AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013112

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013112 MtrunA17_Chr3g0092171 86.164 477 44 2 1 477 52 506 0.0 835
MsaG013112 MtrunA17_Chr3g0088521 64.646 495 106 5 1 426 1 495 0.0 563
MsaG013112 MtrunA17_Chr3g0088521 74.510 51 12 1 427 476 631 681 2.19e-17 85.1
MsaG013112 MtrunA17_Chr3g0092221 61.358 427 93 9 88 477 12 403 1.37e-166 475
MsaG013112 MtrunA17_Chr7g0257831 58.629 394 139 7 26 399 33 422 7.88e-142 424
MsaG013112 MtrunA17_Chr7g0257831 42.391 92 48 2 390 476 584 675 1.78e-13 72.8
MsaG013112 MtrunA17_Chr1g0171151 46.855 461 172 8 24 420 15 466 2.44e-131 393
MsaG013112 MtrunA17_Chr5g0437251 48.923 325 145 3 38 361 28 332 1.99e-101 318
MsaG013112 MtrunA17_Chr1g0187591 48.308 325 158 3 37 361 30 344 1.27e-92 294
MsaG013112 MtrunA17_Chr5g0430211 42.643 401 197 7 1 393 1 376 1.67e-91 293
MsaG013112 MtrunA17_Chr3g0113651 44.375 320 125 2 38 357 8 274 5.90e-87 276
MsaG013112 MtrunA17_Chr3g0105131 37.500 360 167 4 42 400 19 321 7.39e-64 215
MsaG013112 MtrunA17_Chr3g0105101 37.805 328 137 5 26 353 11 271 1.42e-60 203
MsaG013112 MtrunA17_Chr3g0105141 61.832 131 49 1 225 354 15 145 6.68e-52 173
MsaG013112 MtrunA17_Chr8g0389561 48.485 165 78 2 242 399 77 241 1.02e-47 169
MsaG013112 MtrunA17_Chr6g0487481 64.486 107 38 0 242 348 99 205 7.25e-47 166
MsaG013112 MtrunA17_Chr3g0135351 52.482 141 64 3 236 373 43 183 7.97e-46 160
MsaG013112 MtrunA17_Chr2g0324781 62.136 103 39 0 246 348 77 179 1.59e-41 153
MsaG013112 MtrunA17_Chr4g0040391 47.482 139 67 2 216 348 24 162 2.02e-41 150
MsaG013112 MtrunA17_Chr3g0105121 46.405 153 68 4 245 396 8 147 2.52e-36 137
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013112 AT2G41900.1 54.822 394 152 7 25 405 33 413 1.66e-132 400
MsaG013112 AT5G12850.1 49.065 428 173 10 1 398 1 413 7.38e-120 367
MsaG013112 AT3G55980.1 45.330 364 160 6 40 399 30 358 2.46e-99 310
MsaG013112 AT3G55980.2 45.330 364 160 6 40 399 97 425 1.63e-98 310
MsaG013112 AT2G40140.2 42.227 431 199 12 1 425 1 387 3.49e-98 307
MsaG013112 AT2G40140.1 42.227 431 199 12 1 425 1 387 3.49e-98 307
MsaG013112 AT5G58620.1 47.561 328 155 6 37 361 11 324 4.28e-96 302
MsaG013112 AT5G07500.1 60.938 128 50 0 228 355 34 161 6.02e-52 176
MsaG013112 AT2G25900.2 62.617 107 40 0 242 348 86 192 8.85e-47 165
MsaG013112 AT2G25900.1 62.617 107 40 0 242 348 86 192 8.85e-47 165
