AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000654

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000654 MtrunA17_Chr1g0149651 94.331 441 11 4 1 430 1 438 0.0 845
MsaG000654 MtrunA17_Chr3g0137241 67.281 434 73 9 1 428 1 371 0.0 547
MsaG000654 MtrunA17_Chr2g0305101 81.955 266 44 2 165 427 90 354 4.86e-164 466
MsaG000654 MtrunA17_Chr4g0065241 81.890 254 42 3 165 415 66 318 1.21e-154 441
MsaG000654 MtrunA17_Chr5g0398181 70.943 265 71 2 170 428 28 292 1.02e-129 376
MsaG000654 MtrunA17_Chr1g0192791 36.694 248 130 8 170 412 20 245 1.13e-30 119
MsaG000654 MtrunA17_Chr2g0289201 31.148 244 143 3 170 412 118 337 2.08e-30 120
MsaG000654 MtrunA17_Chr1g0151961 33.865 251 130 7 170 412 120 342 7.60e-28 113
MsaG000654 MtrunA17_Chr5g0413201 34.146 246 135 5 170 412 73 294 1.11e-27 112
MsaG000654 MtrunA17_Chr5g0439391 31.020 245 135 4 172 412 49 263 6.95e-23 98.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000654 AT5G25220.2 65.068 438 124 8 1 428 1 419 0.0 526
MsaG000654 AT5G25220.1 64.989 437 124 8 1 427 1 418 0.0 524
MsaG000654 AT5G11060.1 74.622 331 58 5 104 427 71 382 3.14e-172 488
MsaG000654 AT4G32040.2 55.427 433 134 9 1 428 1 379 2.74e-152 437
MsaG000654 AT4G32040.1 55.427 433 134 9 1 428 1 379 2.85e-152 437
MsaG000654 AT1G62990.1 65.263 285 95 3 146 427 7 290 3.18e-130 377
MsaG000654 AT1G70510.1 34.646 254 135 8 163 412 63 289 1.51e-31 122
MsaG000654 AT1G70510.2 33.465 254 142 7 163 412 63 293 5.49e-30 118
MsaG000654 AT1G23380.1 35.458 251 123 8 170 412 86 305 7.50e-29 115
MsaG000654 AT4G08150.1 34.387 253 129 7 170 412 135 360 9.70e-28 114
MsaG000654 AT1G23380.2 35.178 253 123 9 170 412 86 307 6.21e-27 110
MsaG000654 AT1G62360.1 33.200 250 132 5 170 412 122 343 2.55e-26 109

Find 133 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGTTTGGAGTTGGTTATT+AGG 0.252230 1:-8553782 None:intergenic
ACCACCAAACGCAGAGTATT+TGG 0.277454 1:-8554290 None:intergenic
TCGGAATCAGGTTTGGAGTT+AGG 0.291079 1:-8553758 None:intergenic
TGGTTTGGAGTTGGTTATTA+GGG 0.296401 1:-8553781 None:intergenic
CTTGTCTTACACGCTCCATT+AGG 0.305466 1:-8556109 None:intergenic
AACTAAAGCAAATTAATAAC+TGG 0.324917 1:+8556615 MsaT000654.1:CDS
