AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024232

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024232 MtrunA17_Chr8g0387181 97.771 628 14 0 1 628 1 628 0.0 1283
MsaG024232 MtrunA17_Chr8g0387141 74.843 636 112 6 1 628 1 596 0.0 943
MsaG024232 MtrunA17_Chr1g0186281 68.671 632 135 11 1 622 1 579 0.0 811
MsaG024232 MtrunA17_Chr1g0186261 68.038 632 142 9 1 622 1 582 0.0 809
MsaG024232 MtrunA17_Chr1g0186191 66.839 579 134 8 45 622 68 589 0.0 739
MsaG024232 MtrunA17_Chr8g0387161 85.427 199 29 0 430 628 99 297 1.13e-119 357
MsaG024232 MtrunA17_Chr8g0387161 75.758 99 24 0 249 347 1 99 2.18e-42 154
MsaG024232 MtrunA17_Chr6g0479271 57.714 350 86 6 175 522 7 296 4.24e-111 336
MsaG024232 MtrunA17_Chr6g0479271 78.378 37 8 0 592 628 292 328 4.45e-12 67.8
MsaG024232 MtrunA17_Chr7g0248041 37.076 383 180 9 234 609 243 571 4.07e-68 233
MsaG024232 MtrunA17_Chr7g0248041 57.377 61 26 0 60 120 1 61 3.29e-12 69.3
MsaG024232 MtrunA17_Chr8g0348691 52.000 175 80 3 425 595 76 250 5.42e-53 182
MsaG024232 MtrunA17_Chr6g0453251 69.048 126 32 2 1 119 1 126 6.85e-49 166
MsaG024232 MtrunA17_Chr5g0420461 48.182 220 45 5 309 527 19 170 6.25e-42 150
MsaG024232 MtrunA17_Chr5g0420461 75.610 41 10 0 588 628 157 197 6.35e-14 70.9
MsaG024232 MtrunA17_Chr7g0241681 38.012 171 98 2 424 588 193 361 6.44e-29 118
MsaG024232 MtrunA17_Chr3g0086341 39.891 183 95 6 423 593 147 326 8.30e-26 111
MsaG024232 MtrunA17_Chr7g0241661 30.387 181 118 2 414 588 175 353 4.66e-20 92.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024232 AT4G11400.2 34.522 617 327 17 26 627 19 573 6.48e-98 311
MsaG024232 AT4G11400.1 34.522 617 327 17 26 627 19 573 6.48e-98 311
MsaG024232 AT2G46040.3 46.199 171 88 3 427 594 362 531 1.32e-39 153
MsaG024232 AT2G46040.3 26.603 312 198 7 35 336 47 337 3.73e-21 98.2
MsaG024232 AT2G46040.1 46.199 171 88 3 427 594 362 531 1.32e-39 153
MsaG024232 AT2G46040.1 26.603 312 198 7 35 336 47 337 3.73e-21 98.2
MsaG024232 AT2G46040.2 46.199 171 88 3 427 594 376 545 1.95e-39 153
MsaG024232 AT2G46040.2 26.603 312 198 7 35 336 61 351 4.11e-21 98.2
MsaG024232 AT5G04110.1 39.130 161 86 4 425 574 361 520 4.89e-27 116
MsaG024232 AT5G04110.3 39.130 161 86 4 425 574 361 520 4.89e-27 116
MsaG024232 AT5G04110.2 39.130 161 86 4 425 574 362 521 5.05e-27 116
