AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003348

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003348 MtrunA17_Chr1g0184281 90.338 207 17 3 1 204 1 207 2.51e-136 380
MsaG003348 MtrunA17_Chr7g0260971 59.009 222 67 6 1 202 1 218 8.88e-78 232
MsaG003348 MtrunA17_Chr7g0261031 55.414 157 60 2 12 168 5 151 9.40e-49 158
MsaG003348 MtrunA17_Chr8g0351721 63.248 117 43 0 6 122 9 125 2.56e-48 157
MsaG003348 MtrunA17_Chr1g0184271 70.297 101 30 0 15 115 12 112 6.64e-48 156
MsaG003348 MtrunA17_Chr8g0351701 71.579 95 27 0 15 109 23 117 5.42e-46 151
MsaG003348 MtrunA17_Chr6g0460951 68.317 101 32 0 15 115 40 140 5.91e-46 151
MsaG003348 MtrunA17_Chr7g0245871 66.316 95 32 0 15 109 27 121 1.14e-42 143
MsaG003348 MtrunA17_Chr5g0435641 62.887 97 36 0 13 109 5 101 2.80e-42 140
MsaG003348 MtrunA17_Chr2g0311601 54.867 113 50 1 5 117 3 114 7.22e-41 136
MsaG003348 MtrunA17_Chr4g0043421 52.991 117 54 1 1 117 1 116 2.27e-40 135
MsaG003348 MtrunA17_Chr3g0106101 48.837 129 65 1 11 139 3 130 4.33e-38 129
MsaG003348 MtrunA17_Chr7g0245861 67.742 93 28 2 12 102 9 101 4.54e-38 128
MsaG003348 MtrunA17_Chr7g0227511 54.545 121 54 1 7 127 3 122 5.19e-38 129
MsaG003348 MtrunA17_Chr5g0437571 59.406 101 40 1 15 115 6 105 5.34e-38 129
MsaG003348 MtrunA17_Chr6g0449641 47.917 144 58 4 12 150 6 137 1.17e-36 125
MsaG003348 MtrunA17_Chr3g0114061 53.509 114 52 1 15 128 8 120 3.33e-36 124
MsaG003348 MtrunA17_Chr3g0097221 59.048 105 42 1 11 115 3 106 6.47e-36 127
MsaG003348 MtrunA17_Chr4g0058651 62.105 95 35 1 15 109 11 104 7.80e-36 124
MsaG003348 MtrunA17_Chr3g0117121 57.407 108 45 1 7 114 2 108 1.06e-35 124
MsaG003348 MtrunA17_Chr5g0402611 58.095 105 43 1 11 115 4 107 2.67e-35 126
MsaG003348 MtrunA17_Chr5g0438091 53.465 101 46 1 15 115 39 138 2.16e-34 120
MsaG003348 MtrunA17_Chr6g0449651 54.717 106 47 1 12 117 64 168 2.24e-34 120
MsaG003348 MtrunA17_Chr6g0460941 62.500 88 33 0 15 102 7 94 3.21e-34 117
MsaG003348 MtrunA17_Chr3g0129071 52.727 110 50 2 15 124 47 154 9.43e-34 120
MsaG003348 MtrunA17_Chr3g0113891 50.442 113 54 2 1 113 1 111 1.48e-33 118
MsaG003348 MtrunA17_Chr3g0115431 57.426 101 42 1 15 115 9 108 1.79e-33 119
MsaG003348 MtrunA17_Chr5g0437401 51.852 108 50 2 6 113 3 108 1.93e-32 115
MsaG003348 MtrunA17_Chr4g0030001 48.000 125 62 3 2 125 11 133 5.63e-32 114
MsaG003348 MtrunA17_Chr8g0353981 61.176 85 32 1 11 95 3 86 3.87e-31 113
MsaG003348 MtrunA17_Chr5g0432451 51.261 119 57 1 15 133 43 160 2.80e-30 111
MsaG003348 MtrunA17_Chr1g0200201 51.961 102 48 1 16 117 73 173 3.49e-30 110
MsaG003348 MtrunA17_Chr5g0444351 48.000 100 51 1 16 115 6 104 1.13e-27 102
MsaG003348 MtrunA17_Chr7g0225111 46.000 100 53 1 16 115 6 104 3.12e-27 100
