AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene016337

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016337.t1 MTR_8g045400 92.903 155 10 1 1 155 1 154 1.86e-104 295
MS.gene016337.t1 MTR_8g045490 78.947 152 32 0 1 152 1 152 1.37e-90 260
MS.gene016337.t1 MTR_8g045520 80.000 155 31 0 1 155 1 155 2.38e-90 259
MS.gene016337.t1 MTR_8g045695 75.484 155 37 1 1 155 1 154 1.26e-85 248
MS.gene016337.t1 MTR_8g045735 72.258 155 42 1 1 155 1 154 7.62e-82 238
MS.gene016337.t1 MTR_8g045570 71.711 152 43 0 1 152 1 152 1.15e-81 238
MS.gene016337.t1 MTR_8g045640 74.839 155 38 1 1 155 1 154 1.77e-81 237
MS.gene016337.t1 MTR_8g045665 73.548 155 40 1 1 155 1 154 1.91e-81 237
MS.gene016337.t1 MTR_8g045560 73.548 155 40 1 1 155 1 154 1.05e-80 235
MS.gene016337.t1 MTR_8g045555 71.053 152 44 0 1 152 1 152 5.83e-80 233
MS.gene016337.t1 MTR_8g045300 69.677 155 47 0 1 155 1 155 8.49e-80 233
MS.gene016337.t1 MTR_1g030820 37.908 153 92 2 1 151 1 152 5.88e-38 127
MS.gene016337.t1 MTR_1g030810 39.216 153 90 2 1 151 1 152 1.99e-37 125
MS.gene016337.t1 MTR_1g030840 37.580 157 88 5 1 149 1 155 2.58e-29 105
MS.gene016337.t1 MTR_8g012550 34.483 145 92 3 6 149 8 150 9.66e-27 98.6
MS.gene016337.t1 MTR_1g031640 37.838 148 83 5 7 152 7 147 1.99e-24 92.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016337.t1 AT5G28010 35.333 150 94 3 3 150 15 163 1.21e-27 101
MS.gene016337.t1 AT5G28010 35.333 150 94 3 3 150 15 163 1.21e-27 101
MS.gene016337.t1 AT1G70890 37.333 150 91 3 3 150 7 155 2.45e-26 97.8
MS.gene016337.t1 AT1G70840 35.333 150 94 3 3 150 20 168 6.47e-26 97.1
MS.gene016337.t1 AT1G70830 36.667 150 92 3 3 150 22 170 1.37e-25 96.3
MS.gene016337.t1 AT1G70830 36.667 150 92 3 3 150 22 170 2.44e-25 96.3
MS.gene016337.t1 AT1G70830 36.667 150 92 3 3 150 22 170 1.03e-24 95.9
MS.gene016337.t1 AT1G70830 36.667 150 92 3 3 150 22 170 3.15e-24 96.3
MS.gene016337.t1 AT1G70830 35.333 150 94 3 3 150 184 332 1.03e-22 92.0
MS.gene016337.t1 AT5G28000 34.000 150 96 3 3 150 13 161 3.25e-24 92.4
MS.gene016337.t1 AT1G70850 34.667 150 95 3 3 150 9 157 3.16e-23 91.7
MS.gene016337.t1 AT1G70830 35.333 150 94 3 3 150 137 285 3.36e-23 92.8
MS.gene016337.t1 AT1G70830 33.333 93 61 1 59 150 31 123 8.96e-13 64.3
MS.gene016337.t1 AT1G70850 34.667 150 95 3 3 150 9 157 1.01e-22 92.0
MS.gene016337.t1 AT1G70850 35.714 140 87 3 13 150 175 313 1.51e-21 88.6
