AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040096

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040096 MtrunA17_Chr7g0265931 91.304 391 20 5 1 384 1 384 0.0 637
MsaG040096 MtrunA17_Chr4g0021261 62.385 109 38 3 74 181 26 132 1.23e-39 144
MsaG040096 MtrunA17_Chr4g0070591 50.340 147 51 5 63 202 6 137 5.78e-38 140
MsaG040096 MtrunA17_Chr5g0409471 62.037 108 29 4 74 181 17 112 9.49e-36 133
MsaG040096 MtrunA17_Chr8g0343881 58.559 111 42 3 74 182 12 120 1.39e-35 133
MsaG040096 MtrunA17_Chr2g0300511 55.556 126 41 4 63 182 4 120 2.04e-35 133
MsaG040096 MtrunA17_Chr1g0152191 54.545 121 43 3 69 181 140 256 4.07e-33 130
MsaG040096 MtrunA17_Chr3g0127641 46.087 115 36 2 74 184 113 205 1.80e-26 110
MsaG040096 MtrunA17_Chr8g0351521 41.060 151 64 5 77 221 58 189 1.09e-20 93.2
MsaG040096 MtrunA17_Chr8g0351521 60.784 51 20 0 137 187 302 352 2.61e-14 73.9
MsaG040096 MtrunA17_Chr8g0351291 58.000 50 21 0 137 186 51 100 1.22e-14 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040096 AT3G52910.1 47.242 417 137 17 1 375 1 376 3.60e-86 266
MsaG040096 AT4G37740.1 46.053 152 66 5 69 214 160 301 2.02e-33 130
MsaG040096 AT3G13960.1 54.545 110 46 3 74 181 17 124 3.16e-30 120
MsaG040096 AT2G22840.1 55.556 117 42 4 69 181 129 239 6.97e-29 118
MsaG040096 AT5G53660.1 31.290 310 144 10 74 359 60 324 2.66e-26 108
MsaG040096 AT4G24150.3 47.826 115 56 2 71 181 109 223 2.92e-25 106
MsaG040096 AT4G24150.2 47.826 115 56 2 71 181 147 261 5.44e-25 106
MsaG040096 AT2G06200.2 44.079 152 66 6 40 179 18 162 6.66e-25 103
MsaG040096 AT2G06200.1 50.427 117 47 4 74 179 7 123 6.82e-25 102
MsaG040096 AT2G36400.1 53.285 137 43 7 238 371 272 390 2.87e-22 97.8
MsaG040096 AT4G24150.1 40.714 140 54 3 71 181 147 286 4.62e-22 98.2
MsaG040096 AT2G45480.2 48.039 102 53 0 77 178 28 129 1.80e-21 94.4
MsaG040096 AT2G45480.3 48.039 102 53 0 77 178 28 129 6.68e-21 94.4
MsaG040096 AT2G45480.3 45.977 87 31 3 120 199 286 363 8.92e-17 82.0
MsaG040096 AT2G45480.1 48.039 102 53 0 77 178 26 127 7.10e-21 94.0
MsaG040096 AT2G45480.1 45.977 87 31 3 120 199 284 361 1.02e-16 81.6
MsaG040096 AT2G06200.3 71.111 45 11 1 137 179 7 51 2.09e-15 73.9

Find 99 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAGCTCTTCTCTTCAATTT+TGG 0.223402 7:-96608595 None:intergenic
AGGCCCACATTCTCATTTCT+TGG 0.238523 7:-96608840 None:intergenic
GTGGCAAGAACTTGAGTTAC+AGG 0.267624 7:+96604643 MsaT040096.1:CDS
AACAACAACTTCAATTGAAT+TGG 0.277393 7:+96608895 MsaT040096.1:CDS
CATCAGTTGCCACTTTGTTC+TGG 0.304860 7:+96609020 MsaT040096.1:CDS
GAAGAAATGTTGTTATTTCC+TGG 0.313041 7:-96608768 None:intergenic
TGAGCAGGGTGAAGAAGTTT+TGG 0.323925 7:-96604337 None:intergenic
TGATAATGATGAAGAAAATA+AGG 0.326826 7:-96604752 None:intergenic