MsaG003348 MtrunA17_Chr8g0374601 45.455 99 53 1 15 113 26 123 7.77e-23 92.8
MsaG003348 MtrunA17_Chr8g0374591 40.594 101 59 1 15 115 8 107 4.25e-21 84.7
MsaG003348 MtrunA17_Chr4g0059901 42.718 103 58 1 16 118 11 112 3.85e-20 85.5
MsaG003348 MtrunA17_Chr2g0330201 39.000 100 60 1 16 115 20 118 3.35e-19 83.6
MsaG003348 MtrunA17_Chr6g0452691 45.679 81 42 2 16 95 10 89 1.30e-18 79.7
MsaG003348 MtrunA17_Chr6g0452671 38.776 98 59 1 16 113 12 108 3.09e-18 79.0
MsaG003348 MtrunA17_Chr8g0374581 33.333 144 77 5 15 152 8 138 9.82e-17 75.5
MsaG003348 MtrunA17_Chr6g0452661 36.364 99 61 2 16 113 10 107 1.02e-16 75.9
MsaG003348 MtrunA17_Chr4g0040831 37.273 110 58 2 16 115 16 124 1.03e-16 75.1
MsaG003348 MtrunA17_Chr8g0342351 37.864 103 63 1 16 118 13 114 2.76e-16 75.1
MsaG003348 MtrunA17_Chr4g0055441 38.542 96 53 4 16 106 3 97 3.63e-14 67.0
MsaG003348 MtrunA17_Chr5g0439111 33.043 115 75 2 16 129 10 123 2.05e-13 66.6
MsaG003348 MtrunA17_Chr2g0326041 48.148 54 27 1 8 61 26 78 7.12e-13 62.0
MsaG003348 MtrunA17_Chr4g0046201 30.682 88 60 1 16 103 7 93 2.98e-11 61.2
MsaG003348 MtrunA17_Chr2g0326051 51.852 54 26 0 64 117 8 61 4.71e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003348 AT2G42430.1 47.581 248 81 7 1 202 1 245 8.23e-63 195
MsaG003348 AT3G58190.1 60.317 126 48 1 15 138 11 136 5.91e-48 156
MsaG003348 AT3G03760.1 68.868 106 33 0 15 120 51 156 1.01e-47 157
MsaG003348 AT2G42440.1 61.345 119 46 0 12 130 4 122 5.46e-47 155
MsaG003348 AT2G45420.1 71.429 98 28 0 18 115 40 137 6.39e-46 152
MsaG003348 AT4G00210.1 60.526 114 43 1 11 122 5 118 1.41e-45 150
MsaG003348 AT2G31310.1 63.107 103 38 0 13 115 5 107 1.35e-44 147
MsaG003348 AT2G45410.1 69.388 98 30 0 18 115 19 116 1.68e-44 147
MsaG003348 AT4G00220.1 67.347 98 32 0 18 115 20 117 3.11e-44 147
MsaG003348 AT5G06080.1 61.905 105 40 0 11 115 3 107 2.24e-43 143
MsaG003348 AT3G27650.1 60.000 100 39 1 15 114 39 137 1.85e-38 130
MsaG003348 AT5G63090.4 60.194 103 40 1 7 109 3 104 3.65e-36 125
MsaG003348 AT5G63090.3 60.194 103 40 1 7 109 3 104 3.65e-36 125
MsaG003348 AT5G63090.2 60.194 103 40 1 7 109 3 104 3.65e-36 125
MsaG003348 AT5G63090.1 60.194 103 40 1 7 109 3 104 3.65e-36 125
MsaG003348 AT2G30130.1 58.416 101 41 1 15 115 8 107 7.44e-36 125
MsaG003348 AT1G31320.1 55.208 96 42 1 7 102 5 99 2.95e-34 120
MsaG003348 AT1G07900.1 53.398 103 47 1 15 117 33 134 5.16e-34 120
MsaG003348 AT5G66870.1 55.238 105 46 1 11 115 3 106 2.34e-33 121
MsaG003348 AT2G30340.2 47.934 121 60 2 15 133 53 172 3.28e-33 120
MsaG003348 AT2G30340.1 47.934 121 60 2 15 133 52 171 3.57e-33 120
MsaG003348 AT1G16530.1 45.968 124 65 2 15 137 14 136 7.18e-33 116
MsaG003348 AT2G28500.1 48.696 115 57 2 15 129 55 167 1.00e-32 118
