AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene016336

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016336.t1 MTR_8g045400 95.513 156 7 0 1 156 1 156 1.52e-109 308
MS.gene016336.t1 MTR_8g045520 79.618 157 31 1 1 156 1 157 2.06e-89 257
MS.gene016336.t1 MTR_8g045490 77.707 157 33 2 1 156 1 156 2.48e-88 254
MS.gene016336.t1 MTR_8g045695 73.885 157 39 2 1 156 1 156 1.93e-83 242
MS.gene016336.t1 MTR_8g045570 73.026 152 40 1 1 151 1 152 1.17e-80 235
MS.gene016336.t1 MTR_8g045640 73.885 157 39 2 1 156 1 156 2.89e-80 234
MS.gene016336.t1 MTR_8g045300 69.872 156 46 1 1 155 1 156 2.85e-79 232
MS.gene016336.t1 MTR_8g045665 71.975 157 42 2 1 156 1 156 3.88e-79 231
MS.gene016336.t1 MTR_8g045555 71.711 152 42 1 1 151 1 152 8.71e-79 230
MS.gene016336.t1 MTR_8g045735 70.323 155 44 2 1 154 1 154 1.03e-78 230
MS.gene016336.t1 MTR_8g045560 71.975 157 42 2 1 156 1 156 1.63e-78 230
MS.gene016336.t1 MTR_1g030810 41.176 153 86 3 1 150 1 152 7.57e-38 127
MS.gene016336.t1 MTR_1g030820 38.562 153 90 3 1 150 1 152 7.86e-37 124
MS.gene016336.t1 MTR_1g030840 40.127 157 83 6 1 148 1 155 7.45e-30 107
MS.gene016336.t1 MTR_1g031640 38.776 147 82 4 7 151 7 147 4.81e-28 101
MS.gene016336.t1 MTR_8g012550 35.862 145 89 4 6 148 8 150 4.02e-26 97.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016336.t1 AT5G28010 36.667 150 91 4 3 149 15 163 1.23e-26 99.0
MS.gene016336.t1 AT5G28010 36.667 150 91 4 3 149 15 163 1.23e-26 99.0
MS.gene016336.t1 AT1G70840 38.000 150 89 4 3 149 20 168 2.76e-26 98.2
MS.gene016336.t1 AT1G70830 38.667 150 88 4 3 149 22 170 6.96e-26 97.1
MS.gene016336.t1 AT1G70830 38.667 150 88 4 3 149 22 170 1.24e-25 97.1
MS.gene016336.t1 AT1G70890 37.333 150 90 4 3 149 7 155 2.87e-25 95.1
MS.gene016336.t1 AT1G70830 38.667 150 88 4 3 149 22 170 5.88e-25 96.7
MS.gene016336.t1 AT1G70830 38.667 150 88 4 3 149 22 170 1.69e-24 97.1
MS.gene016336.t1 AT1G70830 38.000 150 89 4 3 149 184 332 1.31e-23 94.7
MS.gene016336.t1 AT1G70830 38.000 150 89 4 3 149 137 285 2.87e-24 95.5
MS.gene016336.t1 AT1G70830 35.484 93 58 2 59 149 31 123 8.14e-12 62.0
MS.gene016336.t1 AT5G28000 35.333 150 93 4 3 149 13 161 2.38e-23 90.1
MS.gene016336.t1 AT1G70850 36.667 150 91 4 3 149 9 157 1.42e-22 90.1
MS.gene016336.t1 AT1G23120 28.859 149 102 2 1 149 1 145 1.77e-22 87.4
MS.gene016336.t1 AT1G23120 29.371 143 97 2 7 149 57 195 4.06e-22 87.8
MS.gene016336.t1 AT1G70850 36.667 150 91 4 3 149 9 157 4.25e-22 90.1
MS.gene016336.t1 AT1G70850 36.429 140 85 4 13 149 175 313 2.20e-20 85.5
MS.gene016336.t1 AT1G70850 36.667 150 91 4 3 149 9 157 4.25e-22 90.1
MS.gene016336.t1 AT1G70850 36.429 140 85 4 13 149 175 313 2.20e-20 85.5
MS.gene016336.t1 AT1G70870 38.542 96 59 0 55 150 43 138 2.50e-21 84.3
MS.gene016336.t1 AT1G14930 30.769 156 106 2 1 155 1 155 3.93e-21 84.3