MsaG024232 AT2G03470.1 34.896 192 102 6 423 599 121 304 1.56e-21 98.6
MsaG024232 AT2G03470.2 34.896 192 102 6 423 599 120 303 1.69e-21 98.2
MsaG024232 AT1G13880.3 35.359 181 103 4 423 593 127 303 2.12e-21 97.8
MsaG024232 AT1G13880.1 35.359 181 103 4 423 593 126 302 2.24e-21 97.8
MsaG024232 AT1G13880.2 35.359 181 103 4 423 593 136 312 2.71e-21 97.4
MsaG024232 AT1G26580.3 31.429 210 124 5 418 609 62 269 8.64e-21 95.9
MsaG024232 AT1G26580.2 31.429 210 124 5 418 609 128 335 1.44e-20 95.9
MsaG024232 AT1G26580.1 31.429 210 124 5 418 609 128 335 1.44e-20 95.9
MsaG024232 AT5G04110.4 37.241 145 79 4 425 558 361 504 2.53e-19 92.0

Find 121 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCCTCCCATTTGTTATTT+TGG 0.062612 4:+97142989 None:intergenic
CAAGAGTGATGGTTATTTAT+TGG 0.189535 4:-97143022 MsaT024232.1:CDS
TCATTGGGGATTTGATAAAA+TGG 0.191990 4:-97139322 MsaT024232.1:CDS
TATCATCACCGTCAACATTT+TGG 0.205466 4:+97142965 None:intergenic
CCTTTAGATTTGAGCATAAA+AGG 0.207974 4:+97143112 None:intergenic
TTCTTCCTTGTGAAGGAAAA+AGG 0.229657 4:-97143354 MsaT024232.1:CDS
GATGATGACGAAGTTGAATT+TGG 0.250331 4:-97139081 MsaT024232.1:CDS
TTATACTCCTTCCACCTTGA+TGG 0.254585 4:+97142760 None:intergenic
CTTTGCTGCAATTCATGTTC+TGG 0.273535 4:-97139810 MsaT024232.1:CDS
TGATGAAGAAAAGAGATTTA+AGG 0.278264 4:-97139271 MsaT024232.1:CDS
TGCCTTGTTTCGAAAGTATC+TGG 0.279788 4:+97139194 None:intergenic
CACCTTGATGGTTCTGGTAA+TGG 0.297194 4:+97142772 None:intergenic
CACTCCAAGCAATCCATATA+TGG 0.312317 4:+97139018 None:intergenic
ACAAGATCTGTTTCGGTAGT+AGG 0.317915 4:+97139462 None:intergenic
TTTCTCTTCTCAGTTGCATC+TGG 0.327601 4:+97139675 None:intergenic
CTCTACTACAATTCTCCTTT+AGG 0.334096 4:+97143439 None:intergenic
CTTCTCAGTTGCATCTGGTT+TGG 0.334667 4:+97139680 None:intergenic
GAGAAAATCTGAGCCATCTA+TGG 0.335639 4:-97139622 MsaT024232.1:CDS
ATAATTCTCGCAAACGTAAA+CGG 0.342533 4:-97142864 MsaT024232.1:CDS
TCCTTCCACCTTGATGGTTC+TGG 0.342765 4:+97142766 None:intergenic
TTTCTGAGAGTGACTCTAAA+TGG 0.355739 4:-97139524 MsaT024232.1:CDS
TTCAGTGACGACGTCTGGTT+TGG 0.357587 4:+97139719 None:intergenic
CGTCTAGACGCTGAATTTCA+TGG 0.359710 4:-97143546 MsaT024232.1:CDS
AGCTATCAAGCATCCATATA+TGG 0.363115 4:-97139031 MsaT024232.1:CDS
CGTAAACGGGAATCGATATC+AGG 0.372781 4:-97142850 MsaT024232.1:CDS