TGGGCCCCATGCAGCTCCAC+TGG 0.330853 7:+96608570 MsaT040096.1:intron
TTGATAGGTTGAAGAAGTTC+AGG 0.344449 7:-96604707 None:intergenic
ATCCAGAGCCAGGTCGTTGC+CGG 0.359541 7:+96605029 MsaT040096.1:CDS
TGGATCGGAGGATGGAATTC+AGG 0.373096 7:+96608915 MsaT040096.1:CDS
GTTGCTGCTCAGTTTGTACT+AGG 0.384039 7:-96608860 None:intergenic
TAGTGTTGCAAAGTGGGTAC+TGG 0.393066 7:+96604990 MsaT040096.1:intron
CTCCGGCAACGACCTGGCTC+TGG 0.400600 7:-96605031 None:intergenic
TGTGCGAGGGATGTGGTGGC+TGG 0.410154 7:+96605076 MsaT040096.1:CDS
TGTTGGTGGTGTTGATGAGC+AGG 0.411541 7:-96604352 None:intergenic
TGCCTTAGCATTTGCCCACC+TGG 0.418969 7:-96608654 None:intergenic
CAAGTTGGTGACTTTGGTGT+TGG 0.425449 7:-96604407 None:intergenic
ATCTGACAAGTTGGTGACTT+TGG 0.426402 7:-96604413 None:intergenic
GCCACTGAGATAAGCTGAAA+TGG 0.433868 7:-96604625 None:intergenic
GTGACTTTGGTGTTGGGTTG+AGG 0.434579 7:-96604400 None:intergenic
GGTGGGGATGGAAGACCAGG+TGG 0.449072 7:+96608639 MsaT040096.1:CDS
GGAGCAATGGATCCAGAGCC+AGG 0.451345 7:+96605019 MsaT040096.1:CDS
TTGAAACTGTCCACTGGCTA+TGG 0.452129 7:+96608804 MsaT040096.1:CDS
CTTACTGGGAAATCTGTTGT+TGG 0.455528 7:-96604449 None:intergenic
GTTTCTCTGACTCATGCTGT+TGG 0.459512 7:-96604297 None:intergenic
AAGTTGGTGACTTTGGTGTT+GGG 0.464829 7:-96604406 None:intergenic
TACATTATTAGGAATGGGAA+TGG 0.465443 7:+96604598 MsaT040096.1:intron
GTGGGTGGGGATGGAAGACC+AGG 0.473317 7:+96608636 MsaT040096.1:CDS
AACTTAGGTGCTAATGTAGC+TGG 0.475819 7:-96609051 None:intergenic
ACATTCTCATTTCTTGGACA+TGG 0.480284 7:-96608834 None:intergenic
CAAAGTGGGTACTGGGGAAG+AGG 0.492409 7:+96604998 MsaT040096.1:CDS
GGGCCCCATGCAGCTCCACT+GGG 0.497465 7:+96608571 MsaT040096.1:intron
GTGGCGGTGTGCGAGGGATG+TGG 0.497767 7:+96605069 MsaT040096.1:CDS
AGGTAATCAAGTGTCTTCAA+TGG 0.501284 7:+96608935 MsaT040096.1:CDS
AGTGTTGCAAAGTGGGTACT+GGG 0.501618 7:+96604991 MsaT040096.1:intron
GTTGGTGTGGGAAGTTCCAC+AGG 0.502197 7:-96605151 None:intergenic
TGATTAAAGTGAAGATCAAA+AGG 0.508625 7:-96605259 None:intergenic
GGTAATCAAGTGTCTTCAAT+GGG 0.510631 7:+96608936 MsaT040096.1:CDS
GTTCCACAGGCTTTCTTGAA+CGG 0.512655 7:-96605138 None:intergenic
TGTCTCTCAATTTCAATGCC+AGG 0.516379 7:+96608750 MsaT040096.1:CDS
TCTGTTCTCCGGCAACGACC+TGG 0.516750 7:-96605037 None:intergenic
ACATTATTAGGAATGGGAAT+GGG 0.520045 7:+96604599 MsaT040096.1:intron
TTTGATATTTAGATACATGT+TGG 0.524543 7:+96604667 MsaT040096.1:CDS
CAACTTCAATTGAATTGGAT+CGG 0.524596 7:+96608900 MsaT040096.1:CDS
TTGTTTCGTATGAAAGTCCA+TGG 0.526188 7:-96604266 None:intergenic
AATTGAATTGGATCGGAGGA+TGG 0.528787 7:+96608907 MsaT040096.1:CDS
GACCAGGTGGGCAAATGCTA+AGG 0.530796 7:+96608652 MsaT040096.1:CDS
AACTGATGTAAAACACTAGT+AGG 0.531416 7:-96609005 None:intergenic
TTGATCTTCACTTTAATCAA+CGG 0.532715 7:+96605263 MsaT040096.1:CDS