MS.gene016336.t1 AT1G23130 31.544 149 99 3 3 149 10 157 4.34e-21 84.3
MS.gene016336.t1 AT4G23670 32.895 152 100 2 1 151 1 151 5.25e-21 84.0
MS.gene016336.t1 AT2G01520 30.263 152 104 2 1 151 1 151 5.93e-20 81.3
MS.gene016336.t1 AT4G14060 29.605 152 105 2 1 151 1 151 1.30e-18 77.8
MS.gene016336.t1 AT2G01530 29.605 152 105 2 1 151 1 151 3.39e-18 76.6
MS.gene016336.t1 AT1G70880 30.667 150 100 4 3 149 8 156 4.54e-18 76.6
MS.gene016336.t1 AT1G14940 28.846 156 109 2 1 155 1 155 4.76e-18 76.3
MS.gene016336.t1 AT4G23680 29.139 151 105 2 1 150 1 150 1.42e-17 75.1
MS.gene016336.t1 AT1G30990 30.000 150 102 3 1 149 1 148 4.95e-17 73.6
MS.gene016336.t1 AT1G14950 28.846 156 109 2 1 155 1 155 5.65e-17 73.6
MS.gene016336.t1 AT1G35260 30.137 146 97 4 7 149 6 149 7.43e-17 73.2
MS.gene016336.t1 AT3G26450 28.105 153 107 3 1 151 1 152 6.11e-15 68.2
MS.gene016336.t1 AT1G14960 28.477 151 106 2 1 150 1 150 1.67e-14 67.0
MS.gene016336.t1 AT3G26460 27.451 153 108 3 1 151 1 152 6.75e-14 65.5
MS.gene016336.t1 AT1G35310 27.338 139 97 4 13 149 12 148 1.66e-13 64.3
MS.gene016336.t1 AT1G24020 30.263 152 103 3 1 150 1 151 3.87e-12 60.8
MS.gene016336.t1 AT1G24020 30.263 152 103 3 1 150 1 151 3.87e-12 60.8
MS.gene016336.t1 AT1G14940 25.641 156 98 2 1 155 1 139 6.56e-11 57.4

Find 31 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTCACCTTCATGAAGTT+TGG 0.299460 8.2:-56620077 None:intergenic
AAGTTCAGTACTAAGTTTAC+CGG 0.399540 8.2:-56619966 None:intergenic
AACATTAGCGAAAGAGTTCA+TGG 0.404572 8.2:+56620052 MS.gene016336:CDS
AACAAGTCCATCCAGCCATT+TGG 0.409540 8.2:-56620627 None:intergenic
ATCATTGAAGTAATTGATAA+TGG 0.438898 8.2:+56620540 MS.gene016336:CDS
ATGGCAGTGGAGCTGCAAAA+TGG 0.452179 8.2:+56620565 MS.gene016336:CDS
AAACTCACTTTCAAGCTCTT+CGG 0.455962 8.2:+56620480 MS.gene016336:CDS
AATGGCTGGATGGACTTGTT+AGG 0.459576 8.2:+56620630 MS.gene016336:CDS
AAACACTGGACTTATGTCAT+AGG 0.470664 8.2:+56620121 MS.gene016336:CDS
AACTTCATGAAGGTGAAGAT+TGG 0.494334 8.2:+56620080 MS.gene016336:CDS
AGACATTGATGAGCACTATA+AGG 0.495099 8.2:+56620506 MS.gene016336:CDS
AGATTGGCATCACACTGATT+CGG 0.519723 8.2:+56620096 MS.gene016336:CDS
ATATTGACCCTCCAAATGGC+TGG 0.527845 8.2:+56620616 MS.gene016336:CDS
GAGGATATTGACCCTCCAAA+TGG 0.539495 8.2:+56620612 MS.gene016336:CDS
GGTAAACTTAGTACTGAACT+TGG 0.549891 8.2:+56619968 MS.gene016336:CDS
AAGTCCATCCAGCCATTTGG+AGG 0.551025 8.2:-56620624 None:intergenic
CTCACTTTCAAGCTCTTCGG+TGG 0.553344 8.2:+56620483 MS.gene016336:CDS
TCACATCACAACAGATGGTA+AGG 0.554203 8.2:+56620413 MS.gene016336:intron
CATTCAGAAATGGTGCTCGC+CGG 0.555555 8.2:+56619947 None:intergenic
ATTGATAATGGTGATGGCAG+TGG 0.556824 8.2:+56620552 MS.gene016336:CDS
TGACCCTCCAAATGGCTGGA+TGG 0.557517 8.2:+56620620 MS.gene016336:CDS
