AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019172

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019172 MtrunA17_Chr4g0012791 97.938 485 9 1 1 484 1 485 0.0 986
MsaG019172 MtrunA17_Chr4g0061301 38.788 165 81 4 224 385 345 492 1.52e-25 109
MsaG019172 MtrunA17_Chr4g0061301 26.357 387 207 13 6 334 4 370 9.47e-18 85.9
MsaG019172 MtrunA17_Chr1g0197281 35.345 232 113 10 158 380 98 301 3.69e-23 100
MsaG019172 MtrunA17_Chr5g0425411 40.940 149 67 2 227 375 119 246 1.60e-21 93.6
MsaG019172 MtrunA17_Chr5g0448611 44.737 114 49 3 227 335 130 234 1.63e-20 91.7
MsaG019172 MtrunA17_Chr7g0231181 36.310 168 49 5 215 382 231 340 6.59e-20 91.3
MsaG019172 MtrunA17_Chr1g0207451 32.500 200 51 6 136 335 39 154 6.10e-19 86.3
MsaG019172 MtrunA17_Chr1g0180311 34.978 223 106 10 161 380 80 266 2.31e-16 79.7
MsaG019172 MtrunA17_Chr3g0134711 29.048 210 67 5 134 335 30 165 5.95e-16 77.4
MsaG019172 MtrunA17_Chr2g0320311 30.041 243 115 9 158 380 71 278 7.94e-16 78.2
MsaG019172 MtrunA17_Chr4g0027991 36.686 169 75 6 226 380 112 262 6.03e-15 75.5
MsaG019172 MtrunA17_Chr1g0152661 29.817 218 87 6 157 364 38 199 4.43e-14 71.6
MsaG019172 MtrunA17_Chr1g0188911 28.837 215 119 7 177 379 1 193 1.72e-13 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019172 AT1G02040.1 36.437 247 99 8 136 377 89 282 1.57e-31 124
MsaG019172 AT4G35280.1 30.000 310 128 9 66 375 64 284 5.55e-27 110
MsaG019172 AT2G17180.1 28.076 317 115 8 71 387 57 260 4.34e-25 104
MsaG019172 AT5G03510.1 31.439 264 142 9 132 392 43 270 2.77e-21 94.4
MsaG019172 AT2G28200.1 32.377 244 114 9 148 380 58 261 8.71e-20 90.1
MsaG019172 AT3G60580.1 30.088 226 90 4 156 381 121 278 2.14e-19 89.0
MsaG019172 AT5G04390.1 29.457 258 111 9 158 380 96 317 8.21e-19 88.2
MsaG019172 AT3G10470.1 33.714 175 90 2 226 380 181 349 6.88e-18 85.9
MsaG019172 AT3G49930.1 31.188 202 74 5 134 335 36 172 8.37e-18 82.4
MsaG019172 AT5G56200.1 33.793 145 69 2 229 362 344 472 9.25e-18 86.3
MsaG019172 AT1G02030.1 29.012 324 143 10 78 384 7 260 1.14e-17 83.6
MsaG019172 AT3G19580.1 30.986 213 80 8 134 335 32 188 1.36e-16 80.5
MsaG019172 AT3G19580.2 30.986 213 80 8 134 335 32 188 1.36e-16 80.5
MsaG019172 AT5G67450.1 31.220 205 88 6 134 335 33 187 1.50e-16 79.7
MsaG019172 AT1G49900.1 36.364 110 37 3 226 335 192 268 3.25e-12 69.7

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCAATAACCCTACATTAA+TGG 0.180867 4:-24352095 MsaT019172.1:CDS
ATTTAGGTATTTGTTCTATT+TGG 0.213723 4:+24351915 None:intergenic
TCTGCCATGGCGTCGGATTC+TGG 0.241406 4:+24352637 None:intergenic
AGCCATTAATGTAGGGTTAT+TGG 0.241430 4:+24352093 None:intergenic
