AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024429


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024429 MtrunA17_Chr8g0389561 94.010 384 15 3 1 379 1 381 0.0 716
MsaG024429 MtrunA17_Chr6g0487481 55.366 410 112 8 1 373 1 376 1.97e-141 407
MsaG024429 MtrunA17_Chr3g0135351 44.242 330 114 9 46 374 18 278 6.05e-77 239
MsaG024429 MtrunA17_Chr4g0040391 71.818 110 31 0 75 184 54 163 6.27e-58 191
MsaG024429 MtrunA17_Chr2g0324781 74.757 103 26 0 81 183 77 179 4.62e-57 191
MsaG024429 MtrunA17_Chr7g0257831 72.897 107 29 0 77 183 260 366 3.54e-54 190
MsaG024429 MtrunA17_Chr5g0430211 46.025 239 97 9 77 283 226 464 7.18e-53 186
MsaG024429 MtrunA17_Chr3g0088521 51.515 165 70 2 77 235 260 420 1.47e-51 183
MsaG024429 MtrunA17_Chr5g0437251 54.037 161 70 1 77 237 213 369 1.03e-50 180
MsaG024429 MtrunA17_Chr3g0092221 66.379 116 38 1 68 183 146 260 1.34e-50 174
MsaG024429 MtrunA17_Chr1g0171151 63.551 107 39 0 77 183 240 346 9.44e-49 174
MsaG024429 MtrunA17_Chr1g0187591 67.290 107 35 0 77 183 225 331 2.44e-47 170
MsaG024429 MtrunA17_Chr3g0113651 49.693 163 54 3 77 237 159 295 2.47e-47 168
MsaG024429 MtrunA17_Chr3g0092171 47.024 168 78 4 77 243 271 428 3.64e-46 165
MsaG024429 MtrunA17_Chr3g0105141 56.410 117 50 1 75 190 30 146 1.65e-44 151
MsaG024429 MtrunA17_Chr3g0105121 46.914 162 75 4 79 238 7 159 3.53e-40 145
MsaG024429 MtrunA17_Chr3g0105131 55.140 107 34 1 77 183 176 268 3.18e-33 129
MsaG024429 MtrunA17_Chr3g0105101 68.056 72 23 0 112 183 195 266 2.58e-30 120
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024429 AT4G29190.1 54.308 383 137 14 1 373 1 355 4.15e-126 367
MsaG024429 AT2G19810.1 51.309 382 153 10 1 373 1 358 5.50e-114 337
MsaG024429 AT2G25900.2 44.904 363 138 9 1 350 1 314 1.73e-90 275
MsaG024429 AT2G25900.1 44.904 363 138 9 1 350 1 314 1.73e-90 275
MsaG024429 AT1G03790.1 63.433 134 48 1 52 184 53 186 4.67e-58 194
MsaG024429 AT5G44260.1 68.548 124 30 2 62 184 49 164 2.15e-55 187
MsaG024429 AT2G41900.1 71.028 107 31 0 77 183 257 363 3.50e-53 187
MsaG024429 AT5G12850.1 71.963 107 30 0 77 183 253 359 5.05e-53 187
MsaG024429 AT3G55980.1 46.829 205 94 4 77 278 207 399 1.27e-51 181
MsaG024429 AT3G55980.2 46.829 205 94 4 77 278 274 466 3.22e-51 181
MsaG024429 AT5G58620.1 69.159 107 33 0 77 183 205 311 7.41e-51 179
MsaG024429 AT5G07500.1 63.333 120 42 1 66 183 35 154 9.51e-51 170
MsaG024429 AT2G40140.2 53.459 159 69 1 77 235 210 363 1.06e-48 174
MsaG024429 AT2G40140.1 53.459 159 69 1 77 235 210 363 1.06e-48 174

