.400771 2:+79798348 None:intergenic
AGAAGCGCCGCCGCTGCCGG+CGG 0.417090 2:-79801752 MsaT010961.1:CDS
AAAGCCTCAAACTGCTTGAA+TGG 0.420085 2:+79798096 None:intergenic
AAGCGCCGCCGCTGCCGGCG+GGG 0.428113 2:-79801750 MsaT010961.1:CDS
GAGACTACAATGGGATCAAA+TGG 0.433570 2:-79798448 MsaT010961.1:CDS
CCTTTGTTGACTTCTTCAAA+GGG 0.434334 2:+79798349 None:intergenic
CGGTTCAAAACAAGGTGAAC+CGG 0.438885 2:+79801616 None:intergenic
TCCTAACAACTTCAAGGAAA+GGG 0.440079 2:+79798195 None:intergenic
TCTTCAGATGTAGCTTCCAT+TGG 0.445737 2:+79798490 None:intergenic
AAAAGCTAGGCAAAGGAGAC+TGG 0.448710 2:-79799309 MsaT010961.1:CDS
GGGAAGAATCCTTGCGTCAT+TGG 0.453748 2:+79798418 None:intergenic
ACAGGTTCCTTTGGAATGAC+TGG 0.453964 2:+79798292 None:intergenic
GAGGTTTAGGTTCCCCATAC+TGG 0.455596 2:+79801676 None:intergenic
AAAGCAGAAGAAGCATGAAC+CGG 0.455984 2:+79801560 None:intergenic
AAGCTTCACCCCGCCGGCAG+CGG 0.457103 2:+79801742 None:intergenic
GAACATAGATTGTTCTTGGT+TGG 0.461435 2:-79799337 MsaT010961.1:CDS
CATGACTTGCTACTTGAGTA+GGG 0.462555 2:+79799251 None:intergenic
AACGCCATTCAAGCAGTTTG+AGG 0.463617 2:-79798100 None:intergenic
GCATGACTTGCTACTTGAGT+AGG 0.464793 2:+79799250 None:intergenic
GAATGAATACTGACCACATC+AGG 0.481403 2:+79799157 None:intergenic
TTTCTTGATGATTGATCCAT+CGG 0.482732 2:+79801703 None:intergenic
AGCTCCAATTGATGGCCATA+TGG 0.483931 2:+79798372 None:intergenic
GGGCTCTCCTAACAACTTCA+AGG 0.485368 2:+79798189 None:intergenic
TCATCAGATAAATAACCATC+CGG 0.488271 2:+79801584 None:intergenic
CATGCAAATGCTCCAGTTAG+CGG 0.489459 2:-79798148 MsaT010961.1:CDS
ACAAGTTCATCAACATTGAC+AGG 0.494176 2:+79798274 None:intergenic
ACGGACATGTCCGTGAGTTA+TGG 0.495840 2:+79801777 None:intergenic
TCTTCTTCGCCGCTGAACCC+CGG 0.498426 2:-79801635 MsaT010961.1:CDS
GAGAACTCACAACCTTGTAA+TGG 0.500646 2:-79798559 MsaT010961.1:CDS
ATCTGAGCATTGGGGAAACA+CGG 0.503897 2:-79798240 MsaT010961.1:CDS
TTTCGACATGGCTCCTGATG+TGG 0.516858 2:-79799170 MsaT010961.1:intron
CCTAACAACTTCAAGGAAAG+GGG 0.517543 2:+79798196 None:intergenic
GCAGCGGCGGCGCTTCTCGA+CGG 0.517789 2:+79801758 None:intergenic
CTATGTTCTTCCTCAGTCCA+TGG 0.518156 2:+79799352 None:intergenic
GGTTCAAAACAAGGTGAACC+GGG 0.521484 2:+79801617 None:intergenic
TGATGGCCATATGGAAAATG+AGG 0.522407 2:+79798381 None:intergenic
AGGAGAGACATCGTATCATC+AGG 0.522529 2:-79798329 MsaT010961.1:CDS
AGGAGCCATGTCGAAAAGAC+TGG 0.523291 2:+79799177 None:intergenic
ATCAAGAAAAGTGCCAGTAT+GGG 0.525026 2:-79801689 MsaT010961.1:CDS
CGCTAACTGGAGCATTTGCA+TGG 0.525907 2:+79798149 None:intergenic
GGAATGTCTCATCTGAGCAT+TGG 0.531337 2:-79798250 MsaT010961.1:CDS
