AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016333

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016333 MtrunA17_Chr3g0127511 98.261 230 4 0 7 236 16 245 1.54e-169 466
MsaG016333 MtrunA17_Chr8g0346251 43.750 208 109 4 33 236 45 248 3.11e-48 159
MsaG016333 MtrunA17_Chr6g0450991 57.447 94 40 0 28 121 66 159 6.21e-30 112
MsaG016333 MtrunA17_Chr4g0060031 56.122 98 43 0 28 125 94 191 3.38e-29 112
MsaG016333 MtrunA17_Chr6g0453021 56.383 94 41 0 28 121 95 188 4.81e-29 110
MsaG016333 MtrunA17_Chr8g0362151 54.255 94 43 0 28 121 76 169 2.97e-28 108
MsaG016333 MtrunA17_Chr5g0415941 55.435 92 41 0 30 121 88 179 1.15e-26 105
MsaG016333 MtrunA17_Chr8g0381741 55.435 92 41 0 30 121 55 146 1.74e-26 104
MsaG016333 MtrunA17_Chr5g0416391 54.255 94 43 0 28 121 76 169 1.96e-26 103
MsaG016333 MtrunA17_Chr1g0179581 51.648 91 37 1 28 118 27 110 3.24e-26 98.2
MsaG016333 MtrunA17_Chr3g0123691 51.064 94 46 0 28 121 59 152 4.31e-26 103
MsaG016333 MtrunA17_Chr7g0265521 41.304 138 67 3 28 151 62 199 2.43e-25 99.4
MsaG016333 MtrunA17_Chr8g0362751 54.348 92 42 0 30 121 90 181 3.23e-25 100
MsaG016333 MtrunA17_Chr3g0119291 43.802 121 67 1 2 121 31 151 5.23e-25 99.0
MsaG016333 MtrunA17_Chr7g0217111 47.826 92 48 0 30 121 81 172 1.93e-21 90.1
MsaG016333 MtrunA17_Chr5g0403701 47.368 114 46 2 22 121 39 152 2.70e-21 88.2
MsaG016333 MtrunA17_Chr5g0403691 52.577 97 38 2 22 111 39 134 1.09e-19 84.3
MsaG016333 MtrunA17_Chr4g0055851 44.211 95 46 1 30 124 121 208 6.43e-14 69.3
MsaG016333 MtrunA17_Chr7g0258831 41.346 104 48 2 24 124 155 248 6.92e-13 66.6
MsaG016333 MtrunA17_Chr4g0071411 42.857 84 48 0 32 115 91 174 1.07e-12 65.1
MsaG016333 MtrunA17_Chr4g0054421 43.158 95 47 1 30 124 128 215 2.00e-12 65.1
MsaG016333 MtrunA17_Chr5g0400781 43.750 96 53 1 30 124 124 219 3.27e-12 64.3
MsaG016333 MtrunA17_Chr1g0151971 43.158 95 47 1 30 124 131 218 5.84e-12 63.9
MsaG016333 MtrunA17_Chr1g0175651 39.423 104 56 1 24 127 149 245 1.08e-11 63.2
MsaG016333 MtrunA17_Chr3g0135331 45.333 75 41 0 27 101 143 217 1.10e-11 63.2
MsaG016333 MtrunA17_Chr8g0335131 42.105 95 48 1 30 124 147 234 1.22e-11 63.2
MsaG016333 MtrunA17_Chr2g0308611 40.000 95 50 1 30 124 201 288 4.86e-11 61.6
MsaG016333 MtrunA17_Chr5g0399491 41.053 95 49 1 30 124 137 224 5.57e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016333 AT2G46680.1 42.324 241 118 5 16 236 19 258 1.34e-45 153
MsaG016333 AT2G46680.2 43.162 234 114 5 21 236 24 256 1.46e-44 150
MsaG016333 AT3G61890.1 68.132 91 29 0 32 122 33 123 1.40e-38 134
MsaG016333 AT3G01470.1 43.382 136 77 0 28 163 67 202 1.09e-29 112
MsaG016333 AT2G22430.1 56.383 94 41 0 28 121 61 154 3.96e-29 111
MsaG016333 AT4G40060.1 50.485 103 51 0 28 130 58 160 1.87e-28 109
MsaG016333 AT1G69780.1 54.255 94 43 0 28 121 84 177 6.43e-28 108
MsaG016333 AT5G15150.1 53.191 94 44 0 28 121 114 207 2.66e-26 104
MsaG016333 AT2G18550.1 50.943 106 45 1 30 128 62 167 5.46e-26 101
MsaG016333 AT5G65310.2 51.064 94 46 0 28 121 53 146 2.67e-25 101
MsaG016333 AT5G65310.1 51.064 94 46 0 28 121 71 164 2.99e-25 101
MsaG016333 AT4G36740.2 42.647 136 61 2 8 126 25 160 5.48e-25 98.6
MsaG016333 AT5G66700.1 51.000 100 42 1 30 122 72 171 8.52e-25 98.2
MsaG016333 AT4G36740.1 50.962 104 44 1 30 126 56 159 8.88e-25 97.8
MsaG016333 AT3G01220.1 48.936 94 48 0 28 121 86 179 7.96e-24 97.1
MsaG016333 AT5G03790.1 43.478 115 54 2 11 125 63 166 1.30e-23 95.5
MsaG016333 AT1G26960.1 48.936 94 48 0 28 121 70 163 2.44e-22 92.4
MsaG016333 AT5G03790.2 46.000 100 50 1 11 110 63 158 5.30e-22 90.1
MsaG016333 AT1G27045.4 45.714 105 55 1 25 129 64 166 5.83e-21 88.6
MsaG016333 AT1G27045.5 45.361 97 53 0 25 121 21 117 6.76e-20 84.3
MsaG016333 AT1G27045.3 45.361 97 53 0 25 121 21 117 6.76e-20 84.3
MsaG016333 AT1G27045.1 45.361 97 53 0 25 121 64 160 7.81e-20 85.1
MsaG016333 AT1G27045.2 45.361 97 53 0 25 121 13 109 9.13e-20 83.6
MsaG016333 AT2G36610.1 42.308 104 45 2 30 125 72 168 1.56e-19 83.2
MsaG016333 AT5G53980.1 39.604 101 57 1 20 120 6 102 1.06e-15 72.4
MsaG016333 AT2G44910.1 42.000 100 51 1 30 129 164 256 1.46e-12 66.2
MsaG016333 AT3G60390.1 42.000 100 51 1 30 129 163 255 2.90e-12 65.5
MsaG016333 AT2G22800.1 42.105 95 48 1 30 124 114 201 8.88e-12 63.5
MsaG016333 AT5G06710.1 41.837 98 50 1 24 121 185 275 1.17e-11 63.9
MsaG016333 AT4G16780.1 42.105 95 48 1 30 124 130 217 5.00e-11 61.6
MsaG016333 AT2G01430.1 42.105 95 48 1 30 124 140 227 5.64e-11 61.2
MsaG016333 AT4G37790.1 41.053 95 49 1 30 124 127 214 8.15e-11 60.8

