AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011463.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011463.01.T01 MTR_2g104940 97.333 150 4 0 19 168 73 222 4.92e-101 293
MsG0280011463.01.T01 MTR_4g006730 90.000 150 15 0 19 168 68 217 1.00e-91 268
MsG0280011463.01.T01 MTR_4g006730 90.000 150 15 0 19 168 68 217 1.77e-91 269
MsG0280011463.01.T01 MTR_4g006730 90.000 130 13 0 39 168 1 130 2.34e-78 233
MsG0280011463.01.T01 MTR_4g006630 90.000 130 13 0 39 168 1 130 2.44e-78 233
MsG0280011463.01.T01 MTR_4g006650 82.979 141 15 1 27 167 5 136 8.95e-74 224
MsG0280011463.01.T01 MTR_1g097840 69.799 149 45 0 20 168 68 216 5.45e-68 208
MsG0280011463.01.T01 MTR_1g097840 69.799 149 45 0 20 168 68 216 2.89e-67 207
MsG0280011463.01.T01 MTR_7g010650 43.046 151 86 0 21 171 32 182 3.00e-42 140
MsG0280011463.01.T01 MTR_8g087720 50.340 147 68 2 26 169 38 182 5.39e-41 137
MsG0280011463.01.T01 MTR_2g017660 51.351 148 71 1 22 168 35 182 1.57e-40 138
MsG0280011463.01.T01 MTR_8g087720 50.000 146 68 2 26 168 38 181 1.80e-40 135
MsG0280011463.01.T01 MTR_8g087720 50.000 146 68 2 26 168 38 181 1.16e-39 135
MsG0280011463.01.T01 MTR_8g087710 50.000 150 70 2 22 168 35 182 2.09e-39 135
MsG0280011463.01.T01 MTR_7g010650 42.857 147 84 0 21 167 32 178 5.13e-39 134
MsG0280011463.01.T01 MTR_4g084880 47.403 154 78 2 18 168 27 180 1.01e-37 130
MsG0280011463.01.T01 MTR_2g017570 49.333 150 71 2 22 168 34 181 4.25e-37 129
MsG0280011463.01.T01 MTR_2g017610 49.333 150 71 2 22 168 34 181 5.16e-37 129
MsG0280011463.01.T01 MTR_2g017590 47.682 151 72 2 22 168 32 179 7.63e-36 125
MsG0280011463.01.T01 MTR_2g017620 47.682 151 72 2 22 168 20 167 1.52e-34 122
MsG0280011463.01.T01 MTR_2g017620 47.682 151 72 2 22 168 34 181 1.74e-34 122
MsG0280011463.01.T01 MTR_3g008920 46.000 150 77 3 22 169 22 169 2.89e-28 106
MsG0280011463.01.T01 MTR_5g079570 43.624 149 82 2 22 169 36 183 5.06e-28 105
MsG0280011463.01.T01 MTR_5g063930 40.000 145 81 2 26 166 37 179 4.39e-26 100
MsG0280011463.01.T01 MTR_1g070385 37.791 172 100 1 4 168 33 204 3.84e-25 101
MsG0280011463.01.T01 MTR_2g017620 51.456 103 43 2 70 168 1 100 5.67e-24 93.2
MsG0280011463.01.T01 MTR_1g006490 35.862 145 77 6 31 166 24 161 1.15e-14 69.7
MsG0280011463.01.T01 MTR_2g101370 37.500 152 79 5 30 170 24 170 1.92e-14 69.3
MsG0280011463.01.T01 MTR_3g118010 31.548 168 95 6 18 166 18 184 1.33e-12 64.7
MsG0280011463.01.T01 MTR_2g094270 30.682 176 93 6 18 166 21 194 2.33e-12 63.9
MsG0280011463.01.T01 MTR_2g094270 30.682 176 93 6 18 166 21 194 3.09e-12 63.5
