AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006598

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006598 MtrunA17_Chr2g0283141 94.866 409 12 2 1 403 11 416 0.0 783
MsaG006598 MtrunA17_Chr7g0223471 43.897 426 171 19 1 394 11 400 2.36e-79 250
MsaG006598 MtrunA17_Chr4g0046231 35.362 345 185 9 64 394 1 321 7.97e-39 142
MsaG006598 MtrunA17_Chr6g0460691 66.667 60 20 0 37 96 24 83 3.57e-23 98.6
MsaG006598 MtrunA17_Chr7g0254251 65.152 66 22 1 29 94 13 77 2.39e-22 95.9
MsaG006598 MtrunA17_Chr7g0254251 43.333 60 34 0 334 393 201 260 2.37e-11 63.9
MsaG006598 MtrunA17_Chr4g0043891 44.286 70 39 0 40 109 3 72 1.13e-16 79.3
MsaG006598 MtrunA17_Chr5g0436661 31.858 113 73 1 45 153 33 145 1.19e-15 74.7
MsaG006598 MtrunA17_Chr8g0392991 50.000 62 31 0 45 106 96 157 1.56e-15 77.4
MsaG006598 MtrunA17_Chr3g0144021 37.363 91 56 1 14 104 52 141 3.64e-15 73.9
MsaG006598 MtrunA17_Chr1g0212511 44.615 65 36 0 43 107 83 147 3.70e-15 75.1
MsaG006598 MtrunA17_Chr4g0046251 59.322 59 24 0 335 393 21 79 4.03e-15 70.5
MsaG006598 MtrunA17_Chr7g0238431 43.836 73 41 0 39 111 2 74 1.30e-14 72.4
MsaG006598 MtrunA17_Chr5g0405351 42.667 75 42 1 39 112 24 98 2.48e-14 73.2
MsaG006598 MtrunA17_Chr4g0031341 50.000 60 30 0 45 104 25 84 4.47e-14 71.6
MsaG006598 MtrunA17_Chr1g0153171 50.000 60 30 0 45 104 90 149 8.57e-14 70.5
MsaG006598 MtrunA17_Chr7g0222981 42.424 66 38 0 39 104 62 127 1.31e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006598 AT2G33880.1 86.607 112 11 3 1 110 11 120 1.46e-59 198
MsaG006598 AT2G33880.2 85.088 114 13 3 1 112 11 122 1.70e-59 198
MsaG006598 AT5G45980.1 33.333 405 164 12 1 394 11 320 6.81e-56 187
MsaG006598 AT3G03660.1 64.286 70 24 1 28 96 15 84 1.11e-23 99.8
MsaG006598 AT3G03660.2 64.286 70 24 1 28 96 15 84 1.66e-23 100
MsaG006598 AT3G03660.4 64.286 70 24 1 28 96 15 84 3.16e-23 99.4
MsaG006598 AT3G03660.3 64.286 70 24 1 28 96 15 84 4.54e-23 99.4
MsaG006598 AT5G17810.3 67.797 59 18 1 39 96 14 72 2.44e-21 93.2
MsaG006598 AT5G17810.1 67.797 59 18 1 39 96 14 72 2.56e-21 93.2
MsaG006598 AT5G17810.2 67.797 59 18 1 39 96 14 72 2.56e-21 93.2
MsaG006598 AT3G18010.1 48.387 62 32 0 45 106 76 137 4.80e-15 76.3
MsaG006598 AT2G28610.1 48.529 68 35 0 39 106 2 69 6.64e-15 74.3
MsaG006598 AT5G05770.1 43.750 64 36 0 45 108 29 92 9.14e-15 70.9
MsaG006598 AT1G20700.2 46.774 62 33 0 43 104 31 92 9.67e-15 71.6
MsaG006598 AT3G11260.1 45.312 64 35 0 45 108 24 87 1.10e-14 72.4