Find 35 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCCTAGACAAGTTGCTATA+TGG 0.329458 3:-96865353 MsaT016333.1:CDS
GCAAGTTGCATCTTCTTCCT+TGG 0.339735 3:+96865393 None:intergenic
TGAGGGTTTGGAGGATAAAA+TGG 0.360194 3:-96864811 MsaT016333.1:CDS
AGCACAGAAGATGGTGGTTC+AGG 0.365057 3:-96864885 MsaT016333.1:CDS
GGTTCAGAAGCTAAGTTATA+TGG 0.367405 3:-96864949 MsaT016333.1:CDS
GAAGATGGTGGTTCAGGAAA+TGG 0.372815 3:-96864879 MsaT016333.1:CDS
GAAATGGATACAACAATTGC+AGG 0.379643 3:-96864863 MsaT016333.1:CDS
ATGCAACTTGCAAGAGATCT+TGG 0.385707 3:-96865381 MsaT016333.1:CDS
TTCTAAGTTTCAGTGCCTTA+AGG 0.396105 3:-96865247 MsaT016333.1:CDS
AAGACTCTTTCTCTTCCTTA+AGG 0.407960 3:+96865232 None:intergenic
TGATGAACAGATAAGATCAT+TGG 0.455417 3:-96865448 MsaT016333.1:CDS
ATGCAATAGTTCTCAATGGT+TGG 0.475551 3:-96864625 MsaT016333.1:CDS
AATATTCATGAAGGGTTCAA+AGG 0.493550 3:-96865556 None:intergenic
CAGAATCAAAGTTGGAGCCA+AGG 0.518559 3:-96865410 MsaT016333.1:CDS
ATTTGAGTCAGAATCAAAGT+TGG 0.518777 3:-96865418 MsaT016333.1:CDS
AAGGAAAATAGCACAGAAGA+TGG 0.540540 3:-96864894 MsaT016333.1:CDS
GAAAGAGTCTTTGCAATCAG+AGG 0.541327 3:-96865220 MsaT016333.1:intron
AATCATGCAATAGTTCTCAA+TGG 0.553811 3:-96864629 MsaT016333.1:CDS
AGAAGATAGAAAACAAGAGA+AGG 0.569555 3:-96865476 MsaT016333.1:CDS
AAACATCGCATGATGGAGGA+AGG 0.574577 3:-96864923 MsaT016333.1:CDS
AACCATATAGCAACTTGTCT+AGG 0.580258 3:+96865351 None:intergenic
AAGAAGAGAATATTCATGAA+GGG 0.590509 3:-96865564 None:intergenic
TTCAGAACAGAAGAGCAAGA+TGG 0.602218 3:-96865329 MsaT016333.1:CDS
TGATGGAGGAAGGGAAGCTA+AGG 0.606332 3:-96864913 MsaT016333.1:CDS
TCAGAAGCTAAGTTATATGG+TGG 0.615960 3:-96864946 MsaT016333.1:CDS
ATGGTGGAAACATCGCATGA+TGG 0.617224 3:-96864930 MsaT016333.1:CDS
AACATCGCATGATGGAGGAA+GGG 0.628539 3:-96864922 MsaT016333.1:CDS
GTGGAAACATCGCATGATGG+AGG 0.645127 3:-96864927 MsaT016333.1:CDS
GAGCAAGATGGAAATCAAAG+AGG 0.650346 3:-96865317 MsaT016333.1:CDS
GATTGATCTAACATACCACA+TGG 0.663576 3:+96864648 None:intergenic
GAAAATAGCACAGAAGATGG+TGG 0.663671 3:-96864891 MsaT016333.1:CDS
AAAATGAAAGAAGCACAACA+TGG 0.668449 3:-96864770 MsaT016333.1:CDS
ACAGAGAAAATTGAGGACAG+AGG 0.671559 3:-96864747 MsaT016333.1:CDS
AACATGGACAGAGAAAATTG+AGG 0.710156 3:-96864754 MsaT016333.1:CDS
TGGTACAATGTTGATCCATG+TGG 0.723453 3:-96864663 MsaT016333.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 96864611 96865571 96864611 ID=MsaG016333
Chr3 mRNA 96864611 96865571 96864611 ID=MsaT016333.1;Parent=MsaG016333
Chr3 exon 96864611 96864970 96864611 ID=MsaT016333.1.exon2;Parent=MsaT016333.1
Chr3 CDS 96864611 96864970 96864611 ID=cds.MsaT016333.1;Parent=MsaT016333.1
Chr3 exon 96865221 96865571 96865221 ID=MsaT016333.1.exon1;Parent=MsaT016333.1
Chr3 CDS 96865221 96865571 96865221 ID=cds.MsaT016333.1;Parent=MsaT016333.1
Gene Sequence