MsaG003348 AT2G23660.2 52.885 104 48 1 14 117 4 106 2.67e-32 119
MsaG003348 AT2G23660.3 52.885 104 48 1 14 117 4 106 2.67e-32 119
MsaG003348 AT2G23660.1 52.885 104 48 1 14 117 4 106 2.67e-32 119
MsaG003348 AT3G26660.1 44.248 113 61 2 16 127 6 117 1.61e-31 111
MsaG003348 AT3G26620.1 44.340 106 58 1 16 121 6 110 1.68e-30 108
MsaG003348 AT3G11090.1 51.429 105 49 2 5 109 2 104 1.75e-30 110
MsaG003348 AT1G65620.1 61.176 85 32 1 11 95 5 88 1.08e-29 109
MsaG003348 AT1G65620.4 61.176 85 32 1 11 95 5 88 1.08e-29 109
MsaG003348 AT1G65620.3 61.176 85 32 1 11 95 5 88 1.08e-29 109
MsaG003348 AT1G65620.5 61.176 85 32 1 11 95 5 88 1.08e-29 109
MsaG003348 AT1G65620.2 61.176 85 32 1 11 95 5 88 1.08e-29 109
MsaG003348 AT2G40470.2 52.632 114 53 1 15 128 20 132 2.65e-29 108
MsaG003348 AT2G40470.1 52.632 114 53 1 15 128 45 157 4.53e-29 108
MsaG003348 AT3G50510.1 46.465 99 52 1 15 113 12 109 2.19e-23 92.8
MsaG003348 AT3G50510.2 46.465 99 52 1 15 113 12 109 2.19e-23 92.8
MsaG003348 AT5G35900.1 40.000 100 59 1 16 115 6 104 2.13e-17 77.4
MsaG003348 AT1G72980.1 35.000 120 77 1 12 131 10 128 2.17e-17 77.4
MsaG003348 AT3G47870.1 35.000 100 64 1 16 115 37 135 1.28e-16 77.0
MsaG003348 AT3G13850.1 38.000 100 61 1 16 115 37 135 1.68e-16 75.9
MsaG003348 AT1G06280.1 45.570 79 34 2 16 90 25 98 6.86e-16 73.2

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTATTATAGATCCTGTTTA+TGG 0.144291 1:-55203146 MsaT003348.1:CDS
GCAGCTATTCATAAAGTATT+TGG 0.189937 1:-55203257 MsaT003348.1:CDS
TTCATATTTGTGGGACAAAA+TGG 0.226031 1:+55201674 None:intergenic
TAAAAGAATGTCATATGATT+TGG 0.245406 1:-55201558 MsaT003348.1:CDS
AATGATGGGAAACTATAATT+AGG 0.317238 1:-55201510 None:intergenic
AGGGAGCTCTTAGGAGATAT+AGG 0.344167 1:+55201650 None:intergenic
TGAATAGCTGCAAATCTTGC+AGG 0.346463 1:+55203269 None:intergenic
CATGGACATCCTGAGGATCT+AGG 0.355593 1:+55203368 None:intergenic
AAAAGAATGTCATATGATTT+GGG 0.393592 1:-55201557 MsaT003348.1:CDS
TGATTTATGGCTTCTACAAA+TGG 0.394946 1:-55203398 None:intergenic
GATATAGGGTTCATATTTGT+GGG 0.408424 1:+55201665 None:intergenic
ATTGAATCAAGGGAGCTCTT+AGG 0.410397 1:+55201641 None:intergenic
CCTAGAGGAGACAGAGAACT+TGG 0.411652 1:-55201741 MsaT003348.1:CDS
CCAAGTTCTCTGTCTCCTCT+AGG 0.426551 1:+55201741 None:intergenic
AACTTGGAGAATCAATGGTC+AGG 0.427708 1:-55201725 MsaT003348.1:CDS
AGAAACATCTCTCGGAATGA+TGG 0.438279 1:-55201525 MsaT003348.1:CDS
GGCTCTAGCCCTAGATCCTC+AGG 0.441315 1:-55203377 MsaT003348.1:CDS
GCAATTGCGGCAACAGCATC+GGG 0.447204 1:+55203185 None:intergenic
AGATATAGGGTTCATATTTG+TGG 0.449622 1:+55201664 None:intergenic
GGGAGCTCTTAGGAGATATA+GGG 0.451691 1:+55201651 None:intergenic
TGTGATACACAACCATAAAC+AGG 0.455984 1:+55203134 None:intergenic