MS.gene016337.t1 AT1G70850 34.667 150 95 3 3 150 9 157 1.01e-22 92.0
MS.gene016337.t1 AT1G70850 35.714 140 87 3 13 150 175 313 1.51e-21 88.6
MS.gene016337.t1 AT1G23130 29.530 149 103 2 3 150 10 157 9.02e-21 83.6
MS.gene016337.t1 AT4G23670 32.680 153 100 3 1 152 1 151 1.43e-19 80.1
MS.gene016337.t1 AT1G70880 30.667 150 101 3 3 150 8 156 1.47e-19 80.5
MS.gene016337.t1 AT1G23120 27.333 150 104 3 1 150 1 145 1.78e-19 79.7
MS.gene016337.t1 AT1G70870 39.583 96 57 1 56 151 44 138 2.20e-19 79.3
MS.gene016337.t1 AT1G23120 27.778 144 99 3 7 150 57 195 5.25e-19 79.7
MS.gene016337.t1 AT2G01520 29.412 153 105 3 1 152 1 151 1.50e-17 74.7
MS.gene016337.t1 AT1G14930 27.742 155 109 3 1 154 1 153 1.93e-17 74.7
MS.gene016337.t1 AT1G35260 28.767 146 100 3 7 150 6 149 8.84e-17 72.8
MS.gene016337.t1 AT2G01530 30.065 153 104 3 1 152 1 151 1.31e-16 72.4
MS.gene016337.t1 AT4G14060 29.412 153 105 3 1 152 1 151 1.57e-16 72.4
MS.gene016337.t1 AT4G23680 28.289 152 106 3 1 151 1 150 7.34e-16 70.5
MS.gene016337.t1 AT1G30990 29.801 151 102 4 1 150 1 148 9.38e-15 67.8
MS.gene016337.t1 AT1G14940 27.097 155 110 3 1 154 1 153 1.26e-14 67.4
MS.gene016337.t1 AT1G14950 27.742 155 109 3 1 154 1 153 2.05e-14 67.0
MS.gene016337.t1 AT3G26450 29.221 154 105 4 1 152 1 152 2.57e-14 66.6
MS.gene016337.t1 AT1G24020 29.677 155 107 2 1 154 1 154 6.77e-14 65.5
MS.gene016337.t1 AT1G24020 29.677 155 107 2 1 154 1 154 6.77e-14 65.5
MS.gene016337.t1 AT1G35310 25.180 139 101 3 13 150 12 148 1.83e-13 64.3
MS.gene016337.t1 AT1G14960 27.632 152 107 3 1 151 1 150 6.14e-12 60.1
MS.gene016337.t1 AT3G26460 29.487 156 102 5 1 152 1 152 8.17e-12 60.1

Find 28 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTCACCTTCATGAAGTT+TGG 0.292428 8.2:-56626735 None:intergenic
CATTCAGAAATGGTGCTTGC+TGG 0.350620 8.2:+56626605 None:intergenic
AATGGCTGGATGGACTTATT+AGG 0.352875 8.2:+56627770 MS.gene016337:CDS
AAAATAACTTTCAAGCTCTT+CGG 0.428417 8.2:+56627620 MS.gene016337:CDS
ATCATTGAAGTAATTGATAA+TGG 0.436398 8.2:+56627680 MS.gene016337:CDS
ATGGCAGTGGAGCTGCAAAA+TGG 0.452179 8.2:+56627705 MS.gene016337:CDS
AATAAGTCCATCCAGCCATT+TGG 0.456616 8.2:-56627767 None:intergenic
AAACACTGGACTTATGTCAT+AGG 0.490184 8.2:+56626779 MS.gene016337:CDS
AACTTCATGAAGGTGAAGAT+TGG 0.494334 8.2:+56626738 MS.gene016337:CDS
AGACATTGATGAGCACTATA+AGG 0.495099 8.2:+56627646 MS.gene016337:CDS
AGTTTGAAGAACTTGTCAAC+GGG 0.511180 8.2:-56626659 None:intergenic
