AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024218

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024218 MtrunA17_Chr8g0387141 67.337 597 130 7 1 533 1 596 0.0 756
MsaG024218 MtrunA17_Chr1g0186281 67.802 587 119 8 1 526 1 578 0.0 742
MsaG024218 MtrunA17_Chr1g0186261 66.553 589 126 8 1 526 1 581 0.0 733
MsaG024218 MtrunA17_Chr1g0186191 62.989 562 111 9 32 526 57 588 0.0 649
MsaG024218 MtrunA17_Chr8g0387161 74.333 300 61 4 247 533 1 297 1.50e-151 435
MsaG024218 MtrunA17_Chr8g0387181 68.125 320 78 6 1 301 1 315 1.95e-128 388
MsaG024218 MtrunA17_Chr8g0387181 73.333 255 62 2 279 533 380 628 9.74e-125 379
MsaG024218 MtrunA17_Chr6g0479271 64.360 289 61 4 178 425 7 294 1.43e-110 332
MsaG024218 MtrunA17_Chr6g0479271 91.892 37 3 0 497 533 292 328 5.54e-15 76.3
MsaG024218 MtrunA17_Chr7g0248041 35.825 388 200 9 183 521 191 578 1.94e-60 209
MsaG024218 MtrunA17_Chr7g0248041 57.377 61 26 0 63 123 1 61 5.43e-12 68.6
MsaG024218 MtrunA17_Chr6g0453251 67.460 126 37 1 1 122 1 126 1.13e-48 164
MsaG024218 MtrunA17_Chr8g0348691 46.524 187 95 4 330 512 76 261 3.43e-48 167
MsaG024218 MtrunA17_Chr5g0420461 61.053 95 18 1 333 427 90 165 8.36e-30 115
MsaG024218 MtrunA17_Chr5g0420461 91.892 37 3 0 497 533 161 197 4.17e-16 77.0
MsaG024218 MtrunA17_Chr7g0241681 38.012 171 98 2 329 493 193 361 1.25e-28 117
MsaG024218 MtrunA17_Chr3g0086341 38.378 185 101 5 325 498 144 326 5.78e-25 108
MsaG024218 MtrunA17_Chr7g0241661 30.601 183 119 3 319 495 175 355 2.34e-19 89.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024218 AT4G11400.2 31.349 571 293 16 37 532 27 573 1.35e-73 244
MsaG024218 AT4G11400.1 31.349 571 293 16 37 532 27 573 1.35e-73 244
MsaG024218 AT2G46040.2 35.959 292 153 9 238 499 258 545 8.52e-42 158
MsaG024218 AT2G46040.2 39.130 92 56 0 38 129 61 152 3.43e-11 66.2
MsaG024218 AT2G46040.3 35.959 292 153 9 238 499 244 531 9.23e-42 158
MsaG024218 AT2G46040.3 39.130 92 56 0 38 129 47 138 3.11e-11 66.2
MsaG024218 AT2G46040.1 35.959 292 153 9 238 499 244 531 9.23e-42 158
MsaG024218 AT2G46040.1 39.130 92 56 0 38 129 47 138 3.11e-11 66.2
MsaG024218 AT5G04110.1 38.509 161 87 4 330 479 361 520 4.76e-26 112
MsaG024218 AT5G04110.3 38.509 161 87 4 330 479 361 520 4.76e-26 112
MsaG024218 AT5G04110.2 38.509 161 87 4 330 479 362 521 5.01e-26 112
MsaG024218 AT1G13880.2 34.031 191 106 6 321 498 129 312 3.82e-20 93.6
MsaG024218 AT1G13880.3 34.031 191 106 6 321 498 120 303 4.01e-20 93.2
MsaG024218 AT1G13880.1 34.031 191 106 6 321 498 119 302 4.33e-20 93.2