TTGGTTGGTCTCCAAAAGCT+AGG 0.538073 2:-79799322 MsaT010961.1:CDS
ATCTGAAGAAAATGTAGAAG+AGG 0.540720 2:-79798476 MsaT010961.1:CDS
ATGAGGCAGGTAAATAAGGT+GGG 0.541274 2:+79798398 None:intergenic
CTCCTAACAACTTCAAGGAA+AGG 0.542864 2:+79798194 None:intergenic
TCCTGGTAGCATTACTCTGT+CGG 0.543171 2:+79799212 None:intergenic
GGCCATATGGAAAATGAGGC+AGG 0.543383 2:+79798385 None:intergenic
ATGGAATGCTGATTGCCTTG+AGG 0.546697 2:+79798168 None:intergenic
GGCGGCGATTCGTGATGACT+CGG 0.556358 2:-79801826 None:intergenic
CAAGTCAGAATATGAACCAA+TGG 0.562551 2:-79798506 MsaT010961.1:CDS
CAAGGTGAACCGGGGTTCAG+CGG 0.568397 2:+79801626 None:intergenic
CAAGGTTGTGAGTTCTCAGA+AGG 0.569930 2:+79798565 None:intergenic
GAATGACTGGTATTGGCTTG+AGG 0.572196 2:+79798305 None:intergenic
AAATAACCATCCGGGTCATG+CGG 0.572298 2:+79801593 None:intergenic
GAGGCCAATGAGACTACAAT+GGG 0.576022 2:-79798457 MsaT010961.1:CDS
ACTGGAACGTCTCTTCCTCC+TGG 0.576071 2:+79799195 None:intergenic
TGGTTATTTATCTGATGACC+CGG 0.576739 2:-79801579 MsaT010961.1:CDS
AGTTGTTAGGAGAGCCCTCA+AGG 0.579322 2:-79798183 MsaT010961.1:CDS
AAGCAGAAGAAGCATGAACC+GGG 0.580723 2:+79801561 None:intergenic
TCTGAGCATTGGGGAAACAC+GGG 0.582582 2:-79798239 MsaT010961.1:CDS
AATGAGGCAGGTAAATAAGG+TGG 0.582975 2:+79798397 None:intergenic
TCATGCGGCGGTTCAAAACA+AGG 0.584178 2:+79801608 None:intergenic
GTCAATGTTGATGAACTTGT+GGG 0.584457 2:-79798271 MsaT010961.1:CDS
TTTGGTGTTAGATTAACCGA+TGG 0.592133 2:-79801719 MsaT010961.1:CDS
TGTCAATGTTGATGAACTTG+TGG 0.593101 2:-79798272 MsaT010961.1:CDS
TGCTCTCACTGCAGCAACAA+CGG 0.601199 2:-79801800 MsaT010961.1:CDS
GGTTGTGAGTTCTCAGAAGG+TGG 0.602477 2:+79798568 None:intergenic
GAACCGCCGCATGACCCGGA+TGG 0.608961 2:-79801599 MsaT010961.1:CDS
GGTCTCCAAAAGCTAGGCAA+AGG 0.614877 2:-79799316 MsaT010961.1:CDS
AGAGGCCAATGAGACTACAA+TGG 0.616526 2:-79798458 MsaT010961.1:CDS
GCAACAACGGCCATAACTCA+CGG 0.617037 2:-79801787 MsaT010961.1:CDS
CTAACAACTTCAAGGAAAGG+GGG 0.629370 2:+79798197 None:intergenic
CTAGGCAAAGGAGACTGGCG+AGG 0.631792 2:-79799304 MsaT010961.1:CDS
TCAAGAAAAGTGCCAGTATG+GGG 0.632856 2:-79801688 MsaT010961.1:CDS
CCCTTTGAAGAAGTCAACAA+AGG 0.636313 2:-79798349 MsaT010961.1:CDS
TTGAGAGACAGATTTAGTGA+TGG 0.636747 2:+79798526 None:intergenic
TAACCATCCGGGTCATGCGG+CGG 0.638437 2:+79801596 None:intergenic
CATCAGATAAATAACCATCC+GGG 0.638735 2:+79801585 None:intergenic
TCCGACAGAGTAATGCTACC+AGG 0.640061 2:-79799213 MsaT010961.1:CDS
GCCAATACCAGTCATTCCAA+AGG 0.641238 2:-79798299 MsaT010961.1:CDS
ATGACTTGCTACTTGAGTAG+GGG 0.646346 2:+79799252 None:intergenic
GGATTCACACCAATGACGCA+AGG 0.652345 2:-79798427 MsaT010961.1:CDS