CGGAATCAGGTTTGGAGTTA+GGG 0.345170 1:-8553757 None:intergenic
GTTAAACGTACTGTTGGATA+TGG 0.348322 1:-8556365 None:intergenic
TCAATCAAAGGAAGAGGAAT+TGG 0.349434 1:+8556642 MsaT000654.1:CDS
GGGGAAGAGTGAGGTGGCGG+TGG 0.352138 1:+8554084 MsaT000654.1:CDS
GCAAGGTTGGTGCAGGAAAC+TGG 0.359590 1:+8556587 MsaT000654.1:CDS
GATGCGGATAACATGGGATT+TGG 0.368383 1:+8556056 MsaT000654.1:CDS
CAATCCTTACAAAGCCTAAC+AGG 0.372024 1:+8555344 MsaT000654.1:CDS
TCATTCTCTGTTGGTATAAG+AGG 0.376610 1:-8556080 None:intergenic
CAAAGAACTTGACCATTTCA+TGG 0.380421 1:+8554324 MsaT000654.1:CDS
AGACGAGCTGGGAAACTTCC+TGG 0.389865 1:+8556293 MsaT000654.1:CDS
AAGAGTGAGGTGGCGGTGGA+TGG 0.389997 1:+8554088 MsaT000654.1:CDS
TGTACCTGTTAGGCTTTGTA+AGG 0.392039 1:-8555348 None:intergenic
ACGGAATGAGTTATTGTTGT+TGG 0.397407 1:-8553711 None:intergenic
AACTCCAAACCACACCTAAC+TGG 0.409860 1:+8553792 MsaT000654.1:CDS
TGGTTATTAGGGTCGGAATC+AGG 0.411326 1:-8553770 None:intergenic
GATGGAGACGGAGGAGGAGC+TGG 0.415977 1:+8554106 MsaT000654.1:CDS
CTTGTGAAAGATGTTGGTTT+TGG 0.416399 1:-8553658 None:intergenic
TTGTCTTACACGCTCCATTA+GGG 0.421646 1:-8556108 None:intergenic
GTCTGACGATGAAGATGAAC+AGG 0.422271 1:+8555992 MsaT000654.1:CDS
ATGAGTTATTGTTGTTGGTT+TGG 0.423383 1:-8553706 None:intergenic
GAGGAGCTGGATTGGTGAAC+TGG 0.424541 1:+8554119 MsaT000654.1:CDS
GAGTTAGGGTCGGGTGAGTC+TGG 0.425434 1:-8553743 None:intergenic
TGACACAACTTCTGTCCTTA+AGG 0.425689 1:+8556316 MsaT000654.1:CDS
TGAGCCAGTTAGGTGTGGTT+TGG 0.429844 1:-8553796 None:intergenic
CGATTACTTCACCGTGTTGA+CGG 0.433544 1:-8553985 None:intergenic
CGGTGTCGGAAGTTTGTTGA+AGG 0.438867 1:-8553922 None:intergenic
CCATGCAATGGAAGCTGTAA+TGG 0.441406 1:+8555304 MsaT000654.1:CDS
GAGGTGGAAGGCGGAGATAA+TGG 0.444829 1:+8554150 MsaT000654.1:CDS
GTTGCCCCTGTACCTTCTCC+AGG 0.448447 1:-8555966 None:intergenic
AACATCGACGGTGATGGACT+TGG 0.449142 1:+8554061 MsaT000654.1:CDS
TGGTTTGGTCTGTGAAATGT+TGG 0.450755 1:-8553691 None:intergenic
TTGTTGCAATTGTTCTTTGA+AGG 0.451938 1:-8555270 None:intergenic
AGAGAATGAAAGGTCCCTAA+TGG 0.452095 1:+8556094 MsaT000654.1:CDS
ACATCGACGGTGATGGACTT+GGG 0.452431 1:+8554062 MsaT000654.1:CDS
ATTAGGGTCGGAATCAGGTT+TGG 0.452477 1:-8553765 None:intergenic