>MsaT016333.1

ATGAAGGGTTCAAAGGAAAATGTTGAAAGCATGAGTTGCTTAGAGACACCTCAGAATTCAAAGAAGAAAAACAAGAAGATAGAAAACAAGAGAAGGTTTAGTGATGAACAGATAAGATCATTGGAATGCATATTTGAGTCAGAATCAAAGTTGGAGCCAAGGAAGAAGATGCAACTTGCAAGAGATCTTGGTTTGCAGCCTAGACAAGTTGCTATATGGTTTCAGAACAGAAGAGCAAGATGGAAATCAAAGAGGATAGAACAAGAATACAGAAAACTCAAAGATGAATATGATAATTTAGCTTCTAAGTTTCAGTGCCTTAAGGAAGAGAAAGAGTCTTTGCAATCAGAGGTTCAGAAGCTAAGTTATATGGTGGAAACATCGCATGATGGAGGAAGGGAAGCTAAGGAAAATAGCACAGAAGATGGTGGTTCAGGAAATGGATACAACAATTGCAGGTTTGAAGAAACAAAGCAAAGATTTTCAAATGAGGGTTTGGAGGATAAAATGGTCATTTATTCAGATGATCAAAATGAAAGAAGCACAACATGGACAGAGAAAATTGAGGACAGAGGAAATCAACTTTTAAGAAATGATGATCATGCAGAAATTCCCTTGACAACAACACTTGAAAAATGGTACAATGTTGATCCATGTGGTATGTTAGATCAATCATGCAATAGTTCTCAATGGTTGGATTTTTGGACTTGA
Protein sequence

>MsaT016333.1

MKGSKENVESMSCLETPQNSKKKNKKIENKRRFSDEQIRSLECIFESESKLEPRKKMQLARDLGLQPRQVAIWFQNRRARWKSKRIEQEYRKLKDEYDNLASKFQCLKEEKESLQSEVQKLSYMVETSHDGGREAKENSTEDGGSGNGYNNCRFEETKQRFSNEGLEDKMVIYSDDQNERSTTWTEKIEDRGNQLLRNDDHAEIPLTTTLEKWYNVDPCGMLDQSCNSSQWLDFWT*