Find 125 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAGTCTGGGAGAGATATA+AGG 0.228314 4:-99369552 MsaT024429.1:CDS
GGAGCTGGTGAGCCCTTTCT+TGG 0.256293 4:-99369431 MsaT024429.1:CDS
GGGTCGGATCACGGGTCCTC+TGG 0.290200 4:+99369684 None:intergenic
GTGATGGAGAGGGTGGAGTC+TGG 0.299570 4:-99369565 MsaT024429.1:CDS
AATGGATCGGGTTCAGGTTC+GGG 0.301747 4:-99369490 MsaT024429.1:CDS
TCCGGATGTTGGGTGGGTTT+CGG 0.313054 4:-99369452 MsaT024429.1:CDS
CGTTGGTAGGCTACAGAATC+CGG 0.322086 4:+99369663 None:intergenic
CAACTTCCTTTACGAAAATC+AGG 0.327092 4:+99370159 None:intergenic
CTCACACGGCGGAGCAACTT+AGG 0.327174 4:-99370014 MsaT024429.1:CDS
CACACCGCCGCCATGATGTT+AGG 0.327724 4:-99370552 None:intergenic
TGAAGTCATTACCTTCTTCA+TGG 0.329074 4:-99369741 MsaT024429.1:CDS
TTCTCGCCGGGATGAGAAAA+AGG 0.329763 4:+99370231 None:intergenic
CCGGAGTAGTTATACTTTCT+CGG 0.332203 4:+99370192 None:intergenic
TAATGGATCGGGTTCAGGTT+CGG 0.338161 4:-99369491 MsaT024429.1:CDS
TGTTGGGTGGGTTTCGGAGC+TGG 0.339180 4:-99369446 MsaT024429.1:CDS
CGCATGGTGTGTTCGAGTGC+TGG 0.340661 4:-99370110 MsaT024429.1:CDS
TAATCGTCGTTGGAGGTTAA+AGG 0.353804 4:+99370447 None:intergenic
GCCGTTGGATTGTTCATTGT+TGG 0.354051 4:+99370483 None:intergenic
GACCGAGTCATCGGAGTAAT+CGG 0.354759 4:+99369838 None:intergenic
CAAATGGGTTCTCCTAGATT+CGG 0.355364 4:-99369712 MsaT024429.1:CDS
TTCTTCATGGAATGTTCAAA+TGG 0.360051 4:-99369728 MsaT024429.1:CDS
TACTCCGATGACTCGGTCCT+TGG 0.371166 4:-99369833 MsaT024429.1:CDS
CGTATGACGGTTCTCCTCTC+AGG 0.385313 4:-99369948 MsaT024429.1:CDS
CGTAAAGGAAGTTGCAAGAA+AGG 0.403608 4:-99370150 MsaT024429.1:CDS
ACAAACTGGCCGGCGACAAC+TGG 0.411554 4:+99370044 None:intergenic
TTGTTCATTGTTGGCCATGC+TGG 0.418920 4:+99370492 None:intergenic
TGAAGAAGGTAATGACTTCA+TGG 0.429121 4:+99369744 None:intergenic
TCCTCCTGGATCGGTTTCTC+CGG 0.431746 4:-99369881 MsaT024429.1:CDS
GAGCTGGTGAGCCCTTTCTT+GGG 0.442916 4:-99369430 MsaT024429.1:CDS
ACACCGCCGCCATGATGTTA+GGG 0.445475 4:-99370551 None:intergenic
CGGAGTAGTTATACTTTCTC+GGG 0.448222 4:+99370193 None:intergenic
CCTCTGGGAGACCCGAATCT+AGG 0.450232 4:+99369700 None:intergenic
GGGTGAAGTGGTTGAAGATC+CGG 0.455522 4:-99369470 MsaT024429.1:CDS
CAGAATCCGGGTCGGATCAC+GGG 0.457628 4:+99369676 None:intergenic
AACATTCAATCACCCAAGAA+AGG 0.463244 4:+99369418 None:intergenic
TTCGGCGATGCGCACGTGGC+AGG 0.465958 4:-99370275 MsaT024429.1:CDS
CTTCCGTTCATGTCTCCTCC+TGG 0.466787 4:-99369895 MsaT024429.1:CDS
TCCGAAACCCACCCAACATC+CGG 0.467976 4:+99369451 None:intergenic