MsaG024218 AT5G04110.4 37.241 145 79 4 330 463 361 504 2.24e-19 91.7
MsaG024218 AT2G03470.1 34.783 184 113 4 328 504 121 304 2.72e-19 90.9
MsaG024218 AT2G03470.2 34.783 184 113 4 328 504 120 303 2.73e-19 90.9
MsaG024218 AT1G26580.3 28.571 210 130 4 323 514 62 269 1.83e-18 88.2
MsaG024218 AT1G26580.2 28.571 210 130 4 323 514 128 335 2.77e-18 88.2
MsaG024218 AT1G26580.1 28.571 210 130 4 323 514 128 335 2.77e-18 88.2

Find 109 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACCATCACCGTTAAAATTT+TGG 0.110531 4:+97051390 None:intergenic
CACCCTCACATTTGTTGTTT+TGG 0.143855 4:+97051414 None:intergenic
TTCATTCTCGCAAACGTAAA+AGG 0.167837 4:-97051304 MsaT024218.1:CDS
CCATTGGGGATTTGATAAAA+TGG 0.180493 4:-97049020 MsaT024218.1:CDS
GATCATTTGGTGATGGTTTC+GGG 0.181909 4:-97048757 MsaT024218.1:CDS
TGTCTTCCTTTGAAAGTATA+TGG 0.190078 4:+97048892 None:intergenic
TTCTCCCTTGTGAAGGAAAA+AGG 0.214256 4:-97051779 MsaT024218.1:CDS
CAAGAGTGATGGTAATTTAT+TGG 0.225995 4:-97051447 MsaT024218.1:CDS
GGATCATTTGGTGATGGTTT+CGG 0.238389 4:-97048758 MsaT024218.1:CDS
TGATGAAGAAAAGAGATTTA+AGG 0.278264 4:-97048969 MsaT024218.1:CDS
ACAAGATCTGTTTCAGTTGT+AGG 0.281094 4:+97049160 None:intergenic
GGGTTTGGACCTTAATGTTT+TGG 0.293428 4:-97051702 MsaT024218.1:CDS
CATAATTAAGCACATTGATT+TGG 0.300440 4:-97051477 MsaT024218.1:CDS
GACCAAACTGAAGTTTGAAT+TGG 0.302122 4:-97049056 MsaT024218.1:CDS
GGACTCTGTGATAGTTGATC+TGG 0.306502 4:-97051723 MsaT024218.1:CDS
GCCTCCATCTATCGATTTCA+TGG 0.336690 4:-97048720 MsaT024218.1:CDS
GATTTGAGAATGAGAGGCTT+TGG 0.343884 4:+97051543 None:intergenic
CAGATTTGATTAAGCCATCT+TGG 0.345613 4:-97049321 MsaT024218.1:CDS
TCACTGAAGCCAAAACATTA+AGG 0.361658 4:+97051693 None:intergenic
CATTATCGGAAATGATAAAC+TGG 0.368928 4:-97051277 MsaT024218.1:CDS
CAAGAGGAGAATTGTATTAG+AGG 0.371040 4:-97051863 MsaT024218.1:CDS
GACTATGAGGAAGTTGAGTT+TGG 0.371247 4:-97048779 MsaT024218.1:CDS
AATGGTTAGGCACACAAGTA+TGG 0.372435 4:-97049204 MsaT024218.1:CDS
TACTTGTGTGCCTAACCATT+TGG 0.380699 4:+97049207 None:intergenic
CTCTAATACAATTCTCCTCT+TGG 0.380788 4:+97051864 None:intergenic
TTTACTAAATTTCATGCAAA+TGG 0.388491 4:-97051962 MsaT024218.1:CDS
GAAGTTGAGTTTGGATCATT+TGG 0.390652 4:-97048770 MsaT024218.1:CDS
TTTGATGATGACCCATTGTT+TGG 0.394625 4:+97051140 None:intergenic
TCTGCAGAAACGACGGCATC+TGG 0.402636 4:+97049340 None:intergenic
ACCCAATTCAAACTTCAGTT+TGG 0.406126 4:+97049054 None:intergenic
TGTGATAGTTGATCTGGGTT+TGG 0.407331 4:-97051717 MsaT024218.1:CDS
TTATACTCCTCAGGATCAAA+TGG 0.411508 4:+97051233 None:intergenic