AATGGTTAGGCACACAAGTA+TGG 0.373689 4:-97139506 MsaT024232.1:CDS
GAAGTTGAATTTGGATCTTT+TGG 0.375334 4:-97139072 MsaT024232.1:CDS
CATTGGGGATTTGATAAAAT+GGG 0.380212 4:-97139321 MsaT024232.1:CDS
ATTGCACGGTTCAGTCAATA+TGG 0.388593 4:-97139775 MsaT024232.1:CDS
GGATTCTGTGATAATTGAAA+TGG 0.394907 4:-97143298 MsaT024232.1:CDS
TGATGTTACTTGATTCTAAC+GGG 0.404597 4:+97143070 None:intergenic
CGAAAATCATCATCCATAGA+TGG 0.407291 4:+97139609 None:intergenic
CTGCAATTCATGTTCTGGTA+AGG 0.408572 4:-97139805 MsaT024232.1:CDS
TAATTCTCGCAAACGTAAAC+GGG 0.414761 4:-97142863 MsaT024232.1:CDS
GCGGTTGTATTGTTGAGTAT+CGG 0.426228 4:-97143518 MsaT024232.1:CDS
TCTCCCAACAAGATCTGTTT+CGG 0.428135 4:+97139455 None:intergenic
TCTGGTAATGGTGGAGCTAC+AGG 0.429826 4:+97142784 None:intergenic
CTAATTACCAAAATAACAAA+TGG 0.432389 4:-97142996 MsaT024232.1:CDS
GATTTCATATTGCTGAGAAC+AGG 0.435888 4:-97139380 MsaT024232.1:CDS
TTGTTCAGTTGCTGAGGGCA+AGG 0.439451 4:-97142720 MsaT024232.1:CDS
CCGGAACTTCCGCTTGGAAA+AGG 0.440137 4:+97139562 None:intergenic
GAAACTACACCAGTCCATTC+CGG 0.442162 4:+97139543 None:intergenic
TGGGAAGATGATCCACCATT+TGG 0.442630 4:+97142667 None:intergenic
TCAAGGTGGAAGGAGTATAA+AGG 0.452997 4:-97142757 MsaT024232.1:CDS
CTACCGAAACAGATCTTGTT+GGG 0.462379 4:-97139458 MsaT024232.1:CDS
CGGTTGTATTGTTGAGTATC+GGG 0.464313 4:-97143517 MsaT024232.1:CDS
CGATATCAGGAATGGTGAAC+TGG 0.466029 4:-97142837 MsaT024232.1:CDS
GACGCTGAATTTCATGGAAA+CGG 0.467095 4:-97143540 MsaT024232.1:CDS
AGTCAGACGTTCATGGCAAA+CGG 0.467323 4:-97143582 None:intergenic
GCATCCATATATGGATTGCT+TGG 0.469079 4:-97139022 MsaT024232.1:CDS
CGGTATCGAGAAAAGGGTTG+TGG 0.472038 4:-97143320 MsaT024232.1:CDS
CGTGAAAAGCTTGTTTCTGT+AGG 0.477267 4:-97139588 MsaT024232.1:CDS
TCATCGCTGTCAACAGTCTT+CGG 0.477687 4:+97139099 None:intergenic
TCTCCGAGCATCACCGGCAT+TGG 0.482085 4:+97143405 None:intergenic
TATGATGCGGTATCGAGAAA+AGG 0.483215 4:-97143327 MsaT024232.1:CDS
GATTCTGTGATAATTGAAAT+GGG 0.484845 4:-97143297 MsaT024232.1:CDS
GTCAGACGTTCATGGCAAAC+GGG 0.485222 4:-97143581 None:intergenic
GAGAGTGACTCTAAATGGTT+AGG 0.492462 4:-97139519 MsaT024232.1:CDS
CAGCGAGATTTAACAGAGAC+AGG 0.494477 4:+97139834 None:intergenic
AAGTGTAGCTGCAACGTTCA+AGG 0.494639 4:-97139420 MsaT024232.1:CDS
TGTTCAGTTGCTGAGGGCAA+GGG 0.496056 4:-97142719 MsaT024232.1:CDS