ATATTGACCCACCAAATGGC+TGG 0.520216 8.2:+56627756 MS.gene016337:CDS
GAGGATATTGACCCACCAAA+TGG 0.531703 8.2:+56627752 MS.gene016337:CDS
GGTAAACTTAGTACTGAACT+TGG 0.538495 8.2:+56626626 MS.gene016337:CDS
ATAACTTTCAAGCTCTTCGG+TGG 0.552870 8.2:+56627623 MS.gene016337:CDS
AAGTCCATCCAGCCATTTGG+TGG 0.553291 8.2:-56627764 None:intergenic
ATTGATAATGGTGATGGCAG+TGG 0.556824 8.2:+56627692 MS.gene016337:CDS
TGACCCACCAAATGGCTGGA+TGG 0.567137 8.2:+56627760 MS.gene016337:CDS
ATTGATCTTCTCATATTCAA+CGG 0.576809 8.2:-56627729 None:intergenic
GTTGATGCTCATCTTGTCAA+AGG 0.591021 8.2:+56627809 MS.gene016337:CDS
CATCATGCCAAACTTCATGA+AGG 0.593864 8.2:+56626728 MS.gene016337:CDS
TAGTTTGAAGAACTTGTCAA+CGG 0.601012 8.2:-56626660 None:intergenic
TGACATCACAATAGATGGCA+AGG 0.606404 8.2:+56627550 MS.gene016337:intron
GTAAACTTAGTACTGAACTT+GGG 0.614711 8.2:+56626627 MS.gene016337:CDS
GAAGTAATTGATAATGGTGA+TGG 0.618480 8.2:+56627686 MS.gene016337:CDS
ACACTGATTCAGTTAAACAC+TGG 0.620261 8.2:+56626765 MS.gene016337:CDS
AGTCCATCCAGCCATTTGGT+GGG 0.658787 8.2:-56627763 None:intergenic
TGAATATGAGAAGATCAATG+AGG 0.699788 8.2:+56627733 MS.gene016337:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATACATTGTTTTAATTTAAT+TGG + chr8.2:56627514-56627533 MS.gene016337:intron 10.0%
!! ACAATATATAGAATTAGTGA+TGG + chr8.2:56627141-56627160 MS.gene016337:intron 20.0%
!! ATCATTGAAGTAATTGATAA+TGG + chr8.2:56627680-56627699 MS.gene016337:CDS 20.0%
!! CATAATCTTCGTATAAAATA+TGG - chr8.2:56626929-56626948 None:intergenic 20.0%
!! GATTTACATGTCTAAATAAA+TGG + chr8.2:56627194-56627213 MS.gene016337:intron 20.0%
!! GTAGAGTTATGAAAAATATA+TGG - chr8.2:56627494-56627513 None:intergenic 20.0%
!! TAAAATGCTAAATACTCATT+AGG + chr8.2:56627262-56627281 MS.gene016337:intron 20.0%
!! TGCTCTTATTAATTGAATTA+AGG - chr8.2:56626900-56626919 None:intergenic 20.0%
!!! AATTCAATTAATAAGAGCAT+AGG + chr8.2:56626901-56626920 MS.gene016337:intron 20.0%
!!! ATTCAATTAATAAGAGCATA+GGG + chr8.2:56626902-56626921 MS.gene016337:intron 20.0%
! AAAATAACTTTCAAGCTCTT+CGG + chr8.2:56627620-56627639 MS.gene016337:CDS 25.0%
! AAATAAACAAGATGATGACT+TGG - chr8.2:56626837-56626856 None:intergenic 25.0%
! ACTTTATCTTTGTCATCTTT+AGG - chr8.2:56626953-56626972 None:intergenic 25.0%
! ATTGATCTTCTCATATTCAA+CGG - chr8.2:56627732-56627751 None:intergenic 25.0%
!! TATTGTCTCATTGATTGATT+TGG - chr8.2:56627127-56627146 None:intergenic 25.0%