MsG0280011463.01.T01 MTR_1g006590 34.483 145 79 6 31 166 24 161 9.79e-12 62.0
MsG0280011463.01.T01 MTR_8g013680 33.553 152 85 3 30 170 23 169 9.82e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011463.01.T01 AT1G80760 84.000 150 24 0 19 168 73 222 1.09e-84 252
MsG0280011463.01.T01 AT4G10380 72.327 159 44 0 10 168 62 220 2.51e-75 228
MsG0280011463.01.T01 AT4G19030 48.408 157 73 2 22 170 51 207 1.39e-40 137
MsG0280011463.01.T01 AT4G19030 47.097 155 74 2 22 168 51 205 5.27e-39 132
MsG0280011463.01.T01 AT5G37820 47.742 155 78 2 15 167 32 185 1.24e-38 133
MsG0280011463.01.T01 AT5G37820 47.742 155 78 2 15 167 68 221 2.86e-38 133
MsG0280011463.01.T01 AT4G19030 47.097 155 74 2 22 168 51 205 3.83e-38 132
MsG0280011463.01.T01 AT4G18910 47.134 157 71 2 22 168 48 202 2.18e-37 128
MsG0280011463.01.T01 AT4G18910 47.134 157 71 2 22 168 48 202 9.34e-37 129
MsG0280011463.01.T01 AT5G37810 46.497 157 81 2 14 168 31 186 3.25e-36 127
MsG0280011463.01.T01 AT1G31885 46.753 154 74 2 22 167 39 192 1.35e-35 126
MsG0280011463.01.T01 AT1G31885 47.826 138 64 2 38 167 1 138 2.25e-31 114
MsG0280011463.01.T01 AT2G34390 40.000 165 84 4 17 169 37 198 6.88e-27 101
MsG0280011463.01.T01 AT2G34390 39.264 163 84 4 16 166 36 195 1.07e-25 98.6
MsG0280011463.01.T01 AT2G34390 39.264 163 84 4 16 166 36 195 8.92e-25 97.8
MsG0280011463.01.T01 AT2G34390 40.816 147 74 3 30 166 10 153 7.92e-24 94.4
MsG0280011463.01.T01 AT3G06100 36.765 136 86 0 26 161 46 181 3.19e-20 85.5
MsG0280011463.01.T01 AT3G06100 38.519 135 77 2 30 161 2 133 3.48e-20 84.3
MsG0280011463.01.T01 AT1G31885 36.538 104 64 1 1 102 16 119 1.01e-16 73.2
MsG0280011463.01.T01 AT2G25810 32.692 156 91 5 26 173 19 168 1.65e-12 63.9
MsG0280011463.01.T01 AT3G16240 33.553 152 85 4 30 170 23 169 6.08e-12 62.4
MsG0280011463.01.T01 AT2G16850 31.361 169 94 7 18 166 17 183 7.20e-12 62.4
MsG0280011463.01.T01 AT4G35100 30.952 168 96 6 18 166 19 185 2.77e-11 60.8
MsG0280011463.01.T01 AT4G35100 30.952 168 96 6 18 166 19 185 2.77e-11 60.8

Find 50 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGACTCCACCACTCATAAA+AGG 0.246044 2:+84353387 None:intergenic
TCTCCGAGCCTTGTGTCTTT+TGG 0.294166 2:+84353771 None:intergenic
CAGATAGGAGCCGAGTTTAT+AGG 0.306620 2:-84353839 MsG0280011463.01.T01:CDS
GTATATTGGTGCACAAGTTT+TGG 0.339591 2:-84353451 MsG0280011463.01.T01:CDS
AGATAGGAGCCGAGTTTATA+GGG 0.358525 2:-84353838 MsG0280011463.01.T01:CDS
TGCAAGAGGCACAGGAGGGG+GGG 0.367147 2:+84354014 None:intergenic
CTCTCCACCGGCCACATCTC+TGG 0.392505 2:-84353698 MsG0280011463.01.T01:CDS