GGAGTCAGAAATATGTCCTC+TGG 0.498373 4:-97139754 MsaT024232.1:CDS
ACTACCGAAACAGATCTTGT+TGG 0.499677 4:-97139459 MsaT024232.1:CDS
TCCATTCCGGAACTTCCGCT+TGG 0.513689 4:+97139556 None:intergenic
GTGAGGAAGTTTCACTTCGA+TGG 0.516591 4:-97139299 MsaT024232.1:CDS
ATGCCGGTGATGCTCGGAGA+TGG 0.521994 4:-97143402 MsaT024232.1:CDS
TAATTACCAAAATAACAAAT+GGG 0.533109 4:-97142995 MsaT024232.1:CDS
ATGATGTTACTTGATTCTAA+CGG 0.535061 4:+97143069 None:intergenic
TTGTTTCGAAAGTATCTGGA+TGG 0.538515 4:+97139198 None:intergenic
GGTGGAGCTACAGGATCAAA+CGG 0.540327 4:+97142793 None:intergenic
ATCTCAATTTCACTGTACCT+TGG 0.540348 4:+97139871 None:intergenic
CTCAGAGATTTCCACACAAG+AGG 0.541018 4:+97142894 None:intergenic
GCGGAAGTTCCGGAATGGAC+TGG 0.543878 4:-97139552 MsaT024232.1:CDS
AGGCCAATGCCGGTGATGCT+CGG 0.544289 4:-97143408 MsaT024232.1:CDS
TCAACTGTTCTTCCTTGTGA+AGG 0.544693 4:-97143361 MsaT024232.1:CDS
GGGATTTGATAAAATGGGTG+AGG 0.544818 4:-97139316 MsaT024232.1:CDS
TCACGGATGCCAAAACATGA+AGG 0.545005 4:+97143268 None:intergenic
TGCAATTCATGTTCTGGTAA+GGG 0.545401 4:-97139804 MsaT024232.1:CDS
GGACCATCTCCGAGCATCAC+CGG 0.547780 4:+97143399 None:intergenic
AAAATTCGGCAATGGTGTTG+AGG 0.550666 4:-97142929 MsaT024232.1:CDS
ATGATGCGGTATCGAGAAAA+GGG 0.552445 4:-97143326 MsaT024232.1:CDS
ATAAATAACCATCACTCTTG+TGG 0.553747 4:+97143025 None:intergenic
GAAGGAGTATAAAGGAGGCC+AGG 0.557635 4:-97142749 MsaT024232.1:CDS
TTGTGTGGAAATCTCTGAGA+AGG 0.561286 4:-97142890 MsaT024232.1:CDS
CACCATTACCAGAACCATCA+AGG 0.561316 4:-97142774 MsaT024232.1:CDS
GGTATCGAGAAAAGGGTTGT+GGG 0.561504 4:-97143319 MsaT024232.1:CDS
TGTTCTGTCTGTGAGAAAGC+AGG 0.562735 4:-97142695 MsaT024232.1:CDS
TCCAAGCGGAAGTTCCGGAA+TGG 0.566498 4:-97139557 MsaT024232.1:CDS
AGGCATTGTGAGGCCAATGC+CGG 0.566829 4:-97143418 MsaT024232.1:CDS
GATGCATCCTGCCATGTATG+AGG 0.570606 4:-97139913 MsaT024232.1:CDS
TACCAAAATAACAAATGGGA+GGG 0.570891 4:-97142991 MsaT024232.1:CDS
ATTCAGCGTCTAGACGATCA+AGG 0.572295 4:+97143553 None:intergenic
CAGGAATGGTGAACTGGACA+CGG 0.572522 4:-97142831 MsaT024232.1:CDS
CTTGATGGTTCTGGTAATGG+TGG 0.573107 4:+97142775 None:intergenic
TTTGTTAACCACAAGAGTGA+TGG 0.575780 4:-97143033 MsaT024232.1:CDS
TGAAATTGAGATATAGTGAA+AGG 0.576187 4:-97139860 MsaT024232.1:CDS
ACATGATCCTCATACATGGC+AGG 0.576377 4:+97139906 None:intergenic
GGTAAGGGAAATAAATTGCA+CGG 0.586625 4:-97139789 MsaT024232.1:CDS