AAAAATAAGACACTGTTTCC+TGG + chr8.2:56626999-56627018 MS.gene016337:intron 30.0%
ACAAATTCATATATGATGCC+AGG - chr8.2:56627020-56627039 None:intergenic 30.0%
ATAGATACGTAGTACATACT+TGG + chr8.2:56627225-56627244 MS.gene016337:intron 30.0%
CATATATGAATTTGTGCAGA+TGG + chr8.2:56627025-56627044 MS.gene016337:intron 30.0%
TAGTTTGAAGAACTTGTCAA+CGG - chr8.2:56626663-56626682 None:intergenic 30.0%
TGAATATGAGAAGATCAATG+AGG + chr8.2:56627733-56627752 MS.gene016337:CDS 30.0%
! GTAAACTTAGTACTGAACTT+GGG + chr8.2:56626627-56626646 MS.gene016337:CDS 30.0%
!! GAAGTAATTGATAATGGTGA+TGG + chr8.2:56627686-56627705 MS.gene016337:CDS 30.0%
AAACACTGGACTTATGTCAT+AGG + chr8.2:56626779-56626798 MS.gene016337:CDS 35.0%
AACTTCATGAAGGTGAAGAT+TGG + chr8.2:56626738-56626757 MS.gene016337:CDS 35.0%
AGACATTGATGAGCACTATA+AGG + chr8.2:56627646-56627665 MS.gene016337:CDS 35.0%
AGTTTGAAGAACTTGTCAAC+GGG - chr8.2:56626662-56626681 None:intergenic 35.0%
ATATGAATTTGTGCAGATGG+AGG + chr8.2:56627028-56627047 MS.gene016337:intron 35.0%
ATCTTCACCTTCATGAAGTT+TGG - chr8.2:56626738-56626757 None:intergenic 35.0%
GTCTTAAACGATATGTGAGA+AGG + chr8.2:56627362-56627381 MS.gene016337:intron 35.0%
! GGTAAACTTAGTACTGAACT+TGG + chr8.2:56626626-56626645 MS.gene016337:CDS 35.0%
!! AAGATGATGACTTGGTTATG+AGG - chr8.2:56626829-56626848 None:intergenic 35.0%
!! ACACTGATTCAGTTAAACAC+TGG + chr8.2:56626765-56626784 MS.gene016337:CDS 35.0%
AATAAGTCCATCCAGCCATT+TGG - chr8.2:56627770-56627789 None:intergenic 40.0%
ATAACTTTCAAGCTCTTCGG+TGG + chr8.2:56627623-56627642 MS.gene016337:CDS 40.0%
CATCATGCCAAACTTCATGA+AGG + chr8.2:56626728-56626747 MS.gene016337:CDS 40.0%
GCCATCTATTGTGATGTCAT+GGG - chr8.2:56627549-56627568 None:intergenic 40.0%
GTTGATGCTCATCTTGTCAA+AGG + chr8.2:56627809-56627828 MS.gene016337:CDS 40.0%
TCCCATGACATCACAATAGA+TGG + chr8.2:56627545-56627564 MS.gene016337:intron 40.0%
TGACATCACAATAGATGGCA+AGG + chr8.2:56627550-56627569 MS.gene016337:intron 40.0%
TGCCATCTATTGTGATGTCA+TGG - chr8.2:56627550-56627569 None:intergenic 40.0%
! AATGGCTGGATGGACTTATT+AGG + chr8.2:56627770-56627789 MS.gene016337:CDS 40.0%
!! ATTGATAATGGTGATGGCAG+TGG + chr8.2:56627692-56627711 MS.gene016337:CDS 40.0%
ATATTGACCCACCAAATGGC+TGG + chr8.2:56627756-56627775 MS.gene016337:CDS 45.0%
GAGGATATTGACCCACCAAA+TGG + chr8.2:56627752-56627771 MS.gene016337:CDS 45.0%
TTGTGCAGATGGAGGATCTA+TGG + chr8.2:56627036-56627055 MS.gene016337:intron 45.0%
