AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030556

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030556 MtrunA17_Chr6g0460731 92.167 383 15 3 1 383 1 368 0.0 683
MsaG030556 MtrunA17_Chr6g0460721 73.569 367 59 6 1 367 1 329 0.0 520
MsaG030556 MtrunA17_Chr7g0254161 50.263 380 136 10 15 383 12 349 1.73e-112 335
MsaG030556 MtrunA17_Chr7g0217581 46.907 194 74 7 56 246 191 358 3.37e-42 155
MsaG030556 MtrunA17_Chr6g0453321 32.951 349 165 10 55 383 96 395 3.48e-42 154
MsaG030556 MtrunA17_Chr4g0042481 34.161 322 147 12 9 289 4 301 2.54e-41 151
MsaG030556 MtrunA17_Chr3g0092111 37.736 265 110 10 50 281 98 340 6.38e-41 150
MsaG030556 MtrunA17_Chr8g0355261 33.459 266 114 8 41 289 67 286 6.63e-37 139
MsaG030556 MtrunA17_Chr5g0417571 53.509 114 44 2 55 162 99 209 2.65e-34 129
MsaG030556 MtrunA17_Chr5g0417601 52.294 109 49 1 54 162 100 205 1.62e-30 120
MsaG030556 MtrunA17_Chr2g0283811 77.419 62 14 0 89 150 39 100 3.21e-30 114
MsaG030556 MtrunA17_Chr5g0417551 62.791 86 27 2 65 150 100 180 1.88e-29 117
MsaG030556 MtrunA17_Chr5g0417561 57.778 90 32 2 61 150 89 172 7.95e-29 115
MsaG030556 MtrunA17_Chr8g0367161 47.872 94 36 2 59 152 7 87 3.56e-24 102
MsaG030556 MtrunA17_Chr8g0346551 60.317 63 25 0 92 154 19 81 1.03e-23 99.4
MsaG030556 MtrunA17_Chr4g0047001 44.762 105 48 2 56 152 8 110 1.79e-23 100
MsaG030556 MtrunA17_Chr4g0010151 60.656 61 24 0 90 150 75 135 1.81e-23 100
MsaG030556 MtrunA17_Chr3g0127201 54.930 71 32 0 81 151 11 81 3.47e-23 98.2
MsaG030556 MtrunA17_Chr4g0030051 56.579 76 32 1 75 149 18 93 3.48e-23 98.2
MsaG030556 MtrunA17_Chr2g0326001 55.263 76 33 1 76 150 18 93 4.04e-23 98.2
MsaG030556 MtrunA17_Chr8g0374251 52.703 74 35 0 97 170 68 141 7.49e-23 98.2
MsaG030556 MtrunA17_Chr2g0328021 56.716 67 29 0 84 150 49 115 1.17e-22 96.7
MsaG030556 MtrunA17_Chr4g0031411 61.667 60 23 0 90 149 68 127 1.65e-22 97.1
MsaG030556 MtrunA17_Chr8g0374111 42.623 122 63 3 97 218 29 143 2.02e-22 94.7
MsaG030556 MtrunA17_Chr2g0282051 67.241 58 18 1 95 152 44 100 1.17e-21 93.6
MsaG030556 MtrunA17_Chr2g0308011 69.388 49 15 0 97 145 37 85 1.43e-21 92.0
MsaG030556 MtrunA17_Chr2g0282441 54.688 64 29 0 85 148 13 76 2.02e-21 94.0
MsaG030556 MtrunA17_Chr1g0188851 47.500 80 37 1 75 149 16 95 2.22e-21 93.2