CGGCACATGTGGCGTGTTTG+AGG 0.457717 1:+8554200 MsaT000654.1:CDS
TGGAAGCTGTAATGGCTTGT+TGG 0.463261 1:+8555312 MsaT000654.1:CDS
GTGATTGCCACCAAGCCTTA+AGG 0.468131 1:-8556331 None:intergenic
ATAGCGTTGTTGAGCCAGTT+AGG 0.469554 1:-8553806 None:intergenic
TTGGAGTTGGTTATTAGGGT+CGG 0.474556 1:-8553777 None:intergenic
AAATACTCTGCGTTTGGTGG+TGG 0.474689 1:+8554292 MsaT000654.1:CDS
AGGGACCTTTCATTCTCTGT+TGG 0.480001 1:-8556089 None:intergenic
GTTGTATGAACAGTTGTTGT+CGG 0.481534 1:+8554180 MsaT000654.1:CDS
GGAAGCTGTAATGGCTTGTT+GGG 0.483636 1:+8555313 MsaT000654.1:CDS
CCGTGCAAACCACCGGTCAA+TGG 0.487735 1:+8553942 MsaT000654.1:CDS
AGTTAGGTGTGGTTTGGAGT+TGG 0.488164 1:-8553790 None:intergenic
TAACTCGTGTTCTACTTCTC+CGG 0.488870 1:-8554023 None:intergenic
TTCAAGACAGTAGAGGTTGA+AGG 0.491189 1:-8556674 None:intergenic
GCCAAATACTCTGCGTTTGG+TGG 0.493142 1:+8554289 MsaT000654.1:CDS
ATCAGGTTTGGAGTTAGGGT+CGG 0.495240 1:-8553753 None:intergenic
CTGGCAGATGGGGAGGTGGA+AGG 0.496148 1:+8554138 MsaT000654.1:CDS
TGATGGCGATGCGGATAACA+TGG 0.496693 1:+8556049 MsaT000654.1:CDS
TCTTGAAGAGCAAACGCAAA+AGG 0.498087 1:+8556690 MsaT000654.1:CDS
ATCGACAACGTTACCATGGC+CGG 0.498375 1:+8554004 MsaT000654.1:CDS
CCACCGGTCAATGGCTTGCA+CGG 0.499073 1:+8553951 MsaT000654.1:CDS
CATTCTCTGTTGGTATAAGA+GGG 0.502060 1:-8556079 None:intergenic
GTGTTCTACTTCTCCGGCCA+TGG 0.502170 1:-8554017 None:intergenic
GCGGTGGATGGAGACGGAGG+AGG 0.505247 1:+8554100 MsaT000654.1:CDS
TCCGTTACCGTCAGTGTCGT+TGG 0.506455 1:-8553882 None:intergenic
CAACTTCTGTCCTTAAGGCT+TGG 0.507609 1:+8556321 MsaT000654.1:CDS
GTTGTTGTTGTCGGTGTAGT+GGG 0.509535 1:-8553837 None:intergenic
CTTCTGTCCTTAAGGCTTGG+TGG 0.509687 1:+8556324 MsaT000654.1:CDS
AGACGGAGGAGGAGCTGGAT+TGG 0.510601 1:+8554111 MsaT000654.1:CDS
GTTTCACCTGGAGAAGGTAC+AGG 0.511536 1:+8555960 MsaT000654.1:CDS
AGATAAAGCAAGGTTGGTGC+AGG 0.511577 1:+8556580 MsaT000654.1:CDS
CCATTACAGCTTCCATTGCA+TGG 0.512486 1:-8555304 None:intergenic
ACCGGTGGTTTGCACGGTGT+CGG 0.514390 1:-8553936 None:intergenic
GTAACTCTTGTGAAAGATGT+TGG 0.517339 1:-8553664 None:intergenic
TCAGGTTTGGAGTTAGGGTC+GGG 0.519463 1:-8553752 None:intergenic