ATTGATCTTCTCATATTCAA+CGG 0.576809 8.2:-56620589 None:intergenic
GTTGATGCTCATCTTGTCAA+AGG 0.600604 8.2:+56620669 MS.gene016336:CDS
ACACTGATTCGGTTAAACAC+TGG 0.614381 8.2:+56620107 MS.gene016336:CDS
GAAGTAATTGATAATGGTGA+TGG 0.618480 8.2:+56620546 MS.gene016336:CDS
TAGTTTGAAGAACTTGTCGA+CGG 0.618944 8.2:-56620002 None:intergenic
GTAAACTTAGTACTGAACTT+GGG 0.625486 8.2:+56619969 MS.gene016336:CDS
AGTTTGAAGAACTTGTCGAC+GGG 0.627390 8.2:-56620001 None:intergenic
CATGGTGCCAAACTTCATGA+AGG 0.632424 8.2:+56620070 MS.gene016336:CDS
AGTCCATCCAGCCATTTGGA+GGG 0.644461 8.2:-56620623 None:intergenic
TGAATATGAGAAGATCAATG+AGG 0.699788 8.2:+56620593 MS.gene016336:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAGAGTTATGAAAAATATA+TGG - chr8.2:56620357-56620376 None:intergenic 15.0%
!! CATAATATTCATATAAAGTA+TGG - chr8.2:56620238-56620257 None:intergenic 15.0%
!! TATAAATAAACAAGATGATA+TGG - chr8.2:56620179-56620198 None:intergenic 15.0%
!!! ATACACTGTTTTAATTTAAT+TGG + chr8.2:56620377-56620396 MS.gene016336:intron 15.0%
!! ATCATTGAAGTAATTGATAA+TGG + chr8.2:56620540-56620559 MS.gene016336:CDS 20.0%
!! TGCTCTTATTAATTGAATTA+AGG - chr8.2:56620209-56620228 None:intergenic 20.0%
!!! AATTCAATTAATAAGAGCAT+AGG + chr8.2:56620210-56620229 MS.gene016336:intron 20.0%
!!! ATTCAATTAATAAGAGCATA+GGG + chr8.2:56620211-56620230 MS.gene016336:intron 20.0%
! AAATAAACAAGATGATATGG+AGG - chr8.2:56620176-56620195 None:intergenic 25.0%
! AATAAACAAGATGATATGGA+GGG - chr8.2:56620175-56620194 None:intergenic 25.0%
! ATTGATCTTCTCATATTCAA+CGG - chr8.2:56620592-56620611 None:intergenic 25.0%
AAGTTCAGTACTAAGTTTAC+CGG - chr8.2:56619969-56619988 None:intergenic 30.0%
TGAATATGAGAAGATCAATG+AGG + chr8.2:56620593-56620612 MS.gene016336:CDS 30.0%
! GTAAACTTAGTACTGAACTT+GGG + chr8.2:56619969-56619988 MS.gene016336:CDS 30.0%
!! GAAGTAATTGATAATGGTGA+TGG + chr8.2:56620546-56620565 MS.gene016336:CDS 30.0%
AAACACTGGACTTATGTCAT+AGG + chr8.2:56620121-56620140 MS.gene016336:CDS 35.0%
AAACTCACTTTCAAGCTCTT+CGG + chr8.2:56620480-56620499 MS.gene016336:CDS 35.0%
AACATTAGCGAAAGAGTTCA+TGG + chr8.2:56620052-56620071 MS.gene016336:CDS 35.0%
AACTTCATGAAGGTGAAGAT+TGG + chr8.2:56620080-56620099 MS.gene016336:CDS 35.0%
AGACATTGATGAGCACTATA+AGG + chr8.2:56620506-56620525 MS.gene016336:CDS 35.0%
ATCTTCACCTTCATGAAGTT+TGG - chr8.2:56620080-56620099 None:intergenic 35.0%
TAGTTTGAAGAACTTGTCGA+CGG - chr8.2:56620005-56620024 None:intergenic 35.0%
! GGTAAACTTAGTACTGAACT+TGG + chr8.2:56619968-56619987 MS.gene016336:CDS 35.0%
ACCATCTGTTGTGATGTGAA+GGG - chr8.2:56620412-56620431 None:intergenic 40.0%
AGTTTGAAGAACTTGTCGAC+GGG - chr8.2:56620004-56620023 None:intergenic 40.0%
GTTGATGCTCATCTTGTCAA+AGG + chr8.2:56620669-56620688 MS.gene016336:CDS 40.0%
TACCATCTGTTGTGATGTGA+AGG - chr8.2:56620413-56620432 None:intergenic 40.0%