MsaG013112 AT4G29190.1 47.191 178 86 3 220 397 54 223 5.85e-45 161
MsaG013112 AT2G19810.1 58.475 118 49 0 231 348 63 180 8.63e-44 158
MsaG013112 AT1G03790.1 52.740 146 61 3 224 365 64 205 5.99e-43 156
MsaG013112 AT5G44260.1 56.349 126 50 2 224 348 42 163 2.25e-41 152

Find 108 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGGATGCTGCCACCATTAA+AGG 0.199663 3:+41035933 None:intergenic
CAGCTGTAGGTGAACTTTCT+AGG 0.217092 3:+41035345 None:intergenic
ACCAAAGTCATTTCCATTTA+CGG 0.262627 3:+41034861 None:intergenic
AAACCTGATTGGTCCGTAAA+TGG 0.274186 3:-41034874 MsaT013112.1:CDS
TGAGGACAGAACCCCTTTAA+TGG 0.277229 3:-41035946 MsaT013112.1:CDS
ATTTCAACTTCATCTGCTTT+AGG 0.286929 3:-41036158 MsaT013112.1:CDS
TATATGCTGTTTCTTATATC+AGG 0.287473 3:+41035486 None:intergenic
TTCTGTCCTCAAGAACAATT+TGG 0.297818 3:+41035958 None:intergenic
TTCTCTTGAGGATGGTAAAA+AGG 0.304059 3:+41035384 None:intergenic
CAATCCCTATTTCTAAAATC+AGG 0.312228 3:+41035312 None:intergenic
TTTCTTATATCAGGAATTGA+TGG 0.344070 3:+41035495 None:intergenic
TATGCAAATGGCCTCTTTGA+TGG 0.382359 3:-41035006 MsaT013112.1:CDS
TCAGGAATTGATGGATCAAT+TGG 0.382999 3:+41035504 None:intergenic
CTGTTTCTCACAGCCCCGTC+CGG 0.385820 3:-41034956 MsaT013112.1:CDS
AGATGAATTTCGCATGTATT+CGG 0.386064 3:-41035457 MsaT013112.1:CDS
AGCAGATGCAGCTGATCTAA+TGG 0.394681 3:+41035131 None:intergenic
GTGAAGAGCCTGATATATCT+TGG 0.396118 3:-41034798 MsaT013112.1:CDS
CGCTGAAATGGTACCCGGAC+GGG 0.398231 3:+41034942 None:intergenic
TTTCCATTTACGGACCAATC+AGG 0.419002 3:+41034871 None:intergenic
TTCACGACTTCGAGCTTATG+AGG 0.425127 3:+41035687 None:intergenic
TCCGCTATCATCGTGTGAAA+AGG 0.428404 3:-41035601 MsaT013112.1:CDS
ATACTTTCATCTTCAGAGGC+TGG 0.429494 3:-41035885 MsaT013112.1:CDS
CCGCTATCATCGTGTGAAAA+GGG 0.432211 3:-41035600 MsaT013112.1:CDS
GATTGAACCCAAGATATATC+AGG 0.433709 3:+41034790 None:intergenic
ATCTATTGTGTGGATGCTAA+TGG 0.442376 3:-41035750 MsaT013112.1:CDS
AGGATGCTGCCACCATTAAA+GGG 0.443121 3:+41035934 None:intergenic
GTTGATGAGTGTGTTGATGA+TGG 0.444358 3:-41035630 MsaT013112.1:CDS
AACAGACCGACTCGCTGAAA+TGG 0.452079 3:+41034930 None:intergenic
GCAGCCATGTCCATGACAAT+AGG 0.459445 3:+41035108 None:intergenic
TTTGGTTATGTCCATCTTGT+CGG 0.464054 3:+41035976 None:intergenic
TCAAAGAGGCCATTTGCATA+TGG 0.466579 3:+41035009 None:intergenic
CTCATGGAGTGTTCGAGACC+TGG 0.475798 3:-41035263 MsaT013112.1:CDS