CATCGACGGTGATGGACTTG+GGG 0.520169 1:+8554063 MsaT000654.1:CDS
TGAACTGGCAGATGGGGAGG+TGG 0.525868 1:+8554134 MsaT000654.1:CDS
GAAAATTGTGGACATAAGAG+AGG 0.527462 1:+8556256 MsaT000654.1:CDS
ACACGAGTTAAGTAATATGA+AGG 0.529678 1:+8554036 MsaT000654.1:CDS
TGGATTGGTGAACTGGCAGA+TGG 0.530194 1:+8554126 MsaT000654.1:CDS
GTGGCCAAATACTCTGCGTT+TGG 0.531063 1:+8554286 MsaT000654.1:CDS
ATAACTGGTTTATCAATCAA+AGG 0.531319 1:+8556630 MsaT000654.1:CDS
TCATACATTATAGGGTTACA+AGG 0.531432 1:+8556232 MsaT000654.1:intron
TGTTGTTGTTGTCGGTGTAG+TGG 0.532560 1:-8553838 None:intergenic
GAGGTGGCGGTGGATGGAGA+CGG 0.532603 1:+8554094 MsaT000654.1:CDS
TGGTCTGTGAAATGTTGGAT+TGG 0.536978 1:-8553686 None:intergenic
CCATTGACCGGTGGTTTGCA+CGG 0.539128 1:-8553942 None:intergenic
ATCGACGGTGATGGACTTGG+GGG 0.539928 1:+8554064 MsaT000654.1:CDS
ACATGTCCGCGTCCATGCAA+TGG 0.541622 1:+8555292 MsaT000654.1:CDS
CGACCGTGCAAGCCATTGAC+CGG 0.542113 1:-8553954 None:intergenic
GGAGGAAGATAAAGCAAGGT+TGG 0.544598 1:+8556574 MsaT000654.1:intron
GATTGGTGAACTGGCAGATG+GGG 0.546447 1:+8554128 MsaT000654.1:CDS
TGGTGAACTGGCAGATGGGG+AGG 0.547939 1:+8554131 MsaT000654.1:CDS
TACTGTTGGATATGGCCACT+TGG 0.548498 1:-8556357 None:intergenic
ATCCTCGGTAACTGATCCAC+CGG 0.551656 1:-8554232 None:intergenic
GGATTGGTGAACTGGCAGAT+GGG 0.560565 1:+8554127 MsaT000654.1:CDS
TCCGACACCGTGCAAACCAC+CGG 0.562776 1:+8553935 MsaT000654.1:CDS
AAGGATAACATCGACGGTGA+TGG 0.564146 1:+8554055 MsaT000654.1:CDS
GTGGCGGTGGATGGAGACGG+AGG 0.571035 1:+8554097 MsaT000654.1:CDS
CAGCTTCCATTGCATGGACG+CGG 0.571610 1:-8555298 None:intergenic
TTATACCAACAGAGAATGAA+AGG 0.571808 1:+8556084 MsaT000654.1:CDS
GGTTTATCAATCAAAGGAAG+AGG 0.572061 1:+8556636 MsaT000654.1:CDS
GCAGATGGGGAGGTGGAAGG+CGG 0.573467 1:+8554141 MsaT000654.1:CDS
TTCAGGAGGAAGATAAAGCA+AGG 0.577710 1:+8556570 MsaT000654.1:intron
TTTCACCTGGAGAAGGTACA+GGG 0.580246 1:+8555961 MsaT000654.1:CDS
GACGTTACCAACGACACTGA+CGG 0.592534 1:+8553875 MsaT000654.1:CDS
AGGACAGAAGTTGTGTCACC+AGG 0.595424 1:-8556311 None:intergenic
GCATGAACAGGAGTTTCACC+TGG 0.596871 1:+8555948 MsaT000654.1:intron
ACAGTTGTTGTCGGCACATG+TGG 0.599267 1:+8554189 MsaT000654.1:CDS
CCGTGCAAGCCATTGACCGG+TGG 0.606475 1:-8553951 None:intergenic
