AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene59841

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59841.t1 MTR_8g045400 95.035 141 7 0 1 141 1 141 1.21e-97 277
MS.gene59841.t1 MTR_8g045490 80.282 142 27 1 1 141 1 142 7.75e-83 240
MS.gene59841.t1 MTR_8g045520 81.690 142 25 1 1 141 1 142 6.58e-81 235
MS.gene59841.t1 MTR_8g045695 76.056 142 32 2 1 141 1 141 5.57e-76 223
MS.gene59841.t1 MTR_8g045570 73.239 142 37 1 1 141 1 142 2.17e-74 218
MS.gene59841.t1 MTR_8g045555 71.831 142 39 1 1 141 1 142 2.91e-72 213
MS.gene59841.t1 MTR_8g045735 71.831 142 38 2 1 141 1 141 7.30e-72 212
MS.gene59841.t1 MTR_8g045640 74.648 142 34 2 1 141 1 141 3.07e-71 211
MS.gene59841.t1 MTR_8g045300 70.423 142 41 1 1 141 1 142 4.92e-71 210
MS.gene59841.t1 MTR_8g045665 73.239 142 36 2 1 141 1 141 7.87e-71 209
MS.gene59841.t1 MTR_8g045560 73.239 142 36 2 1 141 1 141 4.30e-70 208
MS.gene59841.t1 MTR_1g030810 40.559 143 81 3 1 140 1 142 9.18e-33 113
MS.gene59841.t1 MTR_1g030820 38.194 144 85 3 1 141 1 143 2.58e-32 112
MS.gene59841.t1 MTR_1g030840 38.926 149 82 5 1 141 1 148 8.78e-28 100
MS.gene59841.t1 MTR_1g031640 37.594 133 75 3 7 137 7 133 3.58e-23 88.6
MS.gene59841.t1 MTR_8g012550 34.586 133 83 4 6 136 8 138 3.10e-22 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59841.t1 AT5G28010 35.915 142 87 4 3 141 15 155 2.10e-22 87.4
MS.gene59841.t1 AT5G28010 35.915 142 87 4 3 141 15 155 2.10e-22 87.4
MS.gene59841.t1 AT1G70840 37.324 142 85 4 3 141 20 160 4.66e-22 86.7
MS.gene59841.t1 AT1G70830 38.028 142 84 4 3 141 22 162 9.71e-22 85.9
MS.gene59841.t1 AT1G70830 38.028 142 84 4 3 141 22 162 1.95e-21 85.9
MS.gene59841.t1 AT1G70890 36.620 142 86 4 3 141 7 147 5.53e-21 83.6
MS.gene59841.t1 AT1G70830 38.028 142 84 4 3 141 22 162 6.44e-21 85.5
MS.gene59841.t1 AT1G70830 38.028 142 84 4 3 141 22 162 1.63e-20 85.5
MS.gene59841.t1 AT1G70830 37.324 142 85 4 3 141 184 324 1.06e-19 83.6
MS.gene59841.t1 AT1G70830 37.324 142 85 4 3 141 137 277 3.51e-20 84.0
MS.gene59841.t1 AT1G23120 30.075 133 89 2 1 133 1 129 7.20e-20 80.5
MS.gene59841.t1 AT1G23120 30.709 127 84 2 7 133 57 179 1.37e-19 80.9
MS.gene59841.t1 AT1G23130 31.915 141 93 3 3 141 10 149 1.60e-19 79.7
MS.gene59841.t1 AT5G28000 34.507 142 89 4 3 141 13 153 3.88e-19 79.0
MS.gene59841.t1 AT4G23670 34.043 141 91 2 1 140 1 140 5.53e-19 78.2
MS.gene59841.t1 AT1G70850 35.915 142 87 4 3 141 9 149 1.26e-18 79.0
MS.gene59841.t1 AT1G70850 35.915 142 87 4 3 141 9 149 2.92e-18 79.3
MS.gene59841.t1 AT1G70850 35.606 132 81 4 13 141 175 305 1.76e-16 74.3
MS.gene59841.t1 AT1G70850 35.915 142 87 4 3 141 9 149 2.92e-18 79.3