AAGTCCATCCAGCCATTTGG+TGG - chr8.2:56627767-56627786 None:intergenic 50.0%
AGTCCATCCAGCCATTTGGT+GGG - chr8.2:56627766-56627785 None:intergenic 50.0%
ATGGCAGTGGAGCTGCAAAA+TGG + chr8.2:56627705-56627724 MS.gene016337:CDS 50.0%
CAGATGGAGGATCTATGGAG+AGG + chr8.2:56627041-56627060 MS.gene016337:intron 50.0%
TGACCCACCAAATGGCTGGA+TGG + chr8.2:56627760-56627779 MS.gene016337:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 56626614 56627844 56626614 ID=MS.gene016337
chr8.2 mRNA 56626614 56627844 56626614 ID=MS.gene016337.t1;Parent=MS.gene016337
chr8.2 exon 56626614 56626800 56626614 ID=MS.gene016337.t1.exon1;Parent=MS.gene016337.t1
chr8.2 CDS 56626614 56626800 56626614 ID=cds.MS.gene016337.t1;Parent=MS.gene016337.t1
chr8.2 exon 56627564 56627844 56627564 ID=MS.gene016337.t1.exon2;Parent=MS.gene016337.t1
chr8.2 CDS 56627564 56627844 56627564 ID=cds.MS.gene016337.t1;Parent=MS.gene016337.t1
Gene Sequence

>MS.gene016337

ATGGTGCTTGCTGGTAAACTTAGTACTGAACTTGGGATCAAAACACCCGTTGACAAGTTCTTCAAACTATATGCATCAGAACTTCACGAAGTGCAAAACATTAGTGAAAGAATTCATCATGCCAAACTTCATGAAGGTGAAGATTGGCATCACACTGATTCAGTTAAACACTGGACTTATGTCATAGGTAATTAAGTTTCTAATTCAATTGACCTCATAACCAAGTCATCATCTTGTTTATTTATATATTTTTTTTGAACAATTTGTTTATTTATATATTGATCCTTAATTCAATTAATAAGAGCATAGGGACCATATTTTATACGAAGATTATGTCCTAAAGATGACAAAGATAAAGTTTTTCAGCTGTGAAATTTAGATACAAAAAAATAAGACACTGTTTCCTGGCATCATATATGAATTTGTGCAGATGGAGGATCTATGGAGAGGAAAAGATAAAAAAAATAAAACAGTCAGAAAAAAAAAACAATTCGATCAAAGTTTAATTAACCAAATCAATCAATGAGACAATATATAGAATTAGTGATGGATTTATAGATACATCATAGTACATATACTTGATTTACATGTCTAAATAAATGGTAGTTACTATAGATACGTAGTACATACTTGGTATTCATGTCAAAATAAAATGCTAAATACTCATTAGGAGATACATGATTGACTTTATAGTTGTAATGAGTGCATATAATTCAGACTTCTTAAAGATATTCAAATATTGCATAGAGTCTTAAACGATATGTGAGAAGGCAACTAAACATTATATAGATTATTAATATTCATTTTTTTGTTTAAAAACTATTTTATTTGAAAAATGAAAACAATTTAATTGATTAGTTATTTTAAAAAAATGTGTCCATATATTTTTCATAACTCTACATACATTGTTTTAATTTAATTGGTATTAATTTCCCATGACATCACAATAGATGGCAAGGTAAACACATGTCATGAGAGTGTTGAAGAAGTTGATGAACAGAACAAAAAAATAACTTTCAAGCTCTTCGGTGGAGACATTGATGAGCACTATAAGGTCTTTAATCTGATCATTGAAGTAATTGATAATGGTGATGGCAGTGGAGCTGCAAAATGGACCGTTGAATATGAGAAGATCAATGAGGATATTGACCCACCAAATGGCTGGATGGACTTATTAGGCAAAATCACTCGAGAAGTTGATGCTCATCTTGTCAAAGGCACAAACATATAG
Protein sequence

>MS.gene016337.t1

MVLAGKLSTELGIKTPVDKFFKLYASELHEVQNISERIHHAKLHEGEDWHHTDSVKHWTYVIDGKVNTCHESVEEVDEQNKKITFKLFGGDIDEHYKVFNLIIEVIDNGDGSGAAKWTVEYEKINEDIDPPNGWMDLLGKITREVDAHLVKGTNI