GTTGTTGAGCCAGTTAGGTG+TGG 0.606546 1:-8553801 None:intergenic
GATGGCGATGCGGATAACAT+GGG 0.610077 1:+8556050 MsaT000654.1:CDS
TTTGCTCTTCAAGACAGTAG+AGG 0.614890 1:-8556681 None:intergenic
GGGTTACAAGGAGAAAATTG+TGG 0.616009 1:+8556244 MsaT000654.1:intron
GTGTTTGAGGATAGCAACGC+CGG 0.619072 1:+8554213 MsaT000654.1:CDS
GTGAGTCTGGTAATATAGAA+CGG 0.620437 1:-8553730 None:intergenic
GCTAACTGAGCATCAATCCT+CGG 0.622785 1:-8554247 None:intergenic
ACCAACGACACTGACGGTAA+CGG 0.624558 1:+8553881 MsaT000654.1:CDS
ACAGGAGTTTCACCTGGAGA+AGG 0.631882 1:+8555954 MsaT000654.1:intron
TTACTTCACCGTGTTGACGG+TGG 0.635014 1:-8553982 None:intergenic
GACAACAACTGTTCATACAA+CGG 0.638324 1:-8554178 None:intergenic
GTTAGCACAGTCTCAGAATG+TGG 0.643950 1:+8554264 MsaT000654.1:CDS
AGTGACGCAAATCTGTTCGA+TGG 0.645362 1:+8556020 MsaT000654.1:CDS
TTTGAGGATAGCAACGCCGG+TGG 0.647198 1:+8554216 MsaT000654.1:CDS
TCGATTCTCCACCGTCAACA+CGG 0.669076 1:+8553974 MsaT000654.1:CDS
AATATGAAGGATAACATCGA+CGG 0.669534 1:+8554049 MsaT000654.1:CDS
CGCCGGTGGATCAGTTACCG+AGG 0.669945 1:+8554230 MsaT000654.1:CDS
AGTAATCGACAACGTTACCA+TGG 0.672069 1:+8554000 MsaT000654.1:CDS
TCGACGGTGATGGACTTGGG+GGG 0.674235 1:+8554065 MsaT000654.1:CDS
AGCACAGTCTCAGAATGTGG+TGG 0.676786 1:+8554267 MsaT000654.1:CDS
TGTCGGTGTAGTGGGTACGA+AGG 0.706118 1:-8553829 None:intergenic
GGTGGCAATCACATTCCAAG+TGG 0.712840 1:+8556342 MsaT000654.1:CDS
TTCACCTGGAGAAGGTACAG+GGG 0.738308 1:+8555962 MsaT000654.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 8553650 8556848 8553650 ID=MsaG000654
Chr1 mRNA 8553650 8556848 8553650 ID=MsaT000654.1;Parent=MsaG000654
Chr1 exon 8553650 8554345 8553650 ID=MsaT000654.1.exon1;Parent=MsaT000654.1
Chr1 CDS 8553650 8554345 8553650 ID=cds.MsaT000654.1;Parent=MsaT000654.1
Chr1 exon 8555245 8555365 8555245 ID=MsaT000654.1.exon2;Parent=MsaT000654.1
Chr1 CDS 8555245 8555365 8555245 ID=cds.MsaT000654.1;Parent=MsaT000654.1
Chr1 exon 8555958 8556154 8555958 ID=MsaT000654.1.exon3;Parent=MsaT000654.1
Chr1 CDS 8555958 8556154 8555958 ID=cds.MsaT000654.1;Parent=MsaT000654.1
Chr1 exon 8556245 8556376 8556245 ID=MsaT000654.1.exon4;Parent=MsaT000654.1