TCAGAAGAGTTATCAAATTT+AGG 0.259764 4:+24351899 None:intergenic
GGCAAAATTAAGTGAGTTAA+AGG 0.281586 4:-24351627 MsaT019172.1:CDS
AATGGTGCAATGAAATTCAT+AGG 0.324641 4:+24352388 None:intergenic
TTCAATTCACATCAAGCATT+AGG 0.345187 4:-24352271 MsaT019172.1:CDS
GAATACATACGTTTGTTACT+TGG 0.350695 4:+24352799 None:intergenic
TTTGGATGTGGAAGAGCATT+AGG 0.359877 4:-24352913 MsaT019172.1:CDS
TTGTCGGAGCCGGAAGATTA+AGG 0.360072 4:+24351855 None:intergenic
CCATGGTTGCAAGTTGGAAT+TGG 0.363083 4:-24351575 MsaT019172.1:CDS
CAAACTTGACCTTAATCTTC+CGG 0.388092 4:-24351864 MsaT019172.1:CDS
AAACAACAATAACAACAATA+AGG 0.396628 4:-24352344 MsaT019172.1:CDS
TGTCACAGGAGTTTCTCTTC+AGG 0.396944 4:-24352028 MsaT019172.1:CDS
TTCTCTTCAGGACAAGCATT+AGG 0.410263 4:-24352016 MsaT019172.1:CDS
AGGTCAAGTTTGAGATCAAT+TGG 0.419542 4:+24351875 None:intergenic
AATTGAACATTCATGCACTT+TGG 0.420744 4:+24352051 None:intergenic
GCTGAGGCACATGATTCTTC+CGG 0.421597 4:+24352436 None:intergenic
AGATCTTCTTCTTCACTTGA+AGG 0.423728 4:+24352514 None:intergenic
CCATAGAGCAAGTCACAAAA+AGG 0.435253 4:-24352245 MsaT019172.1:CDS
AAGTAACTTTGTGTATTTGT+CGG 0.446656 4:+24351839 None:intergenic
GATGAAGAAGCCATTAATGT+AGG 0.452698 4:+24352085 None:intergenic
TGATGATCCGGCGAGCGATT+GGG 0.454164 4:-24352839 MsaT019172.1:CDS
TCCTCAACAATACTATCATC+AGG 0.455329 4:+24352187 None:intergenic
TTCTTCATCTTTGCTAGCTG+AGG 0.456328 4:+24352420 None:intergenic
AAGGATGTAATTAACATTGG+TGG 0.466872 4:-24351608 MsaT019172.1:CDS
ATGGTGATGGCGTCAGTGGC+AGG 0.472265 4:-24352612 MsaT019172.1:CDS
TGATCCTCTTGAGGTTGAAC+CGG 0.478585 4:-24352455 MsaT019172.1:CDS
ATGATGATCCGGCGAGCGAT+TGG 0.479445 4:-24352840 MsaT019172.1:CDS
AGGCGATGAAACAAGTCAAA+TGG 0.487942 4:-24352866 MsaT019172.1:CDS
TGCTATTGTTGATCCTCTTG+AGG 0.500759 4:-24352464 MsaT019172.1:CDS
AGATGATAGCAAGGTTAAGC+TGG 0.510318 4:-24351648 MsaT019172.1:CDS
AAGGCCAAAGGTGTTGCAAA+AGG 0.512681 4:-24352325 MsaT019172.1:CDS
GAGGATGTGGCTGGTCGAAA+AGG 0.514988 4:-24352588 MsaT019172.1:CDS
ACATACGTTTGTTACTTGGT+GGG 0.515314 4:+24352803 None:intergenic
CCGGCGAGCGATTGGGAAGG+TGG 0.515356 4:-24352832 MsaT019172.1:CDS
AAACAACAACCTTAATGCAT+TGG 0.516007 4:-24351690 MsaT019172.1:CDS
TACATACGTTTGTTACTTGG+TGG 0.516103 4:+24352802 None:intergenic
TCAAATGGACGATGATGATC+CGG 0.517310 4:-24352851 MsaT019172.1:CDS
TTAAAGGATGTAATTAACAT+TGG 0.518467 4:-24351611 MsaT019172.1:CDS
AAATTGTATGGCTTTGATTG+TGG 0.523384 4:-24352983 None:intergenic
AGGTCGATGCGAACTAAAGT+AGG 0.524376 4:-24352562 MsaT019172.1:CDS
GTGGTCACAAGAGATGTCAT+TGG 0.533236 4:-24351994 MsaT019172.1:CDS
TCTTCACCATGGTTGCAAGT+TGG 0.534611 4:-24351581 MsaT019172.1:CDS
CTTTGTGTATTTGTCGGAGC+CGG 0.537814 4:+24351845 None:intergenic