ATCAACGCAGTGCACACTCC+GGG 0.469752 4:+99369972 None:intergenic
GTTCATGTCTCCTCCTGGAT+CGG 0.471938 4:-99369890 MsaT024429.1:CDS
TCACACGGCGGAGCAACTTA+GGG 0.475617 4:-99370013 MsaT024429.1:CDS
ACTCCGATGACTCGGTCCTT+GGG 0.476813 4:-99369832 MsaT024429.1:CDS
GGAGTCTGGGAGAGATATAA+GGG 0.478478 4:-99369551 MsaT024429.1:CDS
ATTTGAACATTCCATGAAGA+AGG 0.481692 4:+99369730 None:intergenic
CGGCGGCGAGCTTTCTCGCC+GGG 0.483303 4:+99370219 None:intergenic
CGCAGGTGCCGAGTCGTGGT+AGG 0.483561 4:-99369633 MsaT024429.1:CDS
GGTCGGATCACGGGTCCTCT+GGG 0.485156 4:+99369685 None:intergenic
CGTCTTTACACGGCTGAGTA+CGG 0.485485 4:+99370070 None:intergenic
GACTCCACCCTCTCCATCAC+AGG 0.494303 4:+99369568 None:intergenic
TCTTCATGGAATGTTCAAAT+GGG 0.500081 4:-99369727 MsaT024429.1:CDS
CTCCGACTCAACAGAGTCCC+CGG 0.512371 4:-99369990 MsaT024429.1:CDS
TCGGTCCTTGGGAAGATCTG+TGG 0.513782 4:-99369821 MsaT024429.1:CDS
TCCACCGGAGAAACCGATCC+AGG 0.514556 4:+99369877 None:intergenic
TGGTTGAAGATCCGGATGTT+GGG 0.514839 4:-99369462 MsaT024429.1:CDS
ACAGAATCCGGGTCGGATCA+CGG 0.517668 4:+99369675 None:intergenic
TTCTAGCTCTGTGAATGAAA+TGG 0.520762 4:-99369797 MsaT024429.1:CDS
TCCTGGATCGGTTTCTCCGG+TGG 0.521510 4:-99369878 MsaT024429.1:CDS
ACGGCGGCGAGCTTTCTCGC+CGG 0.522012 4:+99370218 None:intergenic
TGATGGAGAGGGTGGAGTCT+GGG 0.525229 4:-99369564 MsaT024429.1:CDS
CGGTCCTTGGGAAGATCTGT+GGG 0.525368 4:-99369820 MsaT024429.1:CDS
TTGAAGATCCGGATGTTGGG+TGG 0.525953 4:-99369459 MsaT024429.1:CDS
CACGTGGCAGGTCACATGAC+TGG 0.526588 4:-99370263 MsaT024429.1:CDS
CTTCCCAAGGACCGAGTCAT+CGG 0.527368 4:+99369829 None:intergenic
AAAATCAGGACACGAAGTGC+CGG 0.531042 4:+99370173 None:intergenic
GCATGTTCGAGTTTAAGATT+CGG 0.531245 4:-99370293 MsaT024429.1:CDS
ACATTCAATCACCCAAGAAA+GGG 0.534836 4:+99369419 None:intergenic
CTCCGGGGACTCTGTTGAGT+CGG 0.537123 4:+99369988 None:intergenic
AAATGGGTTCTCCTAGATTC+GGG 0.537187 4:-99369711 MsaT024429.1:CDS
AGTTATACTTTCTCGGGTCA+CGG 0.538971 4:+99370199 None:intergenic
CCTGCGTAGGTGTCGTTGGT+AGG 0.548899 4:+99369650 None:intergenic
CAACTGGTTCCGTCTTTACA+CGG 0.558745 4:+99370060 None:intergenic
CGTACTCAGCCGTGTAAAGA+CGG 0.559308 4:-99370069 MsaT024429.1:CDS
TGAAGATCCGGATGTTGGGT+GGG 0.561336 4:-99369458 MsaT024429.1:CDS
CTCCGATTACTCCGATGACT+CGG 0.561730 4:-99369840 MsaT024429.1:CDS
GGGTTCAGGTTCGGGTGAAG+TGG 0.562356 4:-99369482 MsaT024429.1:CDS
GTGGTTGAAGATCCGGATGT+TGG 0.565014 4:-99369463 MsaT024429.1:CDS
AGGTGGTTCCCCTAACATCA+TGG 0.567452 4:+99370542 None:intergenic