TCACATCACAACAGATGGTA+AGG + chr8.2:56620413-56620432 MS.gene016336:intron 40.0%
! AGATTGGCATCACACTGATT+CGG + chr8.2:56620096-56620115 MS.gene016336:CDS 40.0%
!! ACACTGATTCGGTTAAACAC+TGG + chr8.2:56620107-56620126 MS.gene016336:CDS 40.0%
!! ATTGATAATGGTGATGGCAG+TGG + chr8.2:56620552-56620571 MS.gene016336:CDS 40.0%
AACAAGTCCATCCAGCCATT+TGG - chr8.2:56620630-56620649 None:intergenic 45.0%
ATATTGACCCTCCAAATGGC+TGG + chr8.2:56620616-56620635 MS.gene016336:CDS 45.0%
GAGGATATTGACCCTCCAAA+TGG + chr8.2:56620612-56620631 MS.gene016336:CDS 45.0%
! AATGGCTGGATGGACTTGTT+AGG + chr8.2:56620630-56620649 MS.gene016336:CDS 45.0%
! CATGGTGCCAAACTTCATGA+AGG + chr8.2:56620070-56620089 MS.gene016336:CDS 45.0%
! GGAGGGCATGTTAGTTGAAT+TGG - chr8.2:56620158-56620177 None:intergenic 45.0%
AAGTCCATCCAGCCATTTGG+AGG - chr8.2:56620627-56620646 None:intergenic 50.0%
AGTCCATCCAGCCATTTGGA+GGG - chr8.2:56620626-56620645 None:intergenic 50.0%
ATGGCAGTGGAGCTGCAAAA+TGG + chr8.2:56620565-56620584 MS.gene016336:CDS 50.0%
CTCACTTTCAAGCTCTTCGG+TGG + chr8.2:56620483-56620502 MS.gene016336:CDS 50.0%
GCCCTTCACATCACAACAGA+TGG + chr8.2:56620408-56620427 MS.gene016336:intron 50.0%
TGACCCTCCAAATGGCTGGA+TGG + chr8.2:56620620-56620639 MS.gene016336:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 56619956 56620710 56619956 ID=MS.gene016336
chr8.2 mRNA 56619956 56620710 56619956 ID=MS.gene016336.t1;Parent=MS.gene016336
chr8.2 exon 56619956 56620142 56619956 ID=MS.gene016336.t1.exon1;Parent=MS.gene016336.t1
chr8.2 CDS 56619956 56620142 56619956 ID=cds.MS.gene016336.t1;Parent=MS.gene016336.t1
chr8.2 exon 56620427 56620710 56620427 ID=MS.gene016336.t1.exon2;Parent=MS.gene016336.t1
chr8.2 CDS 56620427 56620710 56620427 ID=cds.MS.gene016336.t1;Parent=MS.gene016336.t1
Gene Sequence

>MS.gene016336

ATGGTGCTCGCCGGTAAACTTAGTACTGAACTTGGGATCAAAACACCCGTCGACAAGTTCTTCAAACTATTTGCATCAGAACTTCACGAAGTGCAAAACATTAGCGAAAGAGTTCATGGTGCCAAACTTCATGAAGGTGAAGATTGGCATCACACTGATTCGGTTAAACACTGGACTTATGTCATAGGTAATTATGTTTCCAATTCAACTAACATGCCCTCCATATCATCTTGTTTATTTATATATTGATCCTTAATTCAATTAATAAGAGCATAGGGACCATACTTTATATGAATATTATGTCTTAAAGATGATAAAGATAAAGTTTTTCAGCTGTGATATTTAGACAAAAAAAAAGACATGTTTTAATTGATTAGTTATTTTAAAAAAAAATGTGACCATATATTTTTCATAACTCTATATACACTGTTTTAATTTAATTGGTATTAATTGCCCTTCACATCACAACAGATGGTAAGGTACACACATGTCATGAGAGTATCGAAGTTGATGAACAGAACAAAAAACTCACTTTCAAGCTCTTCGGTGGAGACATTGATGAGCACTATAAGGTCTTTAATGTGATCATTGAAGTAATTGATAATGGTGATGGCAGTGGAGCTGCAAAATGGACCGTTGAATATGAGAAGATCAATGAGGATATTGACCCTCCAAATGGCTGGATGGACTTGTTAGGCAAAGTCACTCGAGAAGTTGATGCTCATCTTGTCAAAGGCGCAAACATAGCTCTATAA
Protein sequence

>MS.gene016336.t1

MVLAGKLSTELGIKTPVDKFFKLFASELHEVQNISERVHGAKLHEGEDWHHTDSVKHWTYVIDGKVHTCHESIEVDEQNKKLTFKLFGGDIDEHYKVFNVIIEVIDNGDGSGAAKWTVEYEKINEDIDPPNGWMDLLGKVTREVDAHLVKGANIAL