ACCGTTCCTTCCGGAGGATA+TGG 0.393092 2:-84353366 MsG0280011463.01.T01:CDS
ATTGGGTGTGCTACCTCTAC+TGG 0.401500 2:-84353743 MsG0280011463.01.T01:CDS
TATTAGCTAAAAGTTACTAT+AGG 0.404515 2:+84353251 None:intergenic
ACATTGATTCTGATGTTTGC+TGG 0.409739 2:-84353815 MsG0280011463.01.T01:CDS
CAAGGCTCGGAGACTCTGAT+TGG 0.413496 2:-84353761 MsG0280011463.01.T01:CDS
CATTGATTCTGATGTTTGCT+GGG 0.434089 2:-84353814 MsG0280011463.01.T01:CDS
GGTGGAGTCACCGTTCCTTC+CGG 0.437337 2:-84353375 MsG0280011463.01.T01:CDS
GTGCTGCATTTGCTCTCAAA+GGG 0.443470 2:-84353419 MsG0280011463.01.T01:CDS
TTTGCAAGAGGCACAGGAGG+GGG 0.454307 2:+84354012 None:intergenic
TTGCAGGTGCCTATGTATAT+TGG 0.461576 2:-84353465 MsG0280011463.01.T01:intron
CTTCAATGCAGCAAAAGAAA+TGG 0.468532 2:+84353652 None:intergenic
TTGCAAGAGGCACAGGAGGG+GGG 0.484397 2:+84354013 None:intergenic
GCAAAAGAAATGGTGACTGC+AGG 0.502542 2:+84353662 None:intergenic
CAAGAATGGAACTTAGAAGA+TGG 0.514046 2:-84354071 None:intergenic
TAATCTAATGTTCGTTGTCA+CGG 0.524885 2:-84353310 MsG0280011463.01.T01:CDS
TGACTCCACCACTCATAAAA+GGG 0.537986 2:+84353388 None:intergenic
GCTTTGGTTACATGCTTCCA+CGG 0.548483 2:+84353623 None:intergenic
TGTGCTGCATTTGCTCTCAA+AGG 0.550088 2:-84353420 MsG0280011463.01.T01:CDS
AAGGCTCGGAGACTCTGATT+GGG 0.552417 2:-84353760 MsG0280011463.01.T01:CDS
AATGTTCGTTGTCACGGCAG+TGG 0.554743 2:-84353304 MsG0280011463.01.T01:CDS
CAGAGATGTGGCCGGTGGAG+AGG 0.557528 2:+84353699 None:intergenic
TGCTACCTCTACTGGTCTTG+CGG 0.560160 2:-84353735 MsG0280011463.01.T01:CDS
ACCATATCCTCCGGAAGGAA+CGG 0.576185 2:+84353365 None:intergenic
CTGCATTGAAGCACTTCCCG+TGG 0.578067 2:-84353640 MsG0280011463.01.T01:CDS
CATAACCGCAAGACCAGTAG+AGG 0.586587 2:+84353730 None:intergenic
CATTAATGAGCAGGTAACTG+TGG 0.587885 2:+84354040 None:intergenic
ATGATCATCATCCTCTCCAC+CGG 0.588983 2:-84353710 MsG0280011463.01.T01:CDS
CAAAAGAAATGGTGACTGCA+GGG 0.592708 2:+84353663 None:intergenic
AAAAGCTTGACCATATCCTC+CGG 0.599263 2:+84353356 None:intergenic
ACTTGTGCACCAATATACAT+AGG 0.600697 2:+84353456 None:intergenic
AATCAATGTCCCTATAAACT+CGG 0.603006 2:+84353829 None:intergenic
CTTTGGTTACATGCTTCCAC+GGG 0.610743 2:+84353624 None:intergenic
AGCACCAGAGATGTGGCCGG+TGG 0.615438 2:+84353694 None:intergenic
TGAGATGAGCACCAGAGATG+TGG 0.617163 2:+84353687 None:intergenic
TGCTGCATTTGCTCTCAAAG+GGG 0.620449 2:-84353418 MsG0280011463.01.T01:CDS
GGAGTCACCGTTCCTTCCGG+AGG 0.622617 2:-84353372 MsG0280011463.01.T01:CDS
ACTCACAGCTCTTGTGTCGG+TGG 0.623869 2:+84353281 None:intergenic