GACTCAATAGCAAGCCTGAG+AGG 0.570639 4:+99369934 None:intergenic
AGAGCCTGTGATGGAGAGGG+TGG 0.580941 4:-99369572 MsaT024429.1:CDS
GTTGGATTTGTACGATGAGG+TGG 0.581590 4:+99370525 None:intergenic
TGGCCATGCTGGAACGTGTA+CGG 0.582344 4:+99370503 None:intergenic
AATCAACGCAGTGCACACTC+CGG 0.582408 4:+99369971 None:intergenic
TCTCTGAGAAACTTACAACT+TGG 0.583296 4:-99369769 MsaT024429.1:CDS
AGGAAGAGCCTGTGATGGAG+AGG 0.585551 4:-99369576 MsaT024429.1:CDS
GGCACCTGCGTAGGTGTCGT+TGG 0.587787 4:+99369646 None:intergenic
CACTGCGTTGATTCGTATGA+CGG 0.588289 4:-99369961 MsaT024429.1:CDS
CTGAGGATAATCGTCGTTGG+AGG 0.595113 4:+99370440 None:intergenic
CGACGACACCGATTCCGACT+CGG 0.598832 4:-99370367 MsaT024429.1:CDS
AGAGGACCCGTGATCCGACC+CGG 0.601883 4:-99369682 MsaT024429.1:CDS
GTTGGTAGGCTACAGAATCC+GGG 0.603145 4:+99369664 None:intergenic
TTGCGAGGAAGAGCCTGTGA+TGG 0.605419 4:-99369581 MsaT024429.1:CDS
TGATTAACCCTACCACGACT+CGG 0.606063 4:+99369625 None:intergenic
GCAGGTGCCGAGTCGTGGTA+GGG 0.610663 4:-99369632 MsaT024429.1:CDS
GAACTGAGGATAATCGTCGT+TGG 0.611416 4:+99370437 None:intergenic
CACCGCCGCCATGATGTTAG+GGG 0.612627 4:-99370550 None:intergenic
AAGACGGAACCAGTTGTCGC+CGG 0.615571 4:-99370053 MsaT024429.1:CDS
CCACGACTCGGCACCTGCGT+AGG 0.618584 4:+99369637 None:intergenic
AAGATTCGGCGATGCGCACG+TGG 0.619291 4:-99370279 MsaT024429.1:CDS
GAATCCACCGATTCATGACT+CGG 0.619620 4:+99370336 None:intergenic
TAGCTCTGTGAATGAAATGG+TGG 0.623336 4:-99369794 MsaT024429.1:CDS
CCGAGAAAGTATAACTACTC+CGG 0.623467 4:-99370192 MsaT024429.1:CDS
GGAAGAGCCTGTGATGGAGA+GGG 0.627453 4:-99369575 MsaT024429.1:CDS
GATTCGTGTGAGTTTGCGCA+TGG 0.630448 4:-99370126 MsaT024429.1:CDS
CCTACGCAGGTGCCGAGTCG+TGG 0.632046 4:-99369637 MsaT024429.1:CDS
ATCGGAGTAATCGGAGACAT+CGG 0.633731 4:+99369847 None:intergenic
GGCTGAGTACGGTAACGAGA+AGG 0.636999 4:+99370081 None:intergenic
GCCAACAATGAACAATCCAA+CGG 0.640124 4:-99370484 MsaT024429.1:CDS
GGAGTAATCGGAGACATCGG+AGG 0.641390 4:+99369850 None:intergenic
TGGCAGGTCACATGACTGGA+CGG 0.644811 4:-99370259 MsaT024429.1:CDS
CAACCGTACACGTTCCAGCA+TGG 0.649929 4:-99370506 MsaT024429.1:CDS
CATGCTGGAACGTGTACGGT+TGG 0.652730 4:+99370507 None:intergenic
TCAACGCAGTGCACACTCCG+GGG 0.673364 4:+99369973 None:intergenic
GACATCGGAGGAGACTCCAC+CGG 0.675579 4:+99369862 None:intergenic
CCTAGATTCGGGTCTCCCAG+AGG 0.678542 4:-99369700 MsaT024429.1:CDS
GATCCAGGAGGAGACATGAA+CGG 0.679198 4:+99369892 None:intergenic
GAATCTTAAACTCGAACATG+CGG 0.686731 4:+99370295 None:intergenic