AAGGAAGTGCAGGTGATTGT+TGG 0.537153 7:-96604369 None:intergenic
GATGATCATGTGGGTGGGGA+TGG 0.545887 7:+96608627 MsaT040096.1:CDS
CTTCCCACACCAACTAGTAA+TGG 0.551902 7:+96605160 MsaT040096.1:CDS
ATCAAAAGGAGATTTGAATG+AGG 0.554725 7:-96605245 None:intergenic
GTTGGTGGTGTTGATGAGCA+GGG 0.556192 7:-96604351 None:intergenic
ACCGCCATTACTAGTTGGTG+TGG 0.561256 7:-96605164 None:intergenic
ATATTTAGATACATGTTGGT+TGG 0.568638 7:+96604671 MsaT040096.1:CDS
ATGTCCAAGAAATGAGAATG+TGG 0.572914 7:+96608836 MsaT040096.1:CDS
ATCTGAAAGCGATGATCATG+TGG 0.576871 7:+96608617 MsaT040096.1:CDS
AAAAGGAGATTTGAATGAGG+AGG 0.578590 7:-96605242 None:intergenic
TAATGCTGAATCTGACAAGT+TGG 0.579106 7:-96604422 None:intergenic
GTACTGGGGAAGAGGAGCAA+TGG 0.581936 7:+96605006 MsaT040096.1:CDS
GATCCACCGCCATTACTAGT+TGG 0.583483 7:-96605169 None:intergenic
GGTACAAACAAAGGAAGTGC+AGG 0.589399 7:-96604379 None:intergenic
GATCTAAGTGCCTCAGCAAG+TGG 0.603514 7:-96608963 None:intergenic
GAAGTGCAGGTGATTGTTGG+TGG 0.603904 7:-96604366 None:intergenic
GCCATTTCAGCTTATCTCAG+TGG 0.605314 7:+96604624 MsaT040096.1:CDS
GCGGTGTGCGAGGGATGTGG+TGG 0.605687 7:+96605072 MsaT040096.1:CDS
ACACCAACTAGTAATGGCGG+TGG 0.613692 7:+96605166 MsaT040096.1:CDS
GGTCGTTGCCGGAGAACAGA+CGG 0.624707 7:+96605040 MsaT040096.1:CDS
TCAGACTCTTGCAGTGATCG+TGG 0.625243 7:-96608693 None:intergenic
GTGTCATTGAAACTGTCCAC+TGG 0.626952 7:+96608798 MsaT040096.1:CDS
CTTCAATTGAATTGGATCGG+AGG 0.627744 7:+96608903 MsaT040096.1:CDS
TGGACTTTCATACGAAACAA+TGG 0.628358 7:+96604269 MsaT040096.1:CDS
AATGGGAGGACCACTTGCTG+AGG 0.631048 7:+96608953 MsaT040096.1:CDS
AAAGCGATGATCATGTGGGT+GGG 0.634917 7:+96608622 MsaT040096.1:CDS
TGGTTCTTCTCCATAGCCAG+TGG 0.644987 7:-96608814 None:intergenic
TGTCCAAGAAATGAGAATGT+GGG 0.646445 7:+96608837 MsaT040096.1:CDS
CCGCCATTACTAGTTGGTGT+GGG 0.647594 7:-96605163 None:intergenic
TTGGGTTGAGGTACAAACAA+AGG 0.648493 7:-96604388 None:intergenic
GTGGGGATGGAAGACCAGGT+GGG 0.648878 7:+96608640 MsaT040096.1:CDS
AAACCGTTCAAGAAAGCCTG+TGG 0.653157 7:+96605135 MsaT040096.1:CDS
ATAGGTTGAAGAAGTTCAGG+AGG 0.653453 7:-96604704 None:intergenic
GAATGAAACTTACATGCTGT+AGG 0.658238 7:-96604776 None:intergenic
AATCAAGTGTCTTCAATGGG+AGG 0.663742 7:+96608939 MsaT040096.1:CDS
AAGCGATGATCATGTGGGTG+GGG 0.664729 7:+96608623 MsaT040096.1:CDS
ACAATGCTGAAAACAATGGT+GGG 0.670861 7:+96608715 MsaT040096.1:CDS
CATTGAAATTGAGAGACATG+TGG 0.678899 7:-96608745 None:intergenic
CCCACACCAACTAGTAATGG+CGG 0.678913 7:+96605163 MsaT040096.1:CDS
AATGAGGAGGAAGTAACAAG+AGG 0.678921 7:-96605229 None:intergenic
GAAAGCGATGATCATGTGGG+TGG 0.680119 7:+96608621 MsaT040096.1:CDS
GTTTCAGAACCAGAACAAAG+TGG 0.688512 7:-96609029 None:intergenic
GACAATGCTGAAAACAATGG+TGG 0.691801 7:+96608714 MsaT040096.1:CDS