MsaG030556 MtrunA17_Chr7g0237921 53.521 71 31 1 82 150 59 129 2.28e-21 94.0
MsaG030556 MtrunA17_Chr4g0047761 50.549 91 29 2 77 152 37 126 2.63e-21 93.6
MsaG030556 MtrunA17_Chr8g0341671 65.385 52 18 0 97 148 20 71 2.74e-21 91.3
MsaG030556 MtrunA17_Chr4g0061761 64.151 53 19 0 95 147 38 90 4.58e-21 92.8
MsaG030556 MtrunA17_Chr7g0223311 67.308 52 17 0 98 149 78 129 5.61e-21 93.2
MsaG030556 MtrunA17_Chr3g0126201 54.167 72 31 1 81 150 33 104 2.28e-20 90.9
MsaG030556 MtrunA17_Chr5g0411951 60.000 55 22 0 93 147 39 93 2.61e-20 90.9
MsaG030556 MtrunA17_Chr2g0282511 67.347 49 16 0 97 145 45 93 6.31e-20 89.4
MsaG030556 MtrunA17_Chr3g0117601 56.452 62 26 1 87 147 50 111 1.07e-19 89.4
MsaG030556 MtrunA17_Chr1g0177251 65.385 52 18 0 99 150 14 65 1.27e-19 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030556 AT3G47500.1 56.667 120 46 3 53 172 71 184 3.02e-39 145
MsaG030556 AT5G39660.3 44.828 174 61 6 63 221 92 245 9.56e-36 136
MsaG030556 AT5G39660.1 44.828 174 61 6 63 221 92 245 9.56e-36 136
MsaG030556 AT5G39660.2 44.828 174 61 6 63 221 92 245 9.56e-36 136
MsaG030556 AT5G62430.1 52.137 117 49 2 64 178 26 137 6.78e-35 130
MsaG030556 AT2G34140.1 58.065 93 26 1 71 150 19 111 1.00e-33 124
MsaG030556 AT1G26790.1 48.951 143 60 4 55 184 67 209 1.15e-33 129
MsaG030556 AT1G69570.1 45.385 130 43 2 85 213 120 222 3.45e-31 122
MsaG030556 AT1G29160.1 78.333 60 13 0 91 150 56 115 3.87e-31 117
MsaG030556 AT3G55370.1 57.143 70 30 0 93 162 72 141 1.94e-24 102
MsaG030556 AT3G55370.2 57.143 70 30 0 93 162 72 141 2.23e-24 103
MsaG030556 AT3G55370.3 57.143 70 30 0 93 162 117 186 4.69e-24 102
MsaG030556 AT2G28810.2 40.000 100 57 1 52 148 29 128 5.11e-23 99.0
MsaG030556 AT2G28810.1 40.000 100 57 1 52 148 46 145 5.85e-23 99.0
MsaG030556 AT5G60200.1 59.375 64 26 0 91 154 49 112 7.62e-23 97.1
MsaG030556 AT3G21270.1 69.811 53 16 0 97 149 29 81 1.12e-22 95.1
MsaG030556 AT2G37590.1 62.069 58 22 0 93 150 85 142 1.79e-22 97.4
MsaG030556 AT3G45610.1 45.055 91 42 2 93 175 36 126 2.37e-22 95.1
MsaG030556 AT1G51700.1 52.857 70 31 1 79 148 17 84 4.14e-22 93.2
MsaG030556 AT1G28310.1 64.286 56 20 0 97 152 27 82 1.34e-21 94.7
MsaG030556 AT3G61850.2 61.017 59 23 0 92 150 57 115 1.35e-21 94.0
MsaG030556 AT3G61850.3 61.017 59 23 0 92 150 57 115 1.35e-21 94.0
MsaG030556 AT4G24060.1 56.923 65 28 0 86 150 42 106 1.47e-21 95.1