MS.gene59841.t1 AT1G70850 35.606 132 81 4 13 141 175 305 1.76e-16 74.3
MS.gene59841.t1 AT1G70870 41.463 82 48 0 55 136 43 124 3.10e-18 75.9
MS.gene59841.t1 AT2G01520 31.159 138 93 2 1 137 1 137 6.17e-17 72.8
MS.gene59841.t1 AT1G14930 30.435 138 94 2 1 137 1 137 1.88e-16 71.6
MS.gene59841.t1 AT4G23680 30.435 138 94 2 1 137 1 137 2.90e-16 71.2
MS.gene59841.t1 AT1G30990 31.538 130 87 2 1 129 1 129 5.51e-16 70.5
MS.gene59841.t1 AT2G01530 29.787 141 97 2 1 140 1 140 4.59e-15 68.2
MS.gene59841.t1 AT1G70880 30.282 142 95 4 3 141 8 148 6.04e-15 67.8
MS.gene59841.t1 AT4G14060 29.710 138 95 2 1 137 1 137 9.27e-15 67.0
MS.gene59841.t1 AT1G14940 28.986 138 96 2 1 137 1 137 4.01e-14 65.5
MS.gene59841.t1 AT1G14950 29.710 138 95 2 1 137 1 137 9.45e-14 64.7
MS.gene59841.t1 AT1G35260 29.710 138 92 4 7 141 6 141 1.75e-13 63.9
MS.gene59841.t1 AT1G14960 29.078 141 98 2 1 140 1 140 1.72e-12 61.2
MS.gene59841.t1 AT3G26450 28.777 139 96 3 1 137 1 138 4.50e-12 60.1
MS.gene59841.t1 AT3G26460 28.777 139 96 3 1 137 1 138 5.00e-12 60.1
MS.gene59841.t1 AT1G35310 29.915 117 78 4 13 127 12 126 8.67e-12 59.3

Find 30 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTCACCTTCATGAAGTT+TGG 0.299460 8.3:-54065085 None:intergenic
AACATTAGTGAAAGAGTTCA+TGG 0.367158 8.3:+54065060 MS.gene59841:CDS
ATCATTGAAGTAATTGATAT+TGG 0.369681 8.3:+54065540 MS.gene59841:CDS
AAGTTCAGTACTAAGTTTAC+CGG 0.399540 8.3:-54064974 None:intergenic
ATGGCAGTGGAGCTGCAAAA+TGG 0.452179 8.3:+54065565 MS.gene59841:CDS
AAACTCACTTTCAAGCTCTT+CGG 0.455962 8.3:+54065480 MS.gene59841:CDS
AGTAAGTCCATCCAGCCGTT+TGG 0.466253 8.3:-54065627 None:intergenic
AAACACTGGACTTATGTCAT+AGG 0.470664 8.3:+54065129 MS.gene59841:CDS
AACTTCATGAAGGTGAAGAT+TGG 0.494334 8.3:+54065088 MS.gene59841:CDS
AGACATTGATGAGCACTATA+AGG 0.495099 8.3:+54065506 MS.gene59841:CDS
AAGTCCATCCAGCCGTTTGG+AGG 0.512932 8.3:-54065624 None:intergenic
AGTTTGAAGAACTTGTCAAC+GGG 0.514468 8.3:-54065009 None:intergenic
AGATTGGCATCACACTGATT+CGG 0.519723 8.3:+54065104 MS.gene59841:CDS
AACGGCTGGATGGACTTACT+AGG 0.530262 8.3:+54065630 MS.gene59841:CDS
TGACCCTCCAAACGGCTGGA+TGG 0.534206 8.3:+54065620 MS.gene59841:CDS
GGTAAACTTAGTACTGAACT+TGG 0.549891 8.3:+54064976 MS.gene59841:CDS
ATATTGACCCTCCAAACGGC+TGG 0.552828 8.3:+54065616 MS.gene59841:CDS
CTCACTTTCAAGCTCTTCGG+TGG 0.553344 8.3:+54065483 MS.gene59841:CDS
TGACATCACAACAGATGGTA+AGG 0.554203 8.3:+54065413 MS.gene59841:intron
ATTGATATTGGTGATGGCAG+TGG 0.556824 8.3:+54065552 MS.gene59841:CDS
GAGGATATTGACCCTCCAAA+CGG 0.570412 8.3:+54065612 MS.gene59841:CDS
ATTGATCTTCTCATATTCAA+CGG 0.576809 8.3:-54065589 None:intergenic