MsaG006598 AT1G20700.1 46.774 62 33 0 43 104 93 154 2.10e-14 72.4
MsaG006598 AT1G20700.3 46.774 62 33 0 43 104 93 154 2.23e-14 72.0
MsaG006598 AT1G46480.2 50.000 60 30 0 45 104 90 149 3.55e-14 71.2
MsaG006598 AT4G35550.1 45.161 62 34 0 43 104 97 158 1.20e-13 71.2
MsaG006598 AT1G46480.1 50.000 60 30 0 45 104 90 149 1.87e-13 70.1
MsaG006598 AT2G01500.1 50.909 55 27 0 45 99 61 115 4.79e-13 69.3
MsaG006598 AT5G46010.1 47.619 63 32 1 41 102 50 112 1.00e-12 65.1
MsaG006598 AT5G59340.1 43.333 60 34 0 45 104 14 73 1.19e-12 68.2
MsaG006598 AT2G17950.1 46.032 63 33 1 45 106 38 100 1.95e-12 67.8

Find 104 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGATTCTGATTCTGATTC+TGG 0.081403 2:-7403837 None:intergenic
GAAATTTGAGAAAGTGAATT+AGG 0.145789 2:-7403880 None:intergenic
TGCTTCTTGATTTCCGGTTT+TGG 0.173525 2:-7403762 None:intergenic
TCTGATTCTGATTCTGGTTC+TGG 0.205293 2:-7403831 None:intergenic
GTGGCCTTTGAGGTTGCTTC+TGG 0.210381 2:+7405144 MsaT006598.1:CDS
CTTGAAGCTATCTTCAATTC+TGG 0.223036 2:+7403646 MsaT006598.1:CDS
TTTAATGTTCGTGCGGCATT+TGG 0.234206 2:+7405171 MsaT006598.1:CDS
TATGCTTGCTTCTTGATTTC+CGG 0.235078 2:-7403768 None:intergenic
TTGGCAGGTATTAACTCTTT+TGG 0.248241 2:-7403949 None:intergenic
GGTTCTGATTCTTAGAGTTT+TGG 0.251583 2:-7403810 None:intergenic
CCATTGGTGATGAGCGTTGC+AGG 0.264820 2:-7403333 None:intergenic
ATCTTCCTTATTTCTTCTCT+TGG 0.265783 2:-7403682 None:intergenic
TTAATGTTCGTGCGGCATTT+GGG 0.270781 2:+7405172 MsaT006598.1:CDS
ATGCGGATTTGTTCTGGTTT+AGG 0.278417 2:-7403622 None:intergenic
CCTTGTGATGTAACATTGTT+AGG 0.298506 2:-7404162 None:intergenic
TTAGGATTCCACCTTGGCTT+TGG 0.325140 2:-7403604 None:intergenic
TCAAGTATGCGGATTTGTTC+TGG 0.334510 2:-7403628 None:intergenic
AATGCCGCACGAACATTAAA+AGG 0.340006 2:-7405168 None:intergenic
GCTGAAAATATGTTTGGTTT+TGG 0.348978 2:-7404038 None:intergenic
CTGTTCTTGATCTTTCTTTG+AGG 0.356529 2:-7404310 None:intergenic
ACAGAAGCAGTTGGAGAATT+AGG 0.358074 2:-7404012 None:intergenic
GGCACGACATCATTGATGTT+AGG 0.358462 2:-7403991 None:intergenic
TTTGAGGCTGAAAATATGTT+TGG 0.371353 2:-7404044 None:intergenic
TTCCTTATTTCTTCTCTTGG+TGG 0.377528 2:-7403679 None:intergenic
TTCCACCTTGGCTTTGGCTC+AGG 0.379720 2:-7403598 None:intergenic
AAATTTGAGAAAGTGAATTA+GGG 0.380308 2:-7403879 None:intergenic
ATCCACCAAGAGAAGAAATA+AGG 0.413378 2:+7403677 MsaT006598.1:CDS
CCAGAATCAGAATCAGAATC+AGG 0.428113 2:+7403837 MsaT006598.1:CDS