CATTGGGGATTTGATAAAAT+GGG 0.415280 4:-97049019 MsaT024218.1:CDS
CCTTCACAAGGGAGAAAAGT+TGG 0.420577 4:+97051786 None:intergenic
AAACTACACCAGTCCATTGC+GGG 0.425596 4:+97049242 None:intergenic
ACGTAAAAGGGAATCATTAT+CGG 0.428409 4:-97051291 MsaT024218.1:CDS
TGAGGATCAGCACTATCAAC+AGG 0.430312 4:+97051920 None:intergenic
AAGGAAGACAAGAAAAGATA+TGG 0.433242 4:-97048879 MsaT024218.1:CDS
ATGTGCTTAATTATGTTACT+TGG 0.435716 4:+97051485 None:intergenic
TTCCTTTGAAAGTATATGGA+TGG 0.441539 4:+97048896 None:intergenic
TTTGATCCTGAGGAGTATAA+AGG 0.444102 4:-97051230 MsaT024218.1:CDS
ACCAAACTGAAGTTTGAATT+GGG 0.446444 4:-97049055 MsaT024218.1:CDS
AGATTTGATTAAGCCATCTT+GGG 0.447011 4:-97049320 MsaT024218.1:CDS
GACTTCATATTGCTGCAAAC+AGG 0.450773 4:-97049078 MsaT024218.1:CDS
ACACCGAGCATCACCGGCTC+AGG 0.456593 4:+97051830 None:intergenic
CAGCCTCCTTTATACTCCTC+AGG 0.457410 4:+97051224 None:intergenic
CAACTGAAACAGATCTTGTT+GGG 0.465328 4:-97049156 MsaT024218.1:CDS
AGTCACTAGTTCATGGCAAA+CGG 0.465489 4:-97052016 None:intergenic
CCTCTCATTCTCAAATCTAA+AGG 0.469105 4:-97051537 MsaT024218.1:CDS
ACAACTGAAACAGATCTTGT+TGG 0.471432 4:-97049157 MsaT024218.1:CDS
CACTCCATGAAATCGATAGA+TGG 0.471675 4:+97048716 None:intergenic
TCATTCTCGCAAACGTAAAA+GGG 0.477895 4:-97051303 MsaT024218.1:CDS
CTGAGGAGTATAAAGGAGGC+TGG 0.479138 4:-97051223 MsaT024218.1:CDS
CGTGAAAAGCTTGTTTCTGT+AGG 0.481232 4:-97049286 MsaT024218.1:CDS
GCGGAAGTCCCGCAATGGAC+TGG 0.484951 4:-97049250 MsaT024218.1:CDS
CAGTATCGAGAAAAGGGTTG+TGG 0.485102 4:-97051745 MsaT024218.1:CDS
TCCATTGCGGGACTTCCGCT+TGG 0.488954 4:+97049254 None:intergenic
GACTCTGTGATAGTTGATCT+GGG 0.491869 4:-97051722 MsaT024218.1:CDS
GTCACTAGTTCATGGCAAAC+GGG 0.491931 4:-97052015 None:intergenic
AGGCCTGAGCCGGTGATGCT+CGG 0.501839 4:-97051833 MsaT024218.1:CDS
TATGCTGCAGTATCGAGAAA+AGG 0.502280 4:-97051752 MsaT024218.1:CDS
TTTATGAGAGGGACTCCAAA+TGG 0.506102 4:-97049222 MsaT024218.1:CDS
GAGAGGGACTCCAAATGGTT+AGG 0.506452 4:-97049217 MsaT024218.1:CDS
TCCTTTGAAAGTATATGGAT+GGG 0.510514 4:+97048897 None:intergenic
AAGAGATTTAAGGATGCGAT+GGG 0.512153 4:-97048959 MsaT024218.1:CDS
GACTGTTGACAGCGACTATG+AGG 0.512319 4:-97048792 MsaT024218.1:CDS
GCGAAGAAGTTTCACTTCGA+TGG 0.516591 4:-97048997 MsaT024218.1:CDS
AAGTGTAGCTGCAATGTTCA+AGG 0.516681 4:-97049118 MsaT024218.1:CDS
GAGTTTGGATCATTTGGTGA+TGG 0.518699 4:-97048764 MsaT024218.1:CDS
TGACTGACACCGAGCATCAC+CGG 0.520466 4:+97051824 None:intergenic
ATCTGAGTGATTTCGAAGGT+TGG 0.523296 4:-97051652 MsaT024218.1:CDS
CTATCAGAATCGAGTGACTC+AGG 0.527715 4:-97048816 MsaT024218.1:CDS