CATTCAGAAATGGTGCTCGC+CGG 0.577910 8.3:+54064955 None:intergenic
GAAGTAATTGATATTGGTGA+TGG 0.591257 8.3:+54065546 MS.gene59841:CDS
AGTCCATCCAGCCGTTTGGA+GGG 0.593728 8.3:-54065623 None:intergenic
TAGTTTGAAGAACTTGTCAA+CGG 0.604299 8.3:-54065010 None:intergenic
ACACTGATTCGGTTAAACAC+TGG 0.614381 8.3:+54065115 MS.gene59841:CDS
GTAAACTTAGTACTGAACTT+GGG 0.625486 8.3:+54064977 MS.gene59841:CDS
CATGGTGCCAAACTTCATGA+AGG 0.632424 8.3:+54065078 MS.gene59841:CDS
TGAATATGAGAAGATCAATG+AGG 0.699788 8.3:+54065593 MS.gene59841:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGAGTTATGAAAAATATA+TGG - chr8.3:54065357-54065376 None:intergenic 15.0%
!!! ATACACTGTTTTAATTTAAT+TGG + chr8.3:54065377-54065396 MS.gene59841:intron 15.0%
!! AAATAAACAAGATGATATAG+AGG - chr8.3:54065183-54065202 None:intergenic 20.0%
!! AATAAACAAGATGATATAGA+GGG - chr8.3:54065182-54065201 None:intergenic 20.0%
!! ATCATTGAAGTAATTGATAT+TGG + chr8.3:54065540-54065559 MS.gene59841:CDS 20.0%
!! CATAATCTTCTTATAAAGTA+TGG - chr8.3:54065245-54065264 None:intergenic 20.0%
!! TGAAAAACTTTATCATCTTT+AGG - chr8.3:54065269-54065288 None:intergenic 20.0%
!! TGCTCTTATTAATTGAATTA+AGG - chr8.3:54065216-54065235 None:intergenic 20.0%
!!! AATTCAATTAATAAGAGCAT+AGG + chr8.3:54065217-54065236 MS.gene59841:intron 20.0%
!!! ATTCAATTAATAAGAGCATA+GGG + chr8.3:54065218-54065237 MS.gene59841:intron 20.0%
! ATTGATCTTCTCATATTCAA+CGG - chr8.3:54065592-54065611 None:intergenic 25.0%
AACATTAGTGAAAGAGTTCA+TGG + chr8.3:54065060-54065079 MS.gene59841:CDS 30.0%
AAGTTCAGTACTAAGTTTAC+CGG - chr8.3:54064977-54064996 None:intergenic 30.0%
GAAGTAATTGATATTGGTGA+TGG + chr8.3:54065546-54065565 MS.gene59841:CDS 30.0%
TAGTTTGAAGAACTTGTCAA+CGG - chr8.3:54065013-54065032 None:intergenic 30.0%
TGAATATGAGAAGATCAATG+AGG + chr8.3:54065593-54065612 MS.gene59841:CDS 30.0%
! GTAAACTTAGTACTGAACTT+GGG + chr8.3:54064977-54064996 MS.gene59841:CDS 30.0%
AAACACTGGACTTATGTCAT+AGG + chr8.3:54065129-54065148 MS.gene59841:CDS 35.0%
AAACTCACTTTCAAGCTCTT+CGG + chr8.3:54065480-54065499 MS.gene59841:CDS 35.0%
AACTTCATGAAGGTGAAGAT+TGG + chr8.3:54065088-54065107 MS.gene59841:CDS 35.0%
AGACATTGATGAGCACTATA+AGG + chr8.3:54065506-54065525 MS.gene59841:CDS 35.0%
AGTTTGAAGAACTTGTCAAC+GGG - chr8.3:54065012-54065031 None:intergenic 35.0%
ATCTTCACCTTCATGAAGTT+TGG - chr8.3:54065088-54065107 None:intergenic 35.0%
! GGTAAACTTAGTACTGAACT+TGG + chr8.3:54064976-54064995 MS.gene59841:CDS 35.0%
ACCATCTGTTGTGATGTCAA+GGG - chr8.3:54065412-54065431 None:intergenic 40.0%
TACCATCTGTTGTGATGTCA+AGG - chr8.3:54065413-54065432 None:intergenic 40.0%