ATTAATGAGCAGGTAACTGT+GGG 0.626119 2:+84354041 None:intergenic
GAACCAAAAGACACAAGGCT+CGG 0.650309 2:-84353774 MsG0280011463.01.T01:CDS
GCTTGACCATATCCTCCGGA+AGG 0.651188 2:+84353360 None:intergenic
AATACTCACAGCTCTTGTGT+CGG 0.671145 2:+84353278 None:intergenic
ATGAGCACCAGAGATGTGGC+CGG 0.675762 2:+84353691 None:intergenic
ATTGTGAACCAAAAGACACA+AGG 0.703696 2:-84353779 MsG0280011463.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGTATAAATTATAATTGC+AGG - Chr2:84353842-84353861 MsG0280011463.01.T01:intron 15.0%
!! TAATTTCAACAACTTTAATT+AGG + Chr2:84353752-84353771 None:intergenic 15.0%
!! ACAACTTTAATTAGGAAATT+AGG + Chr2:84353744-84353763 None:intergenic 20.0%
! ATTTATGTGTGTCTAATCTT+TGG - Chr2:84353384-84353403 MsG0280011463.01.T01:CDS 25.0%
!!! ATATATACCTTTTTTGCAAG+AGG + Chr2:84353326-84353345 None:intergenic 25.0%
AATCAATGTCCCTATAAACT+CGG + Chr2:84353497-84353516 None:intergenic 30.0%
TAATCTAATGTTCGTTGTCA+CGG - Chr2:84354013-84354032 MsG0280011463.01.T01:CDS 30.0%
TAATTAGGAAATTAGGCTGA+AGG + Chr2:84353737-84353756 None:intergenic 30.0%
TACTTAGCACTTCAATGATA+TGG + Chr2:84353430-84353449 None:intergenic 30.0%
AAACTACCTGTGTTACAGAT+AGG - Chr2:84353469-84353488 MsG0280011463.01.T01:intron 35.0%
ACTTGTGCACCAATATACAT+AGG + Chr2:84353870-84353889 None:intergenic 35.0%
ATTAATGAGCAGGTAACTGT+GGG + Chr2:84353285-84353304 None:intergenic 35.0%
ATTGTGAACCAAAAGACACA+AGG - Chr2:84353544-84353563 MsG0280011463.01.T01:intron 35.0%
CTTCAATGCAGCAAAAGAAA+TGG + Chr2:84353674-84353693 None:intergenic 35.0%
GAAATTAGGCTGAAGGATTA+AGG + Chr2:84353730-84353749 None:intergenic 35.0%
GAAGGATTAAGGAAAAGCTT+TGG + Chr2:84353719-84353738 None:intergenic 35.0%
! ATCTGTAACACAGGTAGTTT+TGG + Chr2:84353469-84353488 None:intergenic 35.0%
! GTATATTGGTGCACAAGTTT+TGG - Chr2:84353872-84353891 MsG0280011463.01.T01:intron 35.0%
! GTTTTTCACCCTTTTATGAG+TGG - Chr2:84353927-84353946 MsG0280011463.01.T01:intron 35.0%
!! ACATTGATTCTGATGTTTGC+TGG - Chr2:84353508-84353527 MsG0280011463.01.T01:intron 35.0%
!! CATTGATTCTGATGTTTGCT+GGG - Chr2:84353509-84353528 MsG0280011463.01.T01:intron 35.0%
AAAAGCTTGACCATATCCTC+CGG + Chr2:84353970-84353989 None:intergenic 40.0%
AATACTCACAGCTCTTGTGT+CGG + Chr2:84354048-84354067 None:intergenic 40.0%
AGATAGGAGCCGAGTTTATA+GGG - Chr2:84353485-84353504 MsG0280011463.01.T01:intron 40.0%
CAAAAGAAATGGTGACTGCA+GGG + Chr2:84353663-84353682 None:intergenic 40.0%
CATTAATGAGCAGGTAACTG+TGG + Chr2:84353286-84353305 None:intergenic 40.0%
TGACTCCACCACTCATAAAA+GGG + Chr2:84353938-84353957 None:intergenic 40.0%