GTAGGATGTAAAGCAGTAGT+AGG 0.440891 2:-7404402 None:intergenic
TATCAATGATGTGGCCTTTG+AGG 0.444367 2:+7405134 MsaT006598.1:CDS
AGAGCACAGTTGCAAGAGTA+TGG 0.448490 2:+7403706 MsaT006598.1:CDS
CCTTGCACTTGAGAAATGAT+TGG 0.452190 2:-7404453 None:intergenic
GCACGACATCATTGATGTTA+GGG 0.455091 2:-7403990 None:intergenic
TAGTGCAATTACCAGTGTTA+TGG 0.456754 2:-7404242 None:intergenic
TTCTTCCCAGTGCAACATCA+TGG 0.463536 2:+7404123 MsaT006598.1:CDS
CTCAAAGAAAGATCAAGAAC+AGG 0.467360 2:+7404311 MsaT006598.1:CDS
AGATATTTACCTGAGGAGTA+AGG 0.470017 2:-7403404 None:intergenic
CTTCTCTGAACTTTCCAACA+TGG 0.473593 2:+7404191 MsaT006598.1:CDS
ATCTCAGGCATTGGTGAACC+AGG 0.475607 2:+7405087 MsaT006598.1:intron
GCTGTTCTTGTACATCAAAC+TGG 0.484452 2:+7405201 MsaT006598.1:CDS
GAAAATAACATGCACCATGC+TGG 0.488247 2:-7405269 None:intergenic
TTACTTGTGGTGGTGGAAGA+AGG 0.488323 2:-7404077 None:intergenic
CCTTGTCCATGATGTTGCAC+TGG 0.500743 2:-7404129 None:intergenic
CCTAACAATGTTACATCACA+AGG 0.505250 2:+7404162 MsaT006598.1:CDS
CCAAGGGAAAACACTTTGGC+AGG 0.512254 2:-7403964 None:intergenic
CACAGAACCCCTTACTCCTC+AGG 0.516334 2:+7403395 MsaT006598.1:CDS
AGTGAAGAGTGACACCATAC+TGG 0.516391 2:-7405242 None:intergenic
TGTTCATGATCTCACTAAGC+AGG 0.516785 2:-7404272 None:intergenic
GTGATGGTGGAGGAAGTAGT+AGG 0.517817 2:-7404420 None:intergenic
GATATTTACCTGAGGAGTAA+GGG 0.525276 2:-7403403 None:intergenic
TAATGTTCGTGCGGCATTTG+GGG 0.529446 2:+7405173 MsaT006598.1:CDS
AAGAAGAAAGTCTCAGTAGC+TGG 0.533457 2:-7404105 None:intergenic
GGTGCAGTTACTTGTGGTGG+TGG 0.536505 2:-7404084 None:intergenic
TTGCAAGAGTATGGTCAAGT+TGG 0.545746 2:+7403715 MsaT006598.1:CDS
AGAGGAAGATGAAGAAGATG+AGG 0.547189 2:-7403914 None:intergenic
TCTGGTTTAGGATTCCACCT+TGG 0.548509 2:-7403610 None:intergenic
GTGATGTAACATTGTTAGGA+AGG 0.550298 2:-7404158 None:intergenic
TACTTGTGGTGGTGGAAGAA+GGG 0.555214 2:-7404076 None:intergenic
AGCTATCTTCAATTCTGGAA+TGG 0.556620 2:+7403651 MsaT006598.1:CDS
GCAAACAGATGTTCAGATGT+GGG 0.556845 2:-7404365 None:intergenic
GAAACCAAGGGAAAACACTT+TGG 0.561749 2:-7403968 None:intergenic
TGGTGATGGAACAGTGATGG+TGG 0.562128 2:-7404433 None:intergenic
CTTTATGGAAATAGGTTGTG+AGG 0.568240 2:+7403567 MsaT006598.1:intron
CCTGTGTTAACAAACCAGTA+TGG 0.574262 2:+7405228 MsaT006598.1:CDS
GGCAAACAGATGTTCAGATG+TGG 0.578783 2:-7404366 None:intergenic
CTTGTCCATGATGTTGCACT+GGG 0.582831 2:-7404128 None:intergenic