AGCTTATGAGGAACAACAAT+CGG 0.476457 3:+41035699 None:intergenic
ATCGTGCATACACTCATGAT+TGG 0.479539 3:-41035416 MsaT013112.1:CDS
CGCACAAGGCTTTGCAAAGA+GGG 0.485398 3:-41035222 MsaT013112.1:CDS
ACAGCTGTGTCGGTCAACTT+TGG 0.487802 3:+41035555 None:intergenic
CGAGTCGGTCTGTTAACTCC+TGG 0.488464 3:-41034921 MsaT013112.1:CDS
GGAGACAAAGGCTGTGCAAA+AGG 0.491457 3:+41035030 None:intergenic
TGTTAACTCCTGGTCTAAGT+GGG 0.494253 3:-41034911 MsaT013112.1:CDS
ATTGTTTCCATGCTCAAAAG+AGG 0.495896 3:+41034822 None:intergenic
CTTGTACTGGTAAACCTGAT+TGG 0.506880 3:-41034885 MsaT013112.1:CDS
GCTGAAATGGTACCCGGACG+GGG 0.511812 3:+41034943 None:intergenic
AGCCTTGTGCGATATTGATC+TGG 0.512029 3:+41035234 None:intergenic
GTAAATGGAAATGACTTTGG+TGG 0.514694 3:-41034859 MsaT013112.1:CDS
CCTTTGTCTCCATATGCAAA+TGG 0.514793 3:-41035018 MsaT013112.1:CDS
CTCCTTCGAGCATTCTCTTG+AGG 0.516869 3:+41035372 None:intergenic
TGTTAGATGAAGTCGACGCC+TGG 0.517367 3:-41036004 MsaT013112.1:CDS
TGTTTCTCACAGCCCCGTCC+GGG 0.517747 3:-41034955 MsaT013112.1:CDS
TGAAGAGCCTGATATATCTT+GGG 0.518053 3:-41034797 MsaT013112.1:CDS
TCAACTTCATCTGCTTTAGG+AGG 0.524656 3:-41036155 MsaT013112.1:CDS
CTGTTAACTCCTGGTCTAAG+TGG 0.524678 3:-41034912 MsaT013112.1:CDS
TTTGGAGCCACAGGAGAGGA+TGG 0.530352 3:+41035573 None:intergenic
TCGGTCAACTTTGGAGCCAC+AGG 0.537287 3:+41035564 None:intergenic
GCCTGGTGTGTCCGACAAGA+TGG 0.539313 3:-41035987 MsaT013112.1:CDS
AGCTGTAGGTGAACTTTCTA+GGG 0.540690 3:+41035346 None:intergenic
TCTAAGTGGGGATCTTGTAC+TGG 0.543389 3:-41034898 MsaT013112.1:CDS
GCTTATACTTTCATCTTCAG+AGG 0.545789 3:-41035889 MsaT013112.1:CDS
TAGAATATCAATACTCCCAC+AGG 0.547853 3:+41035914 None:intergenic
GGATACATTGAAGAGATTGC+TGG 0.550323 3:+41035057 None:intergenic
TTAATGGTGGCAGCATCCTG+TGG 0.552985 3:-41035930 MsaT013112.1:CDS
TGCTCCTATTGTCATGGACA+TGG 0.553647 3:-41035112 MsaT013112.1:CDS
AATCCCTATTTCTAAAATCA+GGG 0.554324 3:+41035313 None:intergenic
CTGTGCTGCATCGAGTGGTA+CGG 0.559232 3:-41035820 MsaT013112.1:CDS
TTCGAGCATTCTCTTGAGGA+TGG 0.565095 3:+41035376 None:intergenic
TCCGTAAATGGAAATGACTT+TGG 0.566125 3:-41034862 MsaT013112.1:CDS
GGAAGAACAGTAACATCCAC+TGG 0.567538 3:+41035720 None:intergenic
AAAGGCTGTGCAAAAGGTGA+TGG 0.567762 3:+41035036 None:intergenic
ATATTGATCTGGATGTAGCC+AGG 0.570778 3:+41035245 None:intergenic
GAAATAGGGATTGCATACGC+GGG 0.577845 3:-41035302 MsaT013112.1:CDS
TAATGGTGGCAGCATCCTGT+GGG 0.581131 3:-41035929 MsaT013112.1:CDS