ATAAATTACCATCACTCTTG+TGG 0.532243 4:+97051450 None:intergenic
AGCATGCAGAACCAAACAAT+GGG 0.540970 4:-97051151 MsaT024218.1:CDS
AAAGAGATTTAAGGATGCGA+TGG 0.541017 4:-97048960 MsaT024218.1:CDS
CCTTTAGATTTGAGAATGAG+AGG 0.541549 4:+97051537 None:intergenic
AGTATCGAGAAAAGGGTTGT+GGG 0.542959 4:-97051744 MsaT024218.1:CDS
ACCCATCCATATACTTTCAA+AGG 0.543482 4:-97048898 MsaT024218.1:CDS
ATGCTGCAGTATCGAGAAAA+GGG 0.546828 4:-97051751 MsaT024218.1:CDS
TATACTCCTCAGGATCAAAT+GGG 0.549641 4:+97051234 None:intergenic
AAACAATGGGTCATCATCAA+AGG 0.556398 4:-97051138 MsaT024218.1:intron
AGGCAATGTGAGGCCTGAGC+CGG 0.560985 4:-97051843 MsaT024218.1:CDS
AAAATTCGGCACTGGTGTCA+AGG 0.572645 4:-97051351 MsaT024218.1:CDS
TGAGGAGTATAAAGGAGGCT+GGG 0.575783 4:-97051222 MsaT024218.1:CDS
TTTAGTTTCAAGGCGATCAA+GGG 0.581796 4:+97051988 None:intergenic
TTGGTTAACCACAAGAGTGA+TGG 0.581825 4:-97051458 MsaT024218.1:CDS
AGAATGAAATTCAAAAGAAG+CGG 0.584345 4:+97051319 None:intergenic
CGAGAATCATCATCCCAAGA+TGG 0.586176 4:+97049307 None:intergenic
AACCAAAACAACAAATGTGA+GGG 0.590681 4:-97051416 MsaT024218.1:CDS
TCCAAGCGGAAGTCCCGCAA+TGG 0.597080 4:-97049255 MsaT024218.1:CDS
AAACCAAAACAACAAATGTG+AGG 0.612820 4:-97051417 MsaT024218.1:CDS
AAGCATGCAGAACCAAACAA+TGG 0.615428 4:-97051152 MsaT024218.1:CDS
GAAACAGATCTTGTTGGGAG+AGG 0.616533 4:-97049151 MsaT024218.1:CDS
GACTGGTGTAGTTTATGAGA+GGG 0.625917 4:-97049233 MsaT024218.1:CDS
GGACTGGTGTAGTTTATGAG+AGG 0.629860 4:-97049234 MsaT024218.1:CDS
CTTGTTGGGAGAGGAAGACG+AGG 0.636192 4:-97049142 MsaT024218.1:CDS
AATCAAATCTGCAGAAACGA+CGG 0.640914 4:+97049333 None:intergenic
GAAGGCAAGAGATGTTCTGT+CGG 0.647872 4:-97051180 MsaT024218.1:CDS
AATACACCCATTTGATCCTG+AGG 0.649632 4:-97051240 MsaT024218.1:CDS
TGTAGGTCGTCGTTTCCAAG+CGG 0.650107 4:-97049269 MsaT024218.1:CDS
TAAACTACACCAGTCCATTG+CGG 0.653393 4:+97049241 None:intergenic
CATTTGGTGATGGTTTCGGG+AGG 0.653419 4:-97048754 MsaT024218.1:CDS
AAATGGCGATTGTCTTGTCG+AGG 0.655256 4:-97051945 MsaT024218.1:CDS
GATCCTGAGGAGTATAAAGG+AGG 0.656179 4:-97051227 MsaT024218.1:CDS
AAATATCTGAGTGATTTCGA+AGG 0.658560 4:-97051656 MsaT024218.1:CDS
GGTTTGACAGAATCATGCAA+AGG 0.665715 4:+97049361 None:intergenic
TCCATGAAATCGATAGATGG+AGG 0.670812 4:+97048719 None:intergenic
AGAGATTTAAGGATGCGATG+GGG 0.691782 4:-97048958 MsaT024218.1:CDS
ATTGTATTAGAGGCAATGTG+AGG 0.692266 4:-97051853 MsaT024218.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 97048682 97052026 97048682 ID=MsaG024218
Chr4 mRNA 97048682 97052026 97048682 ID=MsaT024218.1;Parent=MsaG024218