MsaG030556 AT1G28310.2 64.286 56 20 0 97 152 51 106 1.48e-21 94.7
MsaG030556 AT3G61850.1 61.017 59 23 0 92 150 69 127 1.82e-21 94.0
MsaG030556 AT5G60850.1 66.667 54 18 0 97 150 51 104 1.94e-21 94.0
MsaG030556 AT3G61850.5 61.017 59 23 0 92 150 57 115 2.46e-21 94.0
MsaG030556 AT1G07640.1 66.038 53 18 0 97 149 21 73 2.55e-21 93.2
MsaG030556 AT3G50410.1 66.038 53 18 0 97 149 30 82 2.76e-21 92.4
MsaG030556 AT2G28510.1 66.071 56 19 0 99 154 50 105 2.84e-21 93.2
MsaG030556 AT3G61850.4 61.017 59 23 0 92 150 69 127 2.89e-21 94.0
MsaG030556 AT1G07640.2 66.038 53 18 0 97 149 77 129 3.86e-21 93.6
MsaG030556 AT5G02460.1 59.016 61 25 0 90 150 88 148 4.51e-21 94.4
MsaG030556 AT5G66940.1 53.425 73 27 1 84 156 26 91 4.70e-21 91.3
MsaG030556 AT1G07640.3 66.038 53 18 0 97 149 85 137 5.24e-21 93.2
MsaG030556 AT5G65590.1 64.815 54 19 0 97 150 41 94 6.41e-21 92.8
MsaG030556 AT4G00940.1 52.778 72 30 1 85 152 52 123 1.96e-20 90.9
MsaG030556 AT4G00940.3 52.778 72 30 1 85 152 52 123 1.96e-20 90.9
MsaG030556 AT4G00940.2 52.778 72 30 1 85 152 52 123 1.96e-20 90.9
MsaG030556 AT1G21340.1 42.553 94 53 1 99 191 40 133 4.94e-20 89.4
MsaG030556 AT5G62940.1 39.450 109 50 2 55 147 15 123 7.21e-20 90.5
MsaG030556 AT4G21050.1 47.436 78 39 1 77 152 2 79 7.99e-20 87.4
MsaG030556 AT4G38000.1 49.367 79 38 2 96 172 40 118 1.01e-19 87.8
MsaG030556 AT3G52440.1 63.462 52 19 0 99 150 27 78 2.13e-19 87.0
MsaG030556 AT1G64620.1 53.333 60 28 0 86 145 38 97 2.53e-19 88.6
MsaG030556 AT1G47655.1 65.306 49 17 0 97 145 29 77 3.40e-19 85.5
MsaG030556 AT3G52440.2 63.462 52 19 0 99 150 46 97 3.43e-19 87.0
MsaG030556 AT2G46590.1 58.491 53 22 0 92 144 63 115 1.32e-18 86.7
MsaG030556 AT2G46590.2 58.491 53 22 0 92 144 75 127 1.55e-18 86.7
MsaG030556 AT4G21040.1 48.611 72 37 0 99 170 27 98 9.42e-16 76.3
MsaG030556 AT4G21080.1 50.877 57 28 0 99 155 27 83 1.10e-14 73.6

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGGTATTGTCCTAAAATT+TGG 0.197738 6:+9978767 MsaT030556.1:CDS
CAATCTTGTCTGGTTTCTTT+AGG 0.212759 6:-9978445 None:intergenic
TAGAAACCAACGACTCTTCT+AGG 0.239536 6:+9978690 MsaT030556.1:CDS
TTGGAACAATGTTACTTCTA+TGG 0.251370 6:+9979033 MsaT030556.1:CDS
GGTAACAATTGTAGAGAAAA+TGG 0.277928 6:+9978869 MsaT030556.1:CDS