TGCATCTGCTCCTATTGTCA+TGG 0.581920 3:-41035118 MsaT013112.1:CDS
ACATAACCAAATTGTTCTTG+AGG 0.582470 3:-41035964 MsaT013112.1:CDS
CGGGTACCATTTCAGCGAGT+CGG 0.585084 3:-41034936 MsaT013112.1:CDS
AGGGCATGGCACACAGCTGT+AGG 0.585274 3:+41035332 None:intergenic
CCATTTGCATATGGAGACAA+AGG 0.585382 3:+41035018 None:intergenic
TCCATCTTGTCGGACACACC+AGG 0.585653 3:+41035986 None:intergenic
ATTTCGCATGTATTCGGTCA+AGG 0.587008 3:-41035451 MsaT013112.1:CDS
AGAAATAGGGATTGCATACG+CGG 0.589005 3:-41035303 MsaT013112.1:CDS
CGCTATCATCGTGTGAAAAG+GGG 0.590752 3:-41035599 MsaT013112.1:CDS
GGGGTCTCCATCCTCTCCTG+TGG 0.592440 3:-41035580 MsaT013112.1:CDS
GATCTAATGGAAGCATGCGA+TGG 0.592544 3:+41035144 None:intergenic
GATATGTGTGAATATGCTCA+TGG 0.598080 3:-41035279 MsaT013112.1:CDS
TCGCTGAAATGGTACCCGGA+CGG 0.607867 3:+41034941 None:intergenic
CGACTCGCTGAAATGGTACC+CGG 0.610348 3:+41034937 None:intergenic
ACAAGATCCCCACTTAGACC+AGG 0.621775 3:+41034903 None:intergenic
CTATTTCTAAAATCAGGGCA+TGG 0.621950 3:+41035318 None:intergenic
GTTAACTCCTGGTCTAAGTG+GGG 0.631889 3:-41034910 MsaT013112.1:CDS
CTTCACTGTGCTGCATCGAG+TGG 0.634753 3:-41035825 MsaT013112.1:CDS
GCTAATTGAAGGATGTGCGG+TGG 0.634780 3:-41036200 None:intergenic
TGCAGCACAGTGAAGAGCAG+TGG 0.639457 3:+41035833 None:intergenic
GGGTACTAGTTGTAACCGAA+AGG 0.639928 3:-41035202 MsaT013112.1:CDS
CAACTTTGGAGCCACAGGAG+AGG 0.645047 3:+41035569 None:intergenic
TCGCACAAGGCTTTGCAAAG+AGG 0.646525 3:-41035223 MsaT013112.1:CDS
TGTAGAACTAACAGCTGTGT+CGG 0.651255 3:+41035545 None:intergenic
TGTATGCACGATGACAAAGA+AGG 0.653054 3:+41035427 None:intergenic
GAACAGTAACATCCACTGGA+CGG 0.655199 3:+41035724 None:intergenic
GGATGCTGCCACCATTAAAG+GGG 0.660725 3:+41035935 None:intergenic
TGCTAATGGAAACCGTCCAG+TGG 0.661772 3:-41035736 MsaT013112.1:CDS
ATCCTCAAGAGAATGCTCGA+AGG 0.663580 3:-41035374 MsaT013112.1:CDS
ATCCAGATCAATATCGCACA+AGG 0.666119 3:-41035236 MsaT013112.1:CDS
GGACAGAACCCCTTTAATGG+TGG 0.666276 3:-41035943 MsaT013112.1:CDS
TGGTGCTGACATCTATTGTG+TGG 0.667410 3:-41035760 MsaT013112.1:CDS
AAATAGGGATTGCATACGCG+GGG 0.674949 3:-41035301 MsaT013112.1:CDS
TGTGCTGCTGACCATCAAAG+AGG 0.681128 3:+41034995 None:intergenic
TCAGCTAATTGAAGGATGTG+CGG 0.686760 3:-41036203 None:intergenic
ATACATGCGAAATTCATCTG+TGG 0.693580 3:+41035461 None:intergenic
GCTGCAACGAGCATTTATCG+TGG 0.710054 3:-41035087 MsaT013112.1:CDS