TTGCAGGTGCCTATGTATAT+TGG - Chr2:84353858-84353877 MsG0280011463.01.T01:intron 40.0%
! TTTCACCCTTTTATGAGTGG+TGG - Chr2:84353930-84353949 MsG0280011463.01.T01:intron 40.0%
!!! CTTTTGGTTCACAATAGCAG+TGG + Chr2:84353539-84353558 None:intergenic 40.0%
ATGATCATCATCCTCTCCAC+CGG - Chr2:84353613-84353632 MsG0280011463.01.T01:intron 45.0%
CAGATAGGAGCCGAGTTTAT+AGG - Chr2:84353484-84353503 MsG0280011463.01.T01:intron 45.0%
CTTTGGTTACATGCTTCCAC+GGG + Chr2:84353702-84353721 None:intergenic 45.0%
GAACCAAAAGACACAAGGCT+CGG - Chr2:84353549-84353568 MsG0280011463.01.T01:intron 45.0%
GCAAAAGAAATGGTGACTGC+AGG + Chr2:84353664-84353683 None:intergenic 45.0%
GCTTTGGTTACATGCTTCCA+CGG + Chr2:84353703-84353722 None:intergenic 45.0%
GTGACTCCACCACTCATAAA+AGG + Chr2:84353939-84353958 None:intergenic 45.0%
GTGCTGCATTTGCTCTCAAA+GGG - Chr2:84353904-84353923 MsG0280011463.01.T01:intron 45.0%
TCCTGTGCCTCTTGCAAAAA+AGG - Chr2:84353316-84353335 MsG0280011463.01.T01:CDS 45.0%
TGCTGCATTTGCTCTCAAAG+GGG - Chr2:84353905-84353924 MsG0280011463.01.T01:intron 45.0%
TGTGCTGCATTTGCTCTCAA+AGG - Chr2:84353903-84353922 MsG0280011463.01.T01:intron 45.0%
!! TTTTTGCAAGAGGCACAGGA+GGG + Chr2:84353316-84353335 None:intergenic 45.0%
!!! ACCTTTTTTGCAAGAGGCAC+AGG + Chr2:84353320-84353339 None:intergenic 45.0%
!!! TTTTTTGCAAGAGGCACAGG+AGG + Chr2:84353317-84353336 None:intergenic 45.0%
AAGGCTCGGAGACTCTGATT+GGG - Chr2:84353563-84353582 MsG0280011463.01.T01:intron 50.0%
AATGTTCGTTGTCACGGCAG+TGG - Chr2:84354019-84354038 MsG0280011463.01.T01:CDS 50.0%
ACCATATCCTCCGGAAGGAA+CGG + Chr2:84353961-84353980 None:intergenic 50.0%
ATTGGGTGTGCTACCTCTAC+TGG - Chr2:84353580-84353599 MsG0280011463.01.T01:intron 50.0%
CATAACCGCAAGACCAGTAG+AGG + Chr2:84353596-84353615 None:intergenic 50.0%
TCGGCTCCTATCTGTAACAC+AGG + Chr2:84353478-84353497 None:intergenic 50.0%
TGAGATGAGCACCAGAGATG+TGG + Chr2:84353639-84353658 None:intergenic 50.0%
!! TCTCCGAGCCTTGTGTCTTT+TGG + Chr2:84353555-84353574 None:intergenic 50.0%
!! TGCTACCTCTACTGGTCTTG+CGG - Chr2:84353588-84353607 MsG0280011463.01.T01:intron 50.0%
!! TTTTGCAAGAGGCACAGGAG+GGG + Chr2:84353315-84353334 None:intergenic 50.0%
ACCGTTCCTTCCGGAGGATA+TGG - Chr2:84353957-84353976 MsG0280011463.01.T01:intron 55.0%
ACTCACAGCTCTTGTGTCGG+TGG + Chr2:84354045-84354064 None:intergenic 55.0%
ATGAGCACCAGAGATGTGGC+CGG + Chr2:84353635-84353654 None:intergenic 55.0%
CAAGGCTCGGAGACTCTGAT+TGG - Chr2:84353562-84353581 MsG0280011463.01.T01:intron 55.0%
GCTTGACCATATCCTCCGGA+AGG + Chr2:84353966-84353985 None:intergenic 55.0%