AAATGGTGGATCATCTTCCC+AGG 0.587670 4:-97142665 MsaT024232.1:intron
ATCCAGATACTTTCGAAACA+AGG 0.591847 4:-97139196 MsaT024232.1:CDS
TTATCTAGCTGCCTCTTGTG+TGG 0.597731 4:-97142905 MsaT024232.1:CDS
ACGGGAATCGATATCAGGAA+TGG 0.603553 4:-97142845 MsaT024232.1:CDS
CTAAAGGAGAATTGTAGTAG+AGG 0.604171 4:-97143438 MsaT024232.1:CDS
AGCAACATGATCCTCATACA+TGG 0.604798 4:+97139902 None:intergenic
ACCAGAACCATCAAGGTGGA+AGG 0.609801 4:-97142767 MsaT024232.1:CDS
TTACCAAAATAACAAATGGG+AGG 0.613410 4:-97142992 MsaT024232.1:CDS
GAGGGTGTCCAAAATGTTGA+CGG 0.617850 4:-97142973 MsaT024232.1:CDS
TCAGCAAAACATTCGAAGAG+AGG 0.626443 4:-97143203 MsaT024232.1:CDS
AGAAAGCAGGCTGAACCAAA+TGG 0.632421 4:-97142682 MsaT024232.1:CDS
GAAACAGATCTTGTTGGGAG+AGG 0.634208 4:-97139453 MsaT024232.1:CDS
CTTGTTGGGAGAGGAAGACG+AGG 0.636192 4:-97139444 MsaT024232.1:CDS
AGTTGATATAAATCAAGCAA+CGG 0.651746 4:+97143378 None:intergenic
AAGCAGGCTGAACCAAATGG+TGG 0.656382 4:-97142679 MsaT024232.1:CDS
AGAGATTTAAGGATGCAATG+AGG 0.659010 4:-97139260 MsaT024232.1:CDS
AAACAAGGCAAGAAAAGACA+TGG 0.666046 4:-97139181 MsaT024232.1:CDS
CATGTTGCTCTTAGTCACCA+AGG 0.670434 4:-97139888 MsaT024232.1:CDS
AAATCCCCAATGATAAAACA+CGG 0.674548 4:+97139332 None:intergenic
AGGTGGAAGGAGTATAAAGG+AGG 0.679711 4:-97142754 MsaT024232.1:CDS
ATTGTAGTAGAGGCATTGTG+AGG 0.687619 4:-97143428 MsaT024232.1:CDS
GCTGAATTTCATGGAAACGG+CGG 0.703390 4:-97143537 MsaT024232.1:CDS
CATTACCAGAACCATCAAGG+TGG 0.750119 4:-97142771 MsaT024232.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 97138984 97143592 97138984 ID=MsaG024232
Chr4 mRNA 97138984 97143592 97138984 ID=MsaT024232.1;Parent=MsaG024232
Chr4 exon 97138984 97139943 97138984 ID=MsaT024232.1.exon2;Parent=MsaT024232.1
Chr4 CDS 97138984 97139943 97138984 ID=cds.MsaT024232.1;Parent=MsaT024232.1
Chr4 exon 97142666 97143592 97142666 ID=MsaT024232.1.exon1;Parent=MsaT024232.1
Chr4 CDS 97142666 97143592 97142666 ID=cds.MsaT024232.1;Parent=MsaT024232.1
Gene Sequence

>MsaT024232.1