CATTGATGTTAGGGAAACCA+AGG 0.582855 2:-7403981 None:intergenic
ACTCTTCACTCACTCCAGCA+TGG 0.587267 2:+7405255 MsaT006598.1:CDS
TTGTGGTGGTGGAAGAAGGG+TGG 0.588333 2:-7404073 None:intergenic
CATTGGTGATGAGCGTTGCA+GGG 0.589564 2:-7403332 None:intergenic
GTAGCTGGTGCAGTTACTTG+TGG 0.590783 2:-7404090 None:intergenic
ATATTTACCTGAGGAGTAAG+GGG 0.590868 2:-7403402 None:intergenic
AGTTGATGTCATGCTGCCAT+TGG 0.593818 2:-7403349 None:intergenic
CCAATCATTTCTCAAGTGCA+AGG 0.594992 2:+7404453 MsaT006598.1:CDS
CTGAGGAGTAAGGGGTTCTG+TGG 0.596700 2:-7403394 None:intergenic
GAAGTCCTGAGCCAAAGCCA+AGG 0.598879 2:+7403593 MsaT006598.1:CDS
AGCAGTAGTAGGAGTTGTGG+CGG 0.598924 2:-7404391 None:intergenic
AAACAGATGTTCAGATGTGG+GGG 0.599793 2:-7404363 None:intergenic
CCTGCAACGCTCATCACCAA+TGG 0.602693 2:+7403333 MsaT006598.1:CDS
GAGGAAGATGAAGAAGATGA+GGG 0.606521 2:-7403913 None:intergenic
TGAAGATAGCTTCAAGTATG+CGG 0.609197 2:-7403639 None:intergenic
TGCTGACCATGTGATTGAGC+AGG 0.611105 2:-7404216 None:intergenic
ACTTGAGAAATGATTGGTGA+TGG 0.612515 2:-7404447 None:intergenic
CAAACAGATGTTCAGATGTG+GGG 0.614296 2:-7404364 None:intergenic
TAAAGCAGTAGTAGGAGTTG+TGG 0.614312 2:-7404394 None:intergenic
CCATACTGGTTTGTTAACAC+AGG 0.617631 2:-7405228 None:intergenic
GCTGGTGCAGTTACTTGTGG+TGG 0.617972 2:-7404087 None:intergenic
AGGTCCAGAAGCAACCTCAA+AGG 0.623758 2:-7405148 None:intergenic
ATGGTTCCTGCTCAATCACA+TGG 0.625439 2:+7404210 MsaT006598.1:CDS
GTAGTAGGAGTTGTGGCGGG+TGG 0.627094 2:-7404387 None:intergenic
CCAGTGCAACATCATGGACA+AGG 0.635853 2:+7404129 MsaT006598.1:CDS
GCAGTAGTAGGAGTTGTGGC+GGG 0.640862 2:-7404390 None:intergenic
GTCCTGAGCCAAAGCCAAGG+TGG 0.648407 2:+7403596 MsaT006598.1:CDS
TGATGGAACAGTGATGGTGG+AGG 0.659694 2:-7404430 None:intergenic
TGATTGAGCAGGAACCATGT+TGG 0.662612 2:-7404205 None:intergenic
ATTGATGTTAGGGAAACCAA+GGG 0.665295 2:-7403980 None:intergenic
GATTGGTGATGGAACAGTGA+TGG 0.666900 2:-7404436 None:intergenic
CTAACAATGTTACATCACAA+GGG 0.668058 2:+7404163 MsaT006598.1:CDS
GGTCAGCAACACCATAACAC+TGG 0.670176 2:+7404231 MsaT006598.1:CDS
AGTGAGATCATGAACAACCA+TGG 0.690840 2:+7404279 MsaT006598.1:CDS
TCTTTGAGGAATTAACACCA+TGG 0.698293 2:-7404296 None:intergenic
AGTGGTGTTTATCAATGATG+TGG 0.701398 2:+7405125 MsaT006598.1:CDS
AACAGATGTTCAGATGTGGG+GGG 0.713218 2:-7404362 None:intergenic
AGGTGTTGCTGCAAAATCAG+TGG 0.717993 2:+7405107 MsaT006598.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 7403317 7405418 7403317 ID=MsaG006598