GTGTTGCAAAGTGGGTACTG+GGG 0.700679 7:+96604992 MsaT040096.1:intron
TGAAATTGAGAGACATGTGG+AGG 0.728362 7:-96608742 None:intergenic
TCTGAAAGCGATGATCATGT+GGG 0.731403 7:+96608618 MsaT040096.1:CDS
TCTGACAATGCTGAAAACAA+TGG 0.732411 7:+96608711 MsaT040096.1:CDS
TGTGAAAGACACATGCATCG+TGG 0.747726 7:+96605109 MsaT040096.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 96604268 96609070 96604268 ID=MsaG040096
Chr7 mRNA 96604268 96609070 96604268 ID=MsaT040096.1;Parent=MsaG040096
Chr7 exon 96604268 96604466 96604268 ID=MsaT040096.1.exon1;Parent=MsaT040096.1
Chr7 CDS 96604268 96604466 96604268 ID=cds.MsaT040096.1;Parent=MsaT040096.1
Chr7 exon 96604609 96604785 96604609 ID=MsaT040096.1.exon2;Parent=MsaT040096.1
Chr7 CDS 96604609 96604785 96604609 ID=cds.MsaT040096.1;Parent=MsaT040096.1
Chr7 exon 96604993 96605284 96604993 ID=MsaT040096.1.exon3;Parent=MsaT040096.1
Chr7 CDS 96604993 96605284 96604993 ID=cds.MsaT040096.1;Parent=MsaT040096.1
Chr7 exon 96608584 96609070 96608584 ID=MsaT040096.1.exon4;Parent=MsaT040096.1
Chr7 CDS 96608584 96609070 96608584 ID=cds.MsaT040096.1;Parent=MsaT040096.1
Gene Sequence

>MsaT040096.1

ATGGACTTTCATACGAAACAATGGAGAAACCAACAGCATGAGTCAGAGAAACAACATTCCACAAAGATGCCAAAACTTCTTCACCCTGCTCATCAACACCACCAACAATCACCTGCACTTCCTTTGTTTGTACCTCAACCCAACACCAAAGTCACCAACTTGTCAGATTCAGCATTAGCTTCCAACAACAGATTTCCCAGAATGGGAATGGGAAGCCATTTCAGCTTATCTCAGTGGCAAGAACTTGAGTTACAGGCTTTGATATTTAGATACATGTTGGTTGGTGCTTCTGTTCCTCCTGAACTTCTTCAACCTATCAAGAAAAGTCTTCTTCATTCATCTCCTTATTTTCTTCATCATTATCAACCTACAGCATTGTTGCAAAGTGGGTACTGGGGAAGAGGAGCAATGGATCCAGAGCCAGGTCGTTGCCGGAGAACAGACGGTAAAAAGTGGCGGTGTGCGAGGGATGTGGTGGCTGGACAAAAGTACTGTGAAAGACACATGCATCGTGGTAGAAACCGTTCAAGAAAGCCTGTGGAACTTCCCACACCAACTAGTAATGGCGGTGGATCTTCATCTTTCTCTGCTTTGTCTTCTATTTCTTCACAGCCTCTTGTTACTTCCTCCTCATTCAAATCTCCTTTTGATCTTCACTTTAATCAACGCTCCACTGGGACCAAAATTGAAGAGAAGAGCTTATCTGAAAGCGATGATCATGTGGGTGGGGATGGAAGACCAGGTGGGCAAATGCTAAGGCATTTTTTTGACGATTGGCCACGATCACTGCAAGAGTCTGACAATGCTGAAAACAATGGTGGGTCATCCTCCACATGTCTCTCAATTTCAATGCCAGGAAATAACAACATTTCTTCTTCAGATGTGTCATTGAAACTGTCCACTGGCTATGGAGAAGAACCATGTCCAAGAAATGAGAATGTGGGCCTAGTACAAACTGAGCAGCAACAGCAACAGCAACAACAACAACTTCAATTGAATTGGATCGGAGGATGGAATTCAGGTAATCAAGTGTCTTCAATGGGAGGACCACTTGCTGAGGCACTTAGATCATCTACTTCAACTTCTTCACCTACTAGTGTTTTACATCAGTTGCCACTTTGTTCTGGTTCTGAAACCAGCTACATTAGCACCTAA
Protein sequence

>MsaT040096.1

MDFHTKQWRNQQHESEKQHSTKMPKLLHPAHQHHQQSPALPLFVPQPNTKVTNLSDSALASNNRFPRMGMGSHFSLSQWQELELQALIFRYMLVGASVPPELLQPIKKSLLHSSPYFLHHYQPTALLQSGYWGRGAMDPEPGRCRRTDGKKWRCARDVVAGQKYCERHMHRGRNRSRKPVELPTPTSNGGGSSSFSALSSISSQPLVTSSSFKSPFDLHFNQRSTGTKIEEKSLSESDDHVGGDGRPGGQMLRHFFDDWPRSLQESDNAENNGGSSSTCLSISMPGNNNISSSDVSLKLSTGYGEEPCPRNENVGLVQTEQQQQQQQQQLQLNWIGGWNSGNQVSSMGGPLAEALRSSTSTSSPTSVLHQLPLCSGSETSYIST*