! CTGCATTGAAGCACTTCCCG+TGG - Chr2:84353683-84353702 MsG0280011463.01.T01:CDS 55.0%
! TTTGCAAGAGGCACAGGAGG+GGG + Chr2:84353314-84353333 None:intergenic 55.0%
GGGGGGTGGCATTAATGAGC+AGG + Chr2:84353295-84353314 None:intergenic 60.0%
GGTGGAGTCACCGTTCCTTC+CGG - Chr2:84353948-84353967 MsG0280011463.01.T01:intron 60.0%
! TTGCAAGAGGCACAGGAGGG+GGG + Chr2:84353313-84353332 None:intergenic 60.0%
AGCACCAGAGATGTGGCCGG+TGG + Chr2:84353632-84353651 None:intergenic 65.0%
CAGAGATGTGGCCGGTGGAG+AGG + Chr2:84353627-84353646 None:intergenic 65.0%
CTCTCCACCGGCCACATCTC+TGG - Chr2:84353625-84353644 MsG0280011463.01.T01:intron 65.0%
GGAGTCACCGTTCCTTCCGG+AGG - Chr2:84353951-84353970 MsG0280011463.01.T01:intron 65.0%
! TGCAAGAGGCACAGGAGGGG+GGG + Chr2:84353312-84353331 None:intergenic 65.0%
! AAGAGGCACAGGAGGGGGGG+TGG + Chr2:84353309-84353328 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 84353257 84354088 84353257 ID=MsG0280011463.01;Name=MsG0280011463.01
Chr2 mRNA 84353257 84354088 84353257 ID=MsG0280011463.01.T01;Parent=MsG0280011463.01;Name=MsG0280011463.01.T01;_AED=0.50;_eAED=0.53;_QI=0|0|0|1|1|1|3|0|176
Chr2 exon 84354008 84354088 84354008 ID=MsG0280011463.01.T01:exon:12950;Parent=MsG0280011463.01.T01
Chr2 exon 84353634 84353858 84353634 ID=MsG0280011463.01.T01:exon:12949;Parent=MsG0280011463.01.T01
Chr2 exon 84353257 84353481 84353257 ID=MsG0280011463.01.T01:exon:12948;Parent=MsG0280011463.01.T01
Chr2 CDS 84354008 84354088 84354008 ID=MsG0280011463.01.T01:cds;Parent=MsG0280011463.01.T01
Chr2 CDS 84353634 84353858 84353634 ID=MsG0280011463.01.T01:cds;Parent=MsG0280011463.01.T01
Chr2 CDS 84353257 84353481 84353257 ID=MsG0280011463.01.T01:cds;Parent=MsG0280011463.01.T01
Gene Sequence

>MsG0280011463.01.T01

ATGGAACTTAGAAGATGGAGCTCTACCCACAGTTACCTGCTCATTAATGCCACCCCCCCTCCTGTGCCTCTTGCAAAAAAGATAGGAGCCGAGTTTATAGGGACATTGATTCTGATGTTTGCTGGGACAGCCACTGCTATTGTGAACCAAAAGACACAAGGCTCGGAGACTCTGATTGGGTGTGCTACCTCTACTGGTCTTGCGGTTATGATCATCATCCTCTCCACCGGCCACATCTCTGGTGCTCATCTCAACCCTGCAGTCACCATTTCTTTTGCTGCATTGAAGCACTTCCCGTGGAAGCATGTGCCTATGTATATTGGTGCACAAGTTTTGGCATCAATATGTGCTGCATTTGCTCTCAAAGGGGTTTTTCACCCTTTTATGAGTGGTGGAGTCACCGTTCCTTCCGGAGGATATGGTCAAGCTTTTGCTTTAGAATTCATTATCAGCTTTAATCTAATGTTCGTTGTCACGGCAGTGGCCACCGACACAAGAGCTGTGAGTATTTGTTCCTATAGTAACTTTTAG
Protein sequence

>MsG0280011463.01.T01

MELRRWSSTHSYLLINATPPPVPLAKKIGAEFIGTLILMFAGTATAIVNQKTQGSETLIGCATSTGLAVMIIILSTGHISGAHLNPAVTISFAALKHFPWKHVPMYIGAQVLASICAAFALKGVFHPFMSGGVTVPSGGYGQAFALEFIISFNLMFVVTAVATDTRAVSICSYSNF*