Chr2 mRNA 7403317 7405418 7403317 ID=MsaT006598.1;Parent=MsaG006598
Chr2 exon 7403317 7403416 7403317 ID=MsaT006598.1.exon1;Parent=MsaT006598.1
Chr2 CDS 7403317 7403416 7403317 ID=cds.MsaT006598.1;Parent=MsaT006598.1
Chr2 exon 7403581 7404474 7403581 ID=MsaT006598.1.exon2;Parent=MsaT006598.1
Chr2 CDS 7403581 7404474 7403581 ID=cds.MsaT006598.1;Parent=MsaT006598.1
Chr2 exon 7405094 7405282 7405094 ID=MsaT006598.1.exon3;Parent=MsaT006598.1
Chr2 CDS 7405094 7405282 7405094 ID=cds.MsaT006598.1;Parent=MsaT006598.1
Chr2 exon 7405390 7405418 7405390 ID=MsaT006598.1.exon4;Parent=MsaT006598.1
Chr2 CDS 7405390 7405418 7405390 ID=cds.MsaT006598.1;Parent=MsaT006598.1
Gene Sequence

>MsaT006598.1

ATGTTTAAGTCTAAGCCCTGCAACGCTCATCACCAATGGCAGCATGACATCAACTCTTCTCTCATCTCATCTGCTTGCCACAGAACCCCTTACTCCTCAGGTTGTGAGGAGAGAAGTCCTGAGCCAAAGCCAAGGTGGAATCCTAAACCAGAACAAATCCGCATACTTGAAGCTATCTTCAATTCTGGAATGGTGAATCCACCAAGAGAAGAAATAAGGAAGATTAGAGCACAGTTGCAAGAGTATGGTCAAGTTGGTGATGCTAATGTTTTCTATTGGTTCCAAAACCGGAAATCAAGAAGCAAGCATAAGCTTCGCCATCTCCAAAACCAAAACTCTAAGAATCAGAACCAGAACCAGAATCAGAATCAGAATCAGGATCAACCTCTACAACAAAACCCTAATTCACTTTCTCAAATTTCTGCTACTGTACCCTCATCTTCTTCATCTTCCTCTGAGAAATCTCCACCAAAAGAGTTAATACCTGCCAAAGTGTTTTCCCTTGGTTTCCCTAACATCAATGATGTCGTGCCTAATTCTCCAACTGCTTCTGTGAACCAAAACCAAACATATTTTCAGCCTCAAAATGTAACCACCCTTCTTCCACCACCACAAGTAACTGCACCAGCTACTGAGACTTTCTTCTTCCCAGTGCAACATCATGGACAAGGAATAGTCCTTCCTAACAATGTTACATCACAAGGGTTTTGCTTCTCTGAACTTTCCAACATGGTTCCTGCTCAATCACATGGTCAGCAACACCATAACACTGGTAATTGCACTACTAGTTTCCTGCTTAGTGAGATCATGAACAACCATGGTGTTAATTCCTCAAAGAAAGATCAAGAACAGGATAAGTCTGTGAAAATAATGCACCAAATCCCCCCACATCTGAACATCTGTTTGCCACCCGCCACAACTCCTACTACTGCTTTACATCCTACTACTTCCTCCACCATCACTGTTCCATCACCAATCATTTCTCAAGTGCAAGGCATTGGTGAACCAGGTGTTGCTGCAAAATCAGTGGTGTTTATCAATGATGTGGCCTTTGAGGTTGCTTCTGGACCTTTTAATGTTCGTGCGGCATTTGGGGATGATGCTGTTCTTGTACATCAAACTGGTCAGCCTGTGTTAACAAACCAGTATGGTGTCACTCTTCACTCACTCCAGCATGGTGCATATGTAGGGGAAAAAAATGCTGGAGAGTGA
Protein sequence

>MsaT006598.1

MFKSKPCNAHHQWQHDINSSLISSACHRTPYSSGCEERSPEPKPRWNPKPEQIRILEAIFNSGMVNPPREEIRKIRAQLQEYGQVGDANVFYWFQNRKSRSKHKLRHLQNQNSKNQNQNQNQNQNQDQPLQQNPNSLSQISATVPSSSSSSSEKSPPKELIPAKVFSLGFPNINDVVPNSPTASVNQNQTYFQPQNVTTLLPPPQVTAPATETFFFPVQHHGQGIVLPNNVTSQGFCFSELSNMVPAQSHGQQHHNTGNCTTSFLLSEIMNNHGVNSSKKDQEQDKSVKIMHQIPPHLNICLPPATTPTTALHPTTSSTITVPSPIISQVQGIGEPGVAAKSVVFINDVAFEVASGPFNVRAAFGDDAVLVHQTGQPVLTNQYGVTLHSLQHGAYVGEKNAGE*