GGTGAGTTCTTCTCAGATTC+AGG 0.283209 6:+9977304 MsaT030556.1:CDS
AAGATTAAGCATTGAACCTT+TGG 0.298547 6:-9978816 None:intergenic
TCTTCTAGTTTCATGCTCTT+TGG 0.299226 6:+9977269 MsaT030556.1:CDS
TTTAGGTGTTCAAATGATAA+TGG 0.318424 6:+9978749 MsaT030556.1:CDS
GTCGGAGTTGTCACAGATAT+TGG 0.320960 6:+9978549 MsaT030556.1:CDS
TTGTTCCAACTTTGATTCAT+TGG 0.340788 6:-9979019 None:intergenic
ATTTACCATGGTTGTAGAAT+TGG 0.341653 6:-9977327 None:intergenic
AAGCACTGTGGAAGATAATA+TGG 0.348391 6:+9978394 MsaT030556.1:CDS
CCTTTGTATGGTAGTGGAAA+TGG 0.370217 6:+9979202 MsaT030556.1:CDS
ATGCAGATGTGTAACCCTTA+TGG 0.380909 6:+9979067 MsaT030556.1:CDS
AGAGTCGTTGGTTTCTAAAC+TGG 0.381811 6:-9978684 None:intergenic
GGACATTGAACAATCTTGTC+TGG 0.411323 6:-9978455 None:intergenic
ACAAATTGCAAGCCAATGTT+TGG 0.418330 6:-9979154 None:intergenic
GCTCTTTGGTAAGAAGATTC+CGG 0.421687 6:+9977283 MsaT030556.1:CDS
TGCAGTAACTCAAAGCATAA+AGG 0.422749 6:+9978293 MsaT030556.1:CDS
AGGTTTAGACCTATTCTGTT+CGG 0.445629 6:-9978963 None:intergenic
AATGCAACCATTTGAACCTA+TGG 0.446070 6:-9979233 None:intergenic
GTGTCACGCGCCGAGGGTTG+CGG 0.447216 6:+9979114 MsaT030556.1:CDS
AGAGCTACCCTGCACCTTCA+TGG 0.447832 6:+9978990 MsaT030556.1:CDS
ACTAGTAATAGTTGTATCTC+AGG 0.449615 6:+9979274 MsaT030556.1:CDS
AATTTGTTCCTGCATCAAAC+AGG 0.461385 6:+9979170 MsaT030556.1:CDS
AGAAATGTTGCTGTCGGTGC+AGG 0.467099 6:+9978590 MsaT030556.1:CDS
GTTCCATTCCTGTTTGATGC+AGG 0.467432 6:-9979178 None:intergenic
TTCATTGGAATTATCCATGA+AGG 0.472286 6:-9979004 None:intergenic
TTGCATCAACATTTCTCTTG+TGG 0.474797 6:-9978844 None:intergenic
TATTGTCCTAAAATTTGGTC+GGG 0.484036 6:+9978772 MsaT030556.1:CDS
TATTCGAATCCGAACAGAAT+AGG 0.487381 6:+9978954 MsaT030556.1:CDS
GAAGTAGGATCAATGCCATA+AGG 0.489322 6:-9979082 None:intergenic
GGAATTATCCATGAAGGTGC+AGG 0.491213 6:-9978998 None:intergenic
CATGTGTGTTTGCCAAGGAT+TGG 0.493826 6:-9979307 None:intergenic
AATAGTTGTATCTCAGGTAA+TGG 0.494093 6:+9979280 MsaT030556.1:CDS
GGAACACCTTTGTATGGTAG+TGG 0.497692 6:+9979196 MsaT030556.1:CDS
TTGCTGTCGGTGCAGGGAGA+CGG 0.499466 6:+9978597 MsaT030556.1:CDS
TAATTCCAATGAATCAAAGT+TGG 0.500347 6:+9979014 MsaT030556.1:CDS
TGCAGTGGTGTCACGCGCCG+AGG 0.505833 6:+9979107 MsaT030556.1:CDS
ATTTCTCATTGTTCCACCGT+TGG 0.510921 6:-9978573 None:intergenic
GCAGTGGTGTCACGCGCCGA+GGG 0.511659 6:+9979108 MsaT030556.1:CDS