TGCTAAAATCAATTGAATCA+AGG 0.464352 1:+55201630 None:intergenic
CAGAGAACTTGGAGAATCAA+TGG 0.493895 1:-55201730 MsaT003348.1:CDS
GCTAAAATCAATTGAATCAA+GGG 0.496109 1:+55201631 None:intergenic
TCTTGCAGGTCCTTGTTCAC+AGG 0.500506 1:+55203283 None:intergenic
AGCAATTGCGGCAACAGCAT+CGG 0.501002 1:+55203184 None:intergenic
GAAACATCTCTCGGAATGAT+GGG 0.517494 1:-55201524 MsaT003348.1:CDS
ATGGACATCCTGAGGATCTA+GGG 0.518326 1:+55203369 None:intergenic
ATTCAGAAGTACACTTTCTA+CGG 0.522613 1:+55203327 None:intergenic
AGAAATTTGCATGCCCCACA+TGG 0.523694 1:+55203350 None:intergenic
ACTTGGAGAATCAATGGTCA+GGG 0.558166 1:-55201724 MsaT003348.1:CDS
AGGTAAATTCAGTAGCATCT+TGG 0.559995 1:+55203220 None:intergenic
GCATCGGGACGATCATGAGC+AGG 0.573962 1:+55203200 None:intergenic
TTGAGCTTCATAAGCAATTG+CGG 0.600657 1:+55203172 None:intergenic
GATCCTCAGGATGTCCATGT+GGG 0.601232 1:-55203364 MsaT003348.1:CDS
AGATCCTCAGGATGTCCATG+TGG 0.614428 1:-55203365 MsaT003348.1:CDS
AGCACAACTAATGCAAGTGA+AGG 0.620211 1:-55201786 MsaT003348.1:CDS
GAGCGGCAAGAAACATCTCT+CGG 0.627630 1:-55201533 MsaT003348.1:CDS
AGTAATTAGTCAAAGCCTAG+AGG 0.635942 1:-55201756 MsaT003348.1:CDS
TGCCCCACATGGACATCCTG+AGG 0.640571 1:+55203361 None:intergenic
TGTCATATGATTTGGGTGAG+CGG 0.650337 1:-55201550 MsaT003348.1:CDS
ATCCTCAGGATGTCCATGTG+GGG 0.681917 1:-55203363 MsaT003348.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 55201511 55203414 55201511 ID=MsaG003348
Chr1 mRNA 55201511 55203414 55201511 ID=MsaT003348.1;Parent=MsaG003348
Chr1 exon 55201511 55201822 55201511 ID=MsaT003348.1.exon2;Parent=MsaT003348.1
Chr1 CDS 55201511 55201822 55201511 ID=cds.MsaT003348.1;Parent=MsaT003348.1
Chr1 exon 55203112 55203414 55203112 ID=MsaT003348.1.exon1;Parent=MsaT003348.1
Chr1 CDS 55203112 55203414 55203112 ID=cds.MsaT003348.1;Parent=MsaT003348.1
Gene Sequence

>MsaT003348.1

ATGGCTTCTACAAATGGCTCTAGCCCTAGATCCTCAGGATGTCCATGTGGGGCATGCAAATTTCTCCGTAGAAAGTGTACTTCTGAATGCATATTTGCACCTTATTTTTCCTGTGAACAAGGACCTGCAAGATTTGCAGCTATTCATAAAGTATTTGGTGCTAGCAATGTTTCCAAGATGCTACTGAATTTACCTGCTCATGATCGTCCCGATGCTGTTGCCGCAATTGCTTATGAAGCTCAAGCTCGTATTATAGATCCTGTTTATGGTTGTGTATCACATATTTTTGCTTTACAACAACAGGTAGCAAACTTGCAAGCACAACTAATGCAAGTGAAGGCACAACAAGTAATTAGTCAAAGCCTAGAGGAGACAGAGAACTTGGAGAATCAATGGTCAGGGAATGTTGTTAAACAACAATTAATCAATCCATTTTGTCCCACAAATATGAACCCTATATCTCCTAAGAGCTCCCTTGATTCAATTGATTTTAGCAGCTGCAGCATCAATGATGTAATGAGTATACAATGCCAAGCTTACTCTCATAAAAGAATGTCATATGATTTGGGTGAGCGGCAAGAAACATCTCTCGGAATGATGGGAAACTATAATTAG
Protein sequence

>MsaT003348.1

MASTNGSSPRSSGCPCGACKFLRRKCTSECIFAPYFSCEQGPARFAAIHKVFGASNVSKMLLNLPAHDRPDAVAAIAYEAQARIIDPVYGCVSHIFALQQQVANLQAQLMQVKAQQVISQSLEETENLENQWSGNVVKQQLINPFCPTNMNPISPKSSLDSIDFSSCSINDVMSIQCQAYSHKRMSYDLGERQETSLGMMGNYN*