Chr4 exon 97048682 97049395 97048682 ID=MsaT024218.1.exon2;Parent=MsaT024218.1
Chr4 CDS 97048682 97049395 97048682 ID=cds.MsaT024218.1;Parent=MsaT024218.1
Chr4 exon 97051139 97052026 97051139 ID=MsaT024218.1.exon1;Parent=MsaT024218.1
Chr4 CDS 97051139 97052026 97051139 ID=cds.MsaT024218.1;Parent=MsaT024218.1
Gene Sequence

>MsaT024218.1

ATGGCAAACGGGTCTTCCCTTGATCGCCTTGAAACTAAAACTTTTACTAAATTTCATGCAAATGGCGATTGTCTTGTCGAGGATCCTGTTGATAGTGCTGATCCTCAAAAATCTATGTTTTGTCAATTTTCTTCGGTTTACCAAGAGGAGAATTGTATTAGAGGCAATGTGAGGCCTGAGCCGGTGATGCTCGGTGTCAGTCAATTGCTTGATTTATACCAACTTTTCTCCCTTGTGAAGGAAAAAGGAGGGTATGCTGCAGTATCGAGAAAAGGGTTGTGGGACTCTGTGATAGTTGATCTGGGTTTGGACCTTAATGTTTTGGCTTCAGTGAAATTAGTTTATGAAAAATATCTGAGTGATTTCGAAGGTTGGCTCAGCAAAACGTTCGAAGAAAAGAGTTTCAAAAATTGGAATGGTGGGTGTTTGAATTCATTGCCAATAGATCTAGAAAAAGAGCTCCAAAGCCTCTCATTCTCAAATCTAAAGGACAAAGATGATCATTTTGTCACGTTAGAGCCAAGTAACATAATTAAGCACATTGATTTGGTTAACCACAAGAGTGATGGTAATTTATTGGACACTAAAAACCAAAACAACAAATGTGAGGGTGTCCAAAATTTTAACGGTGATGGTAATGAGGATGACAATGAAAAATTCGGCACTGGTGTCAAGGATGATCTAGCCGCTTCTTTTGAATTTCATTCTCGCAAACGTAAAAGGGAATCATTATCGGAAATGATAAACTGGATGAAGAATATCGCAATACACCCATTTGATCCTGAGGAGTATAAAGGAGGCTGGGACTTTTTTGTTCAGATGCTGAAGGCAAGAGATGTTCTGTCGGTCAGAAAGCATGCAGAACCAAACAATGGGTCATCATCAAAGGTGAAGATGCATCCTTTGCATGATTCTGTCAAACCAGATGCCGTCGTTTCTGCAGATTTGATTAAGCCATCTTGGGATGATGATTCTCGTGAAAAGCTTGTTTCTGTAGGTCGTCGTTTCCAAGCGGAAGTCCCGCAATGGACTGGTGTAGTTTATGAGAGGGACTCCAAATGGTTAGGCACACAAGTATGGCCTGTTAAAAATCATTCAAAACCTACAACTGAAACAGATCTTGTTGGGAGAGGAAGACGAGGAAAGTGTAGCTGCAATGTTCAAGGTTCTGTTGACTGTGTCAGACTTCATATTGCTGCAAACAGGACCAAACTGAAGTTTGAATTGGGTTCTGCATTTTACCATTGGGGATTTGATAAAATGGGCGAAGAAGTTTCACTTCGATGGACAGCTGATGAAGAAAAGAGATTTAAGGATGCGATGGGGTTAAAAATCCCTTCCCAAAACAAGTCTTTTTGGAACAACCCATCCATATACTTTCAAAGGAAGACAAGAAAAGATATGGTGAGCTATTGCTTCAATGTATATCTTATTCAACTAAGAAGCTATCAGAATCGAGTGACTCAGGAGACTGTTGACAGCGACTATGAGGAAGTTGAGTTTGGATCATTTGGTGATGGTTTCGGGAGGAAAGCTATCAAGCCTCCATCTATCGATTTCATGGAGTGTTCAGAGAACACACAATGCTTTGATTTTGAGTAG
Protein sequence

>MsaT024218.1

MANGSSLDRLETKTFTKFHANGDCLVEDPVDSADPQKSMFCQFSSVYQEENCIRGNVRPEPVMLGVSQLLDLYQLFSLVKEKGGYAAVSRKGLWDSVIVDLGLDLNVLASVKLVYEKYLSDFEGWLSKTFEEKSFKNWNGGCLNSLPIDLEKELQSLSFSNLKDKDDHFVTLEPSNIIKHIDLVNHKSDGNLLDTKNQNNKCEGVQNFNGDGNEDDNEKFGTGVKDDLAASFEFHSRKRKRESLSEMINWMKNIAIHPFDPEEYKGGWDFFVQMLKARDVLSVRKHAEPNNGSSSKVKMHPLHDSVKPDAVVSADLIKPSWDDDSREKLVSVGRRFQAEVPQWTGVVYERDSKWLGTQVWPVKNHSKPTTETDLVGRGRRGKCSCNVQGSVDCVRLHIAANRTKLKFELGSAFYHWGFDKMGEEVSLRWTADEEKRFKDAMGLKIPSQNKSFWNNPSIYFQRKTRKDMVSYCFNVYLIQLRSYQNRVTQETVDSDYEEVEFGSFGDGFGRKAIKPPSIDFMECSENTQCFDFE*