GGTAATGGCACACCAATCCT+TGG 0.524374 6:+9979295 MsaT030556.1:CDS
AGGAATGGAACACCTTTGTA+TGG 0.533609 6:+9979190 MsaT030556.1:CDS
TTGGTACCTAGAAGAGTCGT+TGG 0.535519 6:-9978696 None:intergenic
GTATTGTCCTAAAATTTGGT+CGG 0.547769 6:+9978771 MsaT030556.1:CDS
ATTCAACATTTGAGCCATGT+TGG 0.548791 6:-9978715 None:intergenic
AATGTGTCCATAGGTTCAAA+TGG 0.549266 6:+9979226 MsaT030556.1:CDS
GTTCCTGCATCAAACAGGAA+TGG 0.554691 6:+9979175 MsaT030556.1:CDS
AAGAGAAATGTTGATGCAAG+TGG 0.555436 6:+9978848 MsaT030556.1:CDS
TGTGTATCGTCTGTGACAAA+CGG 0.557160 6:+9978911 MsaT030556.1:CDS
ACCTTTGGATTCATCGAGAG+AGG 0.559535 6:-9978801 None:intergenic
AAGTAGGATCAATGCCATAA+GGG 0.561604 6:-9979081 None:intergenic
GGAAATGGAAATGTGTCCAT+AGG 0.578755 6:+9979217 MsaT030556.1:CDS
TTGGTTTCTAAACTGGCGGT+CGG 0.586129 6:-9978677 None:intergenic
AATCTCATGTGTGTTTGCCA+AGG 0.586652 6:-9979312 None:intergenic
TGACACCACTGCATTGAAGT+AGG 0.587068 6:-9979097 None:intergenic
ATCAACCTCGGCATTTCTGT+CGG 0.588083 6:+9978531 MsaT030556.1:CDS
ATGTTTGTAACCGCAACCCT+CGG 0.590311 6:-9979124 None:intergenic
TCAGGCCAATTCTACAACCA+TGG 0.595350 6:+9977322 MsaT030556.1:CDS
GGTGCAGGGTAGCTCTGCAT+AGG 0.600830 6:-9978983 None:intergenic
CACATGATTGTAGTGTCCGA+TGG 0.602575 6:+9978650 MsaT030556.1:CDS
GTCGTTGGTTTCTAAACTGG+CGG 0.606694 6:-9978681 None:intergenic
CCATTTCCACTACCATACAA+AGG 0.611279 6:-9979202 None:intergenic
CTCAAATGTTGAATCTGCTG+CGG 0.611992 6:+9978724 MsaT030556.1:CDS
GCCTCTCTCGATGAATCCAA+AGG 0.612065 6:+9978800 MsaT030556.1:CDS
TTACTAGTAGTAGATGAAGA+AGG 0.612171 6:-9979259 None:intergenic
CACAGATATTGGACCAACGG+TGG 0.629754 6:+9978560 MsaT030556.1:CDS
TGAATCTGAGAAGAACTCAC+CGG 0.630634 6:-9977302 None:intergenic
GAATTATCCATGAAGGTGCA+GGG 0.632904 6:-9978997 None:intergenic
TGTCACAGATATTGGACCAA+CGG 0.638912 6:+9978557 MsaT030556.1:CDS
ACTGGCGGTCGGAATTCCAT+CGG 0.649455 6:-9978666 None:intergenic
TTGATCCTACTTCAATGCAG+TGG 0.649462 6:+9979092 MsaT030556.1:CDS
GTGACAAACGGTCATACTCG+AGG 0.662893 6:+9978923 MsaT030556.1:CDS
GAAATGTTGCTGTCGGTGCA+GGG 0.663844 6:+9978591 MsaT030556.1:CDS
CAACTCCGACAGAAATGCCG+AGG 0.680790 6:-9978536 None:intergenic
ACTACAACGTCAATCAACCT+CGG 0.682406 6:+9978519 MsaT030556.1:CDS
GACTCTTCTAGGTACCAACA+TGG 0.687547 6:+9978701 MsaT030556.1:CDS
ACAATGAGAAATGTTGCTGT+CGG 0.691886 6:+9978584 MsaT030556.1:CDS