Chr1 CDS 8556245 8556376 8556245 ID=cds.MsaT000654.1;Parent=MsaT000654.1
Chr1 exon 8556575 8556711 8556575 ID=MsaT000654.1.exon5;Parent=MsaT000654.1
Chr1 CDS 8556575 8556711 8556575 ID=cds.MsaT000654.1;Parent=MsaT000654.1
Chr1 exon 8556839 8556848 8556839 ID=MsaT000654.1.exon6;Parent=MsaT000654.1
Chr1 CDS 8556839 8556848 8556839 ID=cds.MsaT000654.1;Parent=MsaT000654.1
Gene Sequence

>MsaT000654.1

ATGGCTTACCAAAACCAACATCTTTCACAAGAGTTACCAATCCAACATTTCACAGACCAAACCAACAACAATAACTCATTCCGTTCTATATTACCAGACTCACCCGACCCTAACTCCAAACCTGATTCCGACCCTAATAACCAACTCCAAACCACACCTAACTGGCTCAACAACGCTATCCTTCGTACCCACTACACCGACAACAACAACAACAACAATAACAACGACGTTACCAACGACACTGACGGTAACGGAGCTTCTAATTTTCTAAACCTTCAACAAACTTCCGACACCGTGCAAACCACCGGTCAATGGCTTGCACGGTCGATTCTCCACCGTCAACACGGTGAAGTAATCGACAACGTTACCATGGCCGGAGAAGTAGAACACGAGTTAAGTAATATGAAGGATAACATCGACGGTGATGGACTTGGGGGGAAGAGTGAGGTGGCGGTGGATGGAGACGGAGGAGGAGCTGGATTGGTGAACTGGCAGATGGGGAGGTGGAAGGCGGAGATAATGGCACATCCGTTGTATGAACAGTTGTTGTCGGCACATGTGGCGTGTTTGAGGATAGCAACGCCGGTGGATCAGTTACCGAGGATTGATGCTCAGTTAGCACAGTCTCAGAATGTGGTGGCCAAATACTCTGCGTTTGGTGGTGGAGTAGATGACAAAGAACTTGACCATTTCATGTCACACTATGTTTTATTGCTGTGTTCCTTCAAAGAACAATTGCAACAACATGTCCGCGTCCATGCAATGGAAGCTGTAATGGCTTGTTGGGAGATAGAGCAATCCTTACAAAGCCTAACAGGAGTTTCACCTGGAGAAGGTACAGGGGCAACAATGTCTGACGATGAAGATGAACAGGTAGATAGTGACGCAAATCTGTTCGATGGTAGTTTTGATGGCGATGCGGATAACATGGGATTTGGCCCTCTTATACCAACAGAGAATGAAAGGTCCCTAATGGAGCGTGTAAGACAAGAGCTTAAGCATGAATTGAAACATGGTTACAAGGAGAAAATTGTGGACATAAGAGAGGAAATTTTACGCAAGAGACGAGCTGGGAAACTTCCTGGTGACACAACTTCTGTCCTTAAGGCTTGGTGGCAATCACATTCCAAGTGGCCATATCCAACAGAGGAAGATAAAGCAAGGTTGGTGCAGGAAACTGGTTTGCAACTAAAGCAAATTAATAACTGGTTTATCAATCAAAGGAAGAGGAATTGGCACAGCAATCCTTCAACCTCTACTGTCTTGAAGAGCAAACGCAAAAGGGAGACTTAG
Protein sequence

>MsaT000654.1

MAYQNQHLSQELPIQHFTDQTNNNNSFRSILPDSPDPNSKPDSDPNNQLQTTPNWLNNAILRTHYTDNNNNNNNNDVTNDTDGNGASNFLNLQQTSDTVQTTGQWLARSILHRQHGEVIDNVTMAGEVEHELSNMKDNIDGDGLGGKSEVAVDGDGGGAGLVNWQMGRWKAEIMAHPLYEQLLSAHVACLRIATPVDQLPRIDAQLAQSQNVVAKYSAFGGGVDDKELDHFMSHYVLLLCSFKEQLQQHVRVHAMEAVMACWEIEQSLQSLTGVSPGEGTGATMSDDEDEQVDSDANLFDGSFDGDADNMGFGPLIPTENERSLMERVRQELKHELKHGYKEKIVDIREEILRKRRAGKLPGDTTSVLKAWWQSHSKWPYPTEEDKARLVQETGLQLKQINNWFINQRKRNWHSNPSTSTVLKSKRKRET*