TGACATCACAACAGATGGTA+AGG + chr8.3:54065413-54065432 MS.gene59841:intron 40.0%
! AGATTGGCATCACACTGATT+CGG + chr8.3:54065104-54065123 MS.gene59841:CDS 40.0%
!! ACACTGATTCGGTTAAACAC+TGG + chr8.3:54065115-54065134 MS.gene59841:CDS 40.0%
!! ATTGATATTGGTGATGGCAG+TGG + chr8.3:54065552-54065571 MS.gene59841:CDS 40.0%
GAGGATATTGACCCTCCAAA+CGG + chr8.3:54065612-54065631 MS.gene59841:CDS 45.0%
! CATGGTGCCAAACTTCATGA+AGG + chr8.3:54065078-54065097 MS.gene59841:CDS 45.0%
AGTAAGTCCATCCAGCCGTT+TGG - chr8.3:54065630-54065649 None:intergenic 50.0%
ATATTGACCCTCCAAACGGC+TGG + chr8.3:54065616-54065635 MS.gene59841:CDS 50.0%
ATGGCAGTGGAGCTGCAAAA+TGG + chr8.3:54065565-54065584 MS.gene59841:CDS 50.0%
CTCACTTTCAAGCTCTTCGG+TGG + chr8.3:54065483-54065502 MS.gene59841:CDS 50.0%
GCCCTTGACATCACAACAGA+TGG + chr8.3:54065408-54065427 MS.gene59841:intron 50.0%
! AACGGCTGGATGGACTTACT+AGG + chr8.3:54065630-54065649 MS.gene59841:CDS 50.0%
AAGTCCATCCAGCCGTTTGG+AGG - chr8.3:54065627-54065646 None:intergenic 55.0%
AGTCCATCCAGCCGTTTGGA+GGG - chr8.3:54065626-54065645 None:intergenic 55.0%
TGACCCTCCAAACGGCTGGA+TGG + chr8.3:54065620-54065639 MS.gene59841:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 54064964 54065665 54064964 ID=MS.gene59841
chr8.3 mRNA 54064964 54065665 54064964 ID=MS.gene59841.t1;Parent=MS.gene59841
chr8.3 exon 54064964 54065150 54064964 ID=MS.gene59841.t1.exon1;Parent=MS.gene59841.t1
chr8.3 CDS 54064964 54065150 54064964 ID=cds.MS.gene59841.t1;Parent=MS.gene59841.t1
chr8.3 exon 54065427 54065665 54065427 ID=MS.gene59841.t1.exon2;Parent=MS.gene59841.t1
chr8.3 CDS 54065427 54065665 54065427 ID=cds.MS.gene59841.t1;Parent=MS.gene59841.t1
Gene Sequence

>MS.gene59841

ATGGTGCTCGCCGGTAAACTTAGTACTGAACTTGGGATCAAAACACCCGTTGACAAGTTCTTCAAACTATTTGCATCAGAACTTCACGAAGTGCAAAACATTAGTGAAAGAGTTCATGGTGCCAAACTTCATGAAGGTGAAGATTGGCATCACACTGATTCGGTTAAACACTGGACTTATGTCATAGGTAATTATGTTTCTAATTCAATTACATGCCCTCTATATCATCTTGTTTATTTATATATTGATCCTTAATTCAATTAATAAGAGCATAGGGACCATACTTTATAAGAAGATTATGTCCTAAAGATGATAAAGTTTTTCAGCTGTGATATTTAGACAAAAAAAAAGACATGTTTTAATTGATTAGTTATTTTAAAAAAAATGTGACCATATATTTTTCATAACTCAATATACACTGTTTTAATTTAATTGGTATTAATTGCCCTTGACATCACAACAGATGGTAAGGTACACACATGTCATGAGAGTATCGAAGTTGATGAACAGAACAAAAAACTCACTTTCAAGCTCTTCGGTGGAGACATTGATGAGCACTATAAGGTCTTTAATGTGATCATTGAAGTAATTGATATTGGTGATGGCAGTGGAGCTGCAAAATGGACCGTTGAATATGAGAAGATCAATGAGGATATTGACCCTCCAAACGGCTGGATGGACTTACTAGGCAAAGTCACTTGA
Protein sequence

>MS.gene59841.t1

MVLAGKLSTELGIKTPVDKFFKLFASELHEVQNISERVHGAKLHEGEDWHHTDSVKHWTYVIDGKVHTCHESIEVDEQNKKLTFKLFGGDIDEHYKVFNVIIEVIDIGDGSGAAKWTVEYEKINEDIDPPNGWMDLLGKVT