CCACCTTCCCAATCGCTCGC+CGG 0.538021 4:+24352832 None:intergenic
GTCAGTGGCAGGAGAGGATG+TGG 0.539916 4:-24352601 MsaT019172.1:CDS
TCAACTCTACAATTTGATCA+TGG 0.541203 4:-24352121 MsaT019172.1:CDS
AAGAGGATCAACAATAGCAT+TGG 0.543537 4:+24352468 None:intergenic
ATGAATGTTCAATTTGTCAC+AGG 0.545564 4:-24352042 MsaT019172.1:CDS
GACGATGGTGATGGCGTCAG+TGG 0.546521 4:-24352616 MsaT019172.1:CDS
CCAATTCCAACTTGCAACCA+TGG 0.547493 4:+24351575 None:intergenic
AAGTTACTTGCAACCAACAT+GGG 0.550628 4:-24351825 MsaT019172.1:CDS
ATGAAGAAGCCATTAATGTA+GGG 0.551910 4:+24352086 None:intergenic
AAAGTTACTTGCAACCAACA+TGG 0.553541 4:-24351826 MsaT019172.1:CDS
CTAGCCAATGTTGATGTGTC+GGG 0.553643 4:+24351956 None:intergenic
GGAGGACATATGAGAGCTCA+TGG 0.556898 4:-24352892 MsaT019172.1:CDS
GTGGCTGGTCGAAAAGGAAA+AGG 0.562748 4:-24352582 MsaT019172.1:CDS
CTCTCCAGAATCCGACGCCA+TGG 0.566778 4:-24352641 MsaT019172.1:CDS
CATATGAGAGCTCATGGCAT+AGG 0.569691 4:-24352886 MsaT019172.1:CDS
GCCATCACCATCGTCTGCCA+TGG 0.569907 4:+24352624 None:intergenic
ATGGTGCAATGAAATTCATA+GGG 0.570005 4:+24352389 None:intergenic
TGGAAATCATTCCTCGAACA+CGG 0.572286 4:-24352706 MsaT019172.1:CDS
CCTAGCCAATGTTGATGTGT+CGG 0.581613 4:+24351955 None:intergenic
AATTCACATCAAGCATTAGG+TGG 0.583717 4:-24352268 MsaT019172.1:CDS
GTGGCAGGAGAGGATGTGGC+TGG 0.584863 4:-24352597 MsaT019172.1:CDS
CTTGAATTTGCACCCCATGT+TGG 0.585693 4:+24351812 None:intergenic
TGCACCCGACACATCAACAT+TGG 0.597550 4:-24351960 MsaT019172.1:CDS
CCGACACATCAACATTGGCT+AGG 0.600465 4:-24351955 MsaT019172.1:CDS
ACCATCGTCTGCCATGGCGT+CGG 0.604106 4:+24352630 None:intergenic
TCTTCCGGTTCAACCTCAAG+AGG 0.608243 4:+24352451 None:intergenic
TGATAATGAAGATGATAGCA+AGG 0.609766 4:-24351657 MsaT019172.1:CDS
CCTCAACAATACTATCATCA+GGG 0.616413 4:+24352188 None:intergenic
TGCAAATTCAAGTACAACAA+AGG 0.619130 4:-24351801 MsaT019172.1:CDS
TCTTCAGGACAAGCATTAGG+TGG 0.619434 4:-24352013 MsaT019172.1:CDS
AATAACAACAATAAGGCCAA+AGG 0.626216 4:-24352337 MsaT019172.1:CDS
CCCTGATGATAGTATTGTTG+AGG 0.628128 4:-24352188 MsaT019172.1:CDS
GATGGCGTCAGTGGCAGGAG+AGG 0.632559 4:-24352607 MsaT019172.1:CDS
GGATGTGGAAGAGCATTAGG+AGG 0.639239 4:-24352910 MsaT019172.1:CDS
GCCATGGCAGACGATGGTGA+TGG 0.647379 4:-24352625 MsaT019172.1:CDS
TCCGACGCCATGGCAGACGA+TGG 0.647564 4:-24352631 MsaT019172.1:CDS
TAGGGAATTCTATAAGACAA+TGG 0.648546 4:+24352370 None:intergenic
AAAGGACAACAACATCAAAG+AGG 0.651093 4:-24351783 MsaT019172.1:CDS
GATCCGGCGAGCGATTGGGA+AGG 0.658250 4:-24352835 MsaT019172.1:CDS
CATGGCGTCGGATTCTGGAG+AGG 0.659545 4:+24352642 None:intergenic
TTGGTGGAAGTTCTTCACCA+TGG 0.661371 4:-24351592 MsaT019172.1:CDS