CATCGGACACTACAATCATG+TGG 0.695881 6:-9978649 None:intergenic
CAATTGTAGAGAAAATGGAG+AGG 0.705347 6:+9978874 MsaT030556.1:CDS
AAAAGTGAACACAAGCACTG+TGG 0.727270 6:+9978382 MsaT030556.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 9977236 9979330 9977236 ID=MsaG030556
Chr6 mRNA 9977236 9979330 9977236 ID=MsaT030556.1;Parent=MsaG030556
Chr6 exon 9977236 9977343 9977236 ID=MsaT030556.1.exon1;Parent=MsaT030556.1
Chr6 CDS 9977236 9977343 9977236 ID=cds.MsaT030556.1;Parent=MsaT030556.1
Chr6 exon 9978287 9979330 9978287 ID=MsaT030556.1.exon2;Parent=MsaT030556.1
Chr6 CDS 9978287 9979330 9978287 ID=cds.MsaT030556.1;Parent=MsaT030556.1
Gene Sequence

>MsaT030556.1

ATGAATGGTGAAGGTGACATGTTTGTTAAAGATTCTTCTAGTTTCATGCTCTTTGGTAAGAAGATTCCGGTGAGTTCTTCTCAGATTCAGGCCAATTCTACAACCATGATTTCTTGCAGTAACTCAAAGCATAAAGGAAATGATATGCCTCATACTCAAAACATTGAGAAATCAAAGAATTCTTCTAATGAAGAAAATGAATCAAAAGTGAACACAAGCACTGTGGAAGATAATATGGAAACTAGCAGCACAGATCAAGACAAAGTCCTAAAGAAACCAGACAAGATTGTTCAATGTCCGAGATGCAAAAGTTTCGACACAAAATTTTGTTATTTCAACAACTACAACGTCAATCAACCTCGGCATTTCTGTCGGAGTTGTCACAGATATTGGACCAACGGTGGAACAATGAGAAATGTTGCTGTCGGTGCAGGGAGACGGAAGAACAAACACATAGCTTCTCAATATCGCCACATGATTGTAGTGTCCGATGGAATTCCGACCGCCAGTTTAGAAACCAACGACTCTTCTAGGTACCAACATGGCTCAAATGTTGAATCTGCTGCGGTTTTTAGGTGTTCAAATGATAATGGTATTGTCCTAAAATTTGGTCGGGAAAATGCCTCTCTCGATGAATCCAAAGGTTCAATGCTTAATCTTATGAACCACAAGAGAAATGTTGATGCAAGTGGTAACAATTGTAGAGAAAATGGAGAGGAAGAATCATCGTTATGTGTATCGTCTGTGACAAACGGTCATACTCGAGGAAACGAGTTATTCGAATCCGAACAGAATAGGTCTAAACCTATGCAGAGCTACCCTGCACCTTCATGGATAATTCCAATGAATCAAAGTTGGAACAATGTTACTTCTATGGTTCAATCATCAATGCAGATGTGTAACCCTTATGGCATTGATCCTACTTCAATGCAGTGGTGTCACGCGCCGAGGGTTGCGGTTACAAACATTTTCACACCAAACATTGGCTTGCAATTTGTTCCTGCATCAAACAGGAATGGAACACCTTTGTATGGTAGTGGAAATGGAAATGTGTCCATAGGTTCAAATGGTTGCATTTCACCTTCTTCATCTACTACTAGTAATAGTTGTATCTCAGGTAATGGCACACCAATCCTTGGCAAACACACATGA
Protein sequence

>MsaT030556.1

MNGEGDMFVKDSSSFMLFGKKIPVSSSQIQANSTTMISCSNSKHKGNDMPHTQNIEKSKNSSNEENESKVNTSTVEDNMETSSTDQDKVLKKPDKIVQCPRCKSFDTKFCYFNNYNVNQPRHFCRSCHRYWTNGGTMRNVAVGAGRRKNKHIASQYRHMIVVSDGIPTASLETNDSSRYQHGSNVESAAVFRCSNDNGIVLKFGRENASLDESKGSMLNLMNHKRNVDASGNNCRENGEEESSLCVSSVTNGHTRGNELFESEQNRSKPMQSYPAPSWIIPMNQSWNNVTSMVQSSMQMCNPYGIDPTSMQWCHAPRVAVTNIFTPNIGLQFVPASNRNGTPLYGSGNGNVSIGSNGCISPSSSTTSNSCISGNGTPILGKHT*