TAGGCAAAGGAGACTGGCGA+GGG 0.653435 2:-79799303 MsaT010961.1:CDS
TAACAACTTCAAGGAAAGGG+GGG 0.654354 2:+79798198 None:intergenic
TTTAGGTGTTCCATGGACTG+AGG 0.681364 2:-79799362 MsaT010961.1:intron
AGCGGTTCTGATCTAAACAG+TGG 0.708017 2:-79798130 MsaT010961.1:CDS
GTTCAAAACAAGGTGAACCG+GGG 0.719453 2:+79801618 None:intergenic
AATGTCTCATCTGAGCATTG+GGG 0.733687 2:-79798248 MsaT010961.1:CDS
AAGAATGATGAAGAGCAGCG+AGG 0.735471 2:+79801657 None:intergenic
GACAGAGTAATGCTACCAGG+AGG 0.755723 2:-79799210 MsaT010961.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 79798102 79801834 79798102 ID=MsaG010961
Chr2 mRNA 79798102 79801834 79798102 ID=MsaT010961.1;Parent=MsaG010961
Chr2 exon 79798102 79798632 79798102 ID=MsaT010961.1.exon3;Parent=MsaT010961.1
Chr2 CDS 79798102 79798632 79798102 ID=cds.MsaT010961.1;Parent=MsaT010961.1
Chr2 exon 79799171 79799379 79799171 ID=MsaT010961.1.exon2;Parent=MsaT010961.1
Chr2 CDS 79799171 79799379 79799171 ID=cds.MsaT010961.1;Parent=MsaT010961.1
Chr2 exon 79801531 79801834 79801531 ID=MsaT010961.1.exon1;Parent=MsaT010961.1
Chr2 CDS 79801531 79801834 79801531 ID=cds.MsaT010961.1;Parent=MsaT010961.1
Gene Sequence

>MsaT010961.1

ATGACTCGGCGTTGCTCTCACTGCAGCAACAACGGCCATAACTCACGGACATGTCCGTCGAGAAGCGCCGCCGCTGCCGGCGGGGTGAAGCTTTTTGGTGTTAGATTAACCGATGGATCAATCATCAAGAAAAGTGCCAGTATGGGGAACCTAAACCTCGCTGCTCTTCATCATTCTTCTTCTTCGCCGCTGAACCCCGGTTCACCTTGTTTTGAACCGCCGCATGACCCGGATGGTTATTTATCTGATGACCCGGTTCATGCTTCTTCTGCTTTCGCTACCCGCCGCAGCGAAAGAAAAAAAGGTGTTCCATGGACTGAGGAAGAACATAGATTGTTCTTGGTTGGTCTCCAAAAGCTAGGCAAAGGAGACTGGCGAGGGATAGCACGTAATTTTGTTGTGTCAAGGACCCCTACTCAAGTAGCAAGTCATGCACAAAAGTACTTTATCCGACAGAGTAATGCTACCAGGAGGAAGAGACGTTCCAGTCTTTTCGACATGGCTCCTGATGTGTGTCCAGATTCAACTTCGATGCCAGAAGAGCAAGTACTACTTCCACCTTCTGAGAACTCACAACCTTGTAATGGAAAATCACAACCATCACTAAATCTGTCTCTCAAGTCAGAATATGAACCAATGGAAGCTACATCTGAAGAAAATGTAGAAGAGGCCAATGAGACTACAATGGGATCAAATGGATTCACACCAATGACGCAAGGATTCTTCCCACCTTATTTACCTGCCTCATTTTCCATATGGCCATCAATTGGAGCTCCCTTTGAAGAAGTCAACAAAGGAGAGACATCGTATCATCAGGTCCTCAAGCCAATACCAGTCATTCCAAAGGAACCTGTCAATGTTGATGAACTTGTGGGAATGTCTCATCTGAGCATTGGGGAAACACGGGCTCTTGATAGAGAGCCTTCCCCCCTTTCCTTGAAGTTGTTAGGAGAGCCCTCAAGGCAATCAGCATTCCATGCAAATGCTCCAGTTAGCGGTTCTGATCTAAACAGTGGCAAGAACAACGCCATTCAAGCAGTTTGA
Protein sequence

>MsaT010961.1

MTRRCSHCSNNGHNSRTCPSRSAAAAGGVKLFGVRLTDGSIIKKSASMGNLNLAALHHSSSSPLNPGSPCFEPPHDPDGYLSDDPVHASSAFATRRSERKKGVPWTEEEHRLFLVGLQKLGKGDWRGIARNFVVSRTPTQVASHAQKYFIRQSNATRRKRRSSLFDMAPDVCPDSTSMPEEQVLLPPSENSQPCNGKSQPSLNLSLKSEYEPMEATSEENVEEANETTMGSNGFTPMTQGFFPPYLPASFSIWPSIGAPFEEVNKGETSYHQVLKPIPVIPKEPVNVDELVGMSHLSIGETRALDREPSPLSLKLLGEPSRQSAFHANAPVSGSDLNSGKNNAIQAV*