TTGGTACAACAACTGATGTG+AGG 0.681780 4:-24351556 MsaT019172.1:CDS
AGTTACTTGCAACCAACATG+GGG 0.696443 4:-24351824 MsaT019172.1:CDS
TGTAGGGTGTGTGAGCATTG+TGG 0.711110 4:-24352745 MsaT019172.1:CDS
AAAATGCAACTCAGATGACG+CGG 0.742662 4:-24352683 MsaT019172.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 24351544 24352998 24351544 ID=MsaG019172
Chr4 mRNA 24351544 24352998 24351544 ID=MsaT019172.1;Parent=MsaG019172
Chr4 exon 24351544 24352998 24351544 ID=MsaT019172.1.exon1;Parent=MsaT019172.1
Chr4 CDS 24351544 24352998 24351544 ID=cds.MsaT019172.1;Parent=MsaT019172.1
Gene Sequence

>MsaT019172.1

ATGGCTTTGATTGTGGATCAACAATCAAACTTCAAACACTTTTGTAAAATTTGCAAAAAAGGCTTTGGATGTGGAAGAGCATTAGGAGGACATATGAGAGCTCATGGCATAGGCGATGAAACAAGTCAAATGGACGATGATGATCCGGCGAGCGATTGGGAAGGTGGCAATGTCCCACCAAGTAACAAACGTATGTATTCTTTAAGAACAAATCCTAATAAGCTAAAAAGTTGTAGGGTGTGTGAGCATTGTGGCAAAGAATTTTTTTCTTGGAAATCATTCCTCGAACACGGAAAATGCAACTCAGATGACGCGGATGAAGAGTTTATCATATCCTCTCCAGAATCCGACGCCATGGCAGACGATGGTGATGGCGTCAGTGGCAGGAGAGGATGTGGCTGGTCGAAAAGGAAAAGGTCGATGCGAACTAAAGTAGGAAGTTACAATAACAATTATAATAATCCTTCAAGTGAAGAAGAAGATCTAGCAAATTGTTTAATGATGTTGTCCAATGCTATTGTTGATCCTCTTGAGGTTGAACCGGAAGAATCATGTGCCTCAGCTAGCAAAGATGAAGAAAGAAGAAACCCTATGAATTTCATTGCACCATTGTCTTATAGAATTCCCTATGAAAACAACAATAACAACAATAAGGCCAAAGGTGTTGCAAAAGGATTATTTGAATGCAAAGCATGCAAAAAAGTTTTCAATTCACATCAAGCATTAGGTGGCCATAGAGCAAGTCACAAAAAGGTTAAGGGATGTTTTGCTGCAAGGCTTGATCAAAACCCTGATGATAGTATTGTTGAGGATGATGTCATCACACAAGATGAATTTTTTCCTTCAAAATCAAACTCAACTCTACAATTTGATCATGGCACTTCCAATAACCCTACATTAATGGCTTCTTCATCCAAGAGAAAATCCAAAGTGCATGAATGTTCAATTTGTCACAGGAGTTTCTCTTCAGGACAAGCATTAGGTGGTCACAAGAGATGTCATTGGATCACATCAAATGCACCCGACACATCAACATTGGCTAGGTTTCAACAATTTCAAGACCAAATAGAACAAATACCTAAATTTGATAACTCTTCTGAGCCAATTGATCTCAAACTTGACCTTAATCTTCCGGCTCCGACAAATACACAAAGTTACTTGCAACCAACATGGGGTGCAAATTCAAGTACAACAAAGGACAACAACATCAAAGAGGATAACAATAGCCAACAAAATCAAAACAAAAACCTAGTTGATCAAAATAATGAAACTCAAGAGAACAACAAAAACAACAACCTTAATGCATTGGTACAAAATGTTGATAATGAAGATGATAGCAAGGTTAAGCTGGCAAAATTAAGTGAGTTAAAGGATGTAATTAACATTGGTGGAAGTTCTTCACCATGGTTGCAAGTTGGAATTGGTACAACAACTGATGTGAGGAATGATACGTAA
Protein sequence

>MsaT019172.1

MALIVDQQSNFKHFCKICKKGFGCGRALGGHMRAHGIGDETSQMDDDDPASDWEGGNVPPSNKRMYSLRTNPNKLKSCRVCEHCGKEFFSWKSFLEHGKCNSDDADEEFIISSPESDAMADDGDGVSGRRGCGWSKRKRSMRTKVGSYNNNYNNPSSEEEDLANCLMMLSNAIVDPLEVEPEESCASASKDEERRNPMNFIAPLSYRIPYENNNNNNKAKGVAKGLFECKACKKVFNSHQALGGHRASHKKVKGCFAARLDQNPDDSIVEDDVITQDEFFPSKSNSTLQFDHGTSNNPTLMASSSKRKSKVHECSICHRSFSSGQALGGHKRCHWITSNAPDTSTLARFQQFQDQIEQIPKFDNSSEPIDLKLDLNLPAPTNTQSYLQPTWGANSSTTKDNNIKEDNNSQQNQNKNLVDQNNETQENNKNNNLNALVQNVDNEDDSKVKLAKLSELKDVINIGGSSSPWLQVGIGTTTDVRNDT*