GTCGACTTCATCTAACAGTG+AGG 0.736761 3:+41036010 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 41034777 41036210 41034777 ID=MsaG013112
Chr3 mRNA 41034777 41036210 41034777 ID=MsaT013112.1;Parent=MsaG013112
Chr3 exon 41034777 41036210 41034777 ID=MsaT013112.1.exon1;Parent=MsaT013112.1
Chr3 CDS 41034777 41036210 41034777 ID=cds.MsaT013112.1;Parent=MsaT013112.1
Gene Sequence

>MsaT013112.1

ATGTGCGGTGGACTTGAAAAATCAACATGTATTTCAACTTCATCTGCTTTAGGAGGTTCAGATATCGTCAAAGACATGAAAAATCTAACTGTTAGTACAAATGATTCTTTGTCAAGCTTACTTGAACATGCTTCTAAGAATGATTTTGAACAATTTAAGGTAGTTTTAGATAGTGATGCCTCACTGTTAGATGAAGTCGACGCCTGGTGTGTCCGACAAGATGGACATAACCAAATTGTTCTTGAGGACAGAACCCCTTTAATGGTGGCAGCATCCTGTGGGAGTATTGATATTCTAAAGCTTATACTTTCATCTTCAGAGGCTGGTGTAAATTTTTCGTGTGGAACTGATAAAACCACTGCTCTTCACTGTGCTGCATCGAGTGGTACGGTTAATGTTGTCGATGCTGTAAAACTGCTTTTATCAGCTGGTGCTGACATCTATTGTGTGGATGCTAATGGAAACCGTCCAGTGGATGTTACTGTTCTTCCGATTGTTGTTCCTCATAAGCTCGAAGTCGTGAAAAGTAGTCTTGAACAACTTCTTTCAAATAGTGCTGTTGATGAGTGTGTTGATGATGGTTTGCTTCCGCTATCATCGTGTGAAAAGGGGTCTCCATCCTCTCCTGTGGCTCCAAAGTTGACCGACACAGCTGTTAGTTCTACACCAGAAAAGAAAAAATATCCAATTGATCCATCAATTCCTGATATAAGAAACAGCATATACGCCACAGATGAATTTCGCATGTATTCGGTCAAGGTCCTTCTTTGTCATCGTGCATACACTCATGATTGGACCGAGTGTCCTTTTTACCATCCTCAAGAGAATGCTCGAAGGAGAGACCCTAGAAAGTTCACCTACAGCTGTGTGCCATGCCCTGATTTTAGAAATAGGGATTGCATACGCGGGGATATGTGTGAATATGCTCATGGAGTGTTCGAGACCTGGCTACATCCAGATCAATATCGCACAAGGCTTTGCAAAGAGGGTACTAGTTGTAACCGAAAGGTGTGCTTTTTTGCACATGTTGCTGAAGAGCTGCGTCCATCGCATGCTTCCATTAGATCAGCTGCATCTGCTCCTATTGTCATGGACATGGCTGCTGCAACGAGCATTTATCGTGGTTCACTACCAGCAATCTCTTCAATGTATCCATCACCTTTTGCACAGCCTTTGTCTCCATATGCAAATGGCCTCTTTGATGGTCAGCAGCACATGCTAAATGACTTGAGCTGTTTCTCACAGCCCCGTCCGGGTACCATTTCAGCGAGTCGGTCTGTTAACTCCTGGTCTAAGTGGGGATCTTGTACTGGTAAACCTGATTGGTCCGTAAATGGAAATGACTTTGGTGGATTGCAAAGATATACCTCTTTTGAGCATGGAAACAATGGTGAAGAGCCTGATATATCTTGGGTTCAATCTGTACTCAACTAA
Protein sequence

>MsaT013112.1

MCGGLEKSTCISTSSALGGSDIVKDMKNLTVSTNDSLSSLLEHASKNDFEQFKVVLDSDASLLDEVDAWCVRQDGHNQIVLEDRTPLMVAASCGSIDILKLILSSSEAGVNFSCGTDKTTALHCAASSGTVNVVDAVKLLLSAGADIYCVDANGNRPVDVTVLPIVVPHKLEVVKSSLEQLLSNSAVDECVDDGLLPLSSCEKGSPSSPVAPKLTDTAVSSTPEKKKYPIDPSIPDIRNSIYATDEFRMYSVKVLLCHRAYTHDWTECPFYHPQENARRRDPRKFTYSCVPCPDFRNRDCIRGDMCEYAHGVFETWLHPDQYRTRLCKEGTSCNRKVCFFAHVAEELRPSHASIRSAASAPIVMDMAAATSIYRGSLPAISSMYPSPFAQPLSPYANGLFDGQQHMLNDLSCFSQPRPGTISASRSVNSWSKWGSCTGKPDWSVNGNDFGGLQRYTSFEHGNNGEEPDISWVQSVLN*