ATGGCAAACGGGTCTTTCCTTGATCGTCTAGACGCTGAATTTCATGGAAACGGCGGTTGTATTGTTGAGTATCGGGCTGATCGTGACAAAGCTAAACAGAAATCTTTGTTTTGTCAAATTTTCTCGGTTTACCTAAAGGAGAATTGTAGTAGAGGCATTGTGAGGCCAATGCCGGTGATGCTCGGAGATGGTCCGTTGCTTGATTTATATCAACTGTTCTTCCTTGTGAAGGAAAAAGGTGGGTATGATGCGGTATCGAGAAAAGGGTTGTGGGATTCTGTGATAATTGAAATGGGTTTTAACCTTCATGTTTTGGCATCCGTGAAATTAGTTTATGAAAAATATCTGAGTGATTTTGAAGGTTGGCTCAGCAAAACATTCGAAGAGAGGAGTTTGAAAAATGGGAATCATGGGTATTTGAATTCATTGCCGATAGATCTAGAAAAAGAATTTCGAAGCCTTTTATGCTCAAATCTAAAGGACAACGATGATGATTTTGTCCCGTTAGAATCAAGTAACATCATAAAGCGCATTGAATTTGTTAACCACAAGAGTGATGGTTATTTATTGGACACTAATTACCAAAATAACAAATGGGAGGGTGTCCAAAATGTTGACGGTGATGATATTGATGATGACGAAAAATTCGGCAATGGTGTTGAGGATTATCTAGCTGCCTCTTGTGTGGAAATCTCTGAGAAGGAATATAATTCTCGCAAACGTAAACGGGAATCGATATCAGGAATGGTGAACTGGACACGGCATATTGCAAAACATCCGTTTGATCCTGTAGCTCCACCATTACCAGAACCATCAAGGTGGAAGGAGTATAAAGGAGGCCAGGACTTTTTTGTTCAGTTGCTGAGGGCAAGGGATGTTCTGTCTGTGAGAAAGCAGGCTGAACCAAATGGTGGATCATCTTCCCAGAAGGTGAAGATGCATCCTGCCATGTATGAGGATCATGTTGCTCTTAGTCACCAAGGTACAGTGAAATTGAGATATAGTGAAAGGCTTCCTGTCTCTGTTAAATCTCGCTGTCTTTGCTGCAATTCATGTTCTGGTAAGGGAAATAAATTGCACGGTTCAGTCAATATGGAGTCAGAAATATGTCCTCTGGAGAAAACAACAGCCAAACCAGACGTCGTCACTGAAAAGAAAAAATCAACTGCCAAACCAGATGCAACTGAGAAGAGAAAATCAACTGCCAACCCAGATATTACTGAAAAGAGAAAATCTGAGCCATCTATGGATGATGATTTTCGTGAAAAGCTTGTTTCTGTAGGTCACCTTTTCCAAGCGGAAGTTCCGGAATGGACTGGTGTAGTTTCTGAGAGTGACTCTAAATGGTTAGGCACACAAGTATGGCCTGTTAAAGATGATTCAAAACCTACTACCGAAACAGATCTTGTTGGGAGAGGAAGACGAGGAAAGTGTAGCTGCAACGTTCAAGGTTCTGTTGACTGTGTCAGATTTCATATTGCTGAGAACAGGATGAAGCTGAAGCTTGAATTGCATTCCGTGTTTTATCATTGGGGATTTGATAAAATGGGTGAGGAAGTTTCACTTCGATGGACAGCTGATGAAGAAAAGAGATTTAAGGATGCAATGAGGTTAAAATTCCCCTCCCAAAACAAGTCTTTTTGGAACAATCCATCCAGATACTTTCGAAACAAGGCAAGAAAAGACATGGTGAGCTATTACTTCAATGTATATCTTATTCAACTAAGAAGCTATCAGAATCGAGTGACTCCGAAGACTGTTGACAGCGATGATGACGAAGTTGAATTTGGATCTTTTGGTGATGGTTTTGGGAGGGAAGCTATCAAGCATCCATATATGGATTGCTTGGAGTGTTCAGAGAACAAGCAATGCTTTGACTTTGAGTAG
Protein sequence

>MsaT024232.1

MANGSFLDRLDAEFHGNGGCIVEYRADRDKAKQKSLFCQIFSVYLKENCSRGIVRPMPVMLGDGPLLDLYQLFFLVKEKGGYDAVSRKGLWDSVIIEMGFNLHVLASVKLVYEKYLSDFEGWLSKTFEERSLKNGNHGYLNSLPIDLEKEFRSLLCSNLKDNDDDFVPLESSNIIKRIEFVNHKSDGYLLDTNYQNNKWEGVQNVDGDDIDDDEKFGNGVEDYLAASCVEISEKEYNSRKRKRESISGMVNWTRHIAKHPFDPVAPPLPEPSRWKEYKGGQDFFVQLLRARDVLSVRKQAEPNGGSSSQKVKMHPAMYEDHVALSHQGTVKLRYSERLPVSVKSRCLCCNSCSGKGNKLHGSVNMESEICPLEKTTAKPDVVTEKKKSTAKPDATEKRKSTANPDITEKRKSEPSMDDDFREKLVSVGHLFQAEVPEWTGVVSESDSKWLGTQVWPVKDDSKPTTETDLVGRGRRGKCSCNVQGSVDCVRFHIAENRMKLKLELHSVFYHWGFDKMGEEVSLRWTADEEKRFKDAMRLKFPSQNKSFWNNPSRYFRNKARKDMVSYYFNVYLIQLRSYQNRVTPKTVDSDDDEVEFGSFGDGFGREAIKHPYMDCLECSENKQCFDFE*