GCTTCTTGCATGTAGAACTG+AGG 0.687997 4:+99370423 None:intergenic
AACAATGAACAATCCAACGG+CGG 0.692559 4:-99370481 MsaT024429.1:CDS
ACCGGAGAAACCGATCCAGG+AGG 0.697000 4:+99369880 None:intergenic
GTAGGCTACAGAATCCGGGT+CGG 0.700260 4:+99369668 None:intergenic
AGAACCCACAGATCTTCCCA+AGG 0.706781 4:+99369816 None:intergenic
ACGGTTGGATTTGTACGATG+AGG 0.707900 4:+99370522 None:intergenic
CCTACCAACGACACCTACGC+AGG 0.710974 4:-99369650 MsaT024429.1:CDS
TCTTTGGGATCAGTGTTGCG+AGG 0.716443 4:-99369596 MsaT024429.1:CDS
TATACTTTCTCGGGTCACGG+CGG 0.737764 4:+99370202 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 99369423 99370562 99369423 ID=MsaG024429
Chr4 mRNA 99369423 99370562 99369423 ID=MsaT024429.1;Parent=MsaG024429
Chr4 exon 99369423 99370562 99369423 ID=MsaT024429.1.exon1;Parent=MsaT024429.1
Chr4 CDS 99369423 99370562 99369423 ID=cds.MsaT024429.1;Parent=MsaT024429.1
Gene Sequence

>MsaT024429.1

ATGATGTTAGGGGAACCACCTCATCGTACAAATCCAACCGTACACGTTCCAGCATGGCCAACAATGAACAATCCAACGGCGGAGATTTTTTCACCTTTAACCTCCAACGACGATTATCCTCAGTTCTACATGCAAGAAGCACTAAGCGCTTTCCAACACTATGTTAACGAAAACGACGACACCGATTCCGACTCGGAGATTTTTCCGAGTCATGAATCGGTGGATTCGTATTCTAACGATCATTTCCGCATGTTCGAGTTTAAGATTCGGCGATGCGCACGTGGCAGGTCACATGACTGGACGGAGTGTCCTTTTTCTCATCCCGGCGAGAAAGCTCGCCGCCGTGACCCGAGAAAGTATAACTACTCCGGCACTTCGTGTCCTGATTTTCGTAAAGGAAGTTGCAAGAAAGGTGATTCGTGTGAGTTTGCGCATGGTGTGTTCGAGTGCTGGCTTCATCCTTCTCGTTACCGTACTCAGCCGTGTAAAGACGGAACCAGTTGTCGCCGGCCAGTTTGTTTTTTCGCTCACACGGCGGAGCAACTTAGGGCTCCGACTCAACAGAGTCCCCGGAGTGTGCACTGCGTTGATTCGTATGACGGTTCTCCTCTCAGGCTTGCTATTGAGTCTTCCTGTGTGAAAACTCTTCCGTTCATGTCTCCTCCTGGATCGGTTTCTCCGGTGGAGTCTCCTCCGATGTCTCCGATTACTCCGATGACTCGGTCCTTGGGAAGATCTGTGGGTTCTAGCTCTGTGAATGAAATGGTGGCTTCTCTGAGAAACTTACAACTTGGTACCATGAAGTCATTACCTTCTTCATGGAATGTTCAAATGGGTTCTCCTAGATTCGGGTCTCCCAGAGGACCCGTGATCCGACCCGGATTCTGTAGCCTACCAACGACACCTACGCAGGTGCCGAGTCGTGGTAGGGTTAATCATTTTGATCTTTGGGATCAGTGTTGCGAGGAAGAGCCTGTGATGGAGAGGGTGGAGTCTGGGAGAGATATAAGGGTGAAGATGTTTGAGAAACTGAGCAAAGAGAACTCTTTTAATGGATCGGGTTCAGGTTCGGGTGAAGTGGTTGAAGATCCGGATGTTGGGTGGGTTTCGGAGCTGGTGAGCCCTTTCTTGGGTGATTGA

Protein sequence

>MsaT024429.1

MMLGEPPHRTNPTVHVPAWPTMNNPTAEIFSPLTSNDDYPQFYMQEALSAFQHYVNENDDTDSDSEIFPSHESVDSYSNDHFRMFEFKIRRCARGRSHDWTECPFSHPGEKARRRDPRKYNYSGTSCPDFRKGSCKKGDSCEFAHGVFECWLHPSRYRTQPCKDGTSCRRPVCFFAHTAEQLRAPTQQSPRSVHCVDSYDGSPLRLAIESSCVKTLPFMSPPGSVSPVESPPMSPITPMTRSLGRSVGSSSVNEMVASLRNLQLGTMKSLPSSWNVQMGSPRFGSPRGPVIRPGFCSLPTTPTQVPSRGRVNHFDLWDQCCEEEPVMERVESGRDIRVKMFEKLSKENSFNGSGSGSGEVVEDPDVGWVSELVSPFLGD*