AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48825

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48825.t1 MTR_4g032620 75.217 230 57 0 1 230 1 230 4.34e-129 364
MS.gene48825.t1 MTR_8g036130 61.382 246 79 3 1 230 1 246 7.54e-96 280
MS.gene48825.t1 MTR_4g031910 52.743 237 96 2 1 230 1 228 1.42e-74 226
MS.gene48825.t1 MTR_4g032290 53.498 243 87 5 1 230 1 230 6.97e-71 216
MS.gene48825.t1 MTR_3g065100 50.417 240 105 5 1 228 1 238 1.21e-64 201
MS.gene48825.t1 MTR_3g466980 44.068 236 108 7 1 227 1 221 2.76e-57 181
MS.gene48825.t1 MTR_4g032260 63.057 157 58 0 1 157 1 157 3.62e-57 179
MS.gene48825.t1 MTR_2g035610 70.248 121 36 0 1 121 1 121 5.33e-50 159
MS.gene48825.t1 MTR_3g466830 44.785 163 82 3 3 160 2 161 6.03e-44 145
MS.gene48825.t1 MTR_5g047580 44.231 156 85 2 1 156 1 154 1.24e-42 142
MS.gene48825.t1 MTR_4g063790 40.909 154 91 0 1 154 1 154 5.43e-38 130
MS.gene48825.t1 MTR_3g466890 42.105 152 87 1 3 154 2 152 2.99e-37 128
MS.gene48825.t1 MTR_7g011950 43.590 156 86 2 1 156 1 154 4.07e-37 127
MS.gene48825.t1 MTR_1g090783 41.558 154 88 2 3 156 2 153 3.88e-36 125
MS.gene48825.t1 MTR_1g090697 38.462 156 94 2 1 156 1 154 1.40e-35 124
MS.gene48825.t1 MTR_4g028800 81.944 72 11 1 1 72 1 70 2.33e-35 120
MS.gene48825.t1 MTR_3g031100 37.576 165 103 0 1 165 1 165 1.04e-34 124
MS.gene48825.t1 MTR_3g467080 36.538 156 99 0 1 156 1 156 1.08e-34 121
MS.gene48825.t1 MTR_1g077390 38.462 156 94 2 1 156 1 154 2.59e-34 120
MS.gene48825.t1 MTR_4g028720 41.667 156 89 2 1 156 1 154 3.37e-34 120
MS.gene48825.t1 MTR_1g084950 42.308 156 88 2 1 156 1 154 8.33e-34 119
MS.gene48825.t1 MTR_1g090710 35.484 155 99 1 1 155 1 154 1.22e-33 119
MS.gene48825.t1 MTR_5g075380 38.312 154 94 1 1 154 1 153 8.56e-32 114
MS.gene48825.t1 MTR_2g016210 37.580 157 98 0 1 157 1 157 1.46e-31 116
MS.gene48825.t1 MTR_7g055800 52.101 119 29 2 1 119 1 91 6.59e-31 109
MS.gene48825.t1 MTR_3g031240 32.051 156 106 0 1 156 1 156 1.08e-30 112
MS.gene48825.t1 MTR_1g077320 37.821 156 95 2 1 156 1 154 4.85e-30 109
MS.gene48825.t1 MTR_1g077300 39.744 156 90 2 1 156 1 152 2.29e-27 102
MS.gene48825.t1 MTR_7g055790 53.153 111 34 1 1 111 59 151 1.74e-26 100
MS.gene48825.t1 MTR_7g055940 51.429 105 23 2 1 105 1 77 4.23e-26 97.1
MS.gene48825.t1 MTR_2g035580 35.256 156 100 1 1 156 1 155 8.94e-26 98.6
MS.gene48825.t1 MTR_5g047560 41.270 126 57 2 1 126 1 109 9.51e-26 98.2
MS.gene48825.t1 MTR_3g466930 35.772 123 78 1 32 154 2 123 3.63e-25 96.3
MS.gene48825.t1 MTR_3g466900 36.585 123 77 1 32 154 2 123 6.00e-25 95.9
MS.gene48825.t1 MTR_3g465410 35.714 126 81 0 29 154 1 126 2.87e-24 94.4
MS.gene48825.t1 MTR_4g019670 34.337 166 92 4 1 155 1 160 5.38e-19 85.5
MS.gene48825.t1 MTR_7g106510 33.735 166 93 4 1 155 1 160 5.39e-19 85.5
MS.gene48825.t1 MTR_3g093900 29.870 154 105 2 3 155 6 157 3.72e-18 83.2
MS.gene48825.t1 MTR_4g032270 41.667 96 55 1 135 230 36 130 3.21e-16 72.8
MS.gene48825.t1 MTR_2g035590 46.237 93 49 1 74 166 1 92 1.52e-14 67.4
MS.gene48825.t1 MTR_6g018920 26.106 226 135 10 1 211 1 209 8.09e-13 67.0
MS.gene48825.t1 MTR_1g114730 33.333 102 57 4 1 94 1 99 5.57e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48825.t1 AT5G48670 52.903 155 72 1 1 155 1 154 2.32e-46 156
MS.gene48825.t1 AT1G65300 41.243 177 97 2 3 173 2 177 7.06e-39 136
MS.gene48825.t1 AT5G26630 40.284 211 124 2 1 210 1 210 1.25e-37 131
MS.gene48825.t1 AT1G65330 39.247 186 108 2 3 184 2 186 2.78e-36 129
MS.gene48825.t1 AT3G05860 42.000 150 86 1 1 150 1 149 6.11e-36 126
MS.gene48825.t1 AT5G27960 42.484 153 87 1 4 156 2 153 7.02e-36 129
MS.gene48825.t1 AT5G26650 43.137 153 86 1 4 156 2 153 7.85e-36 130
MS.gene48825.t1 AT3G05860 39.752 161 96 1 1 161 1 160 3.46e-35 125
MS.gene48825.t1 AT3G05860 42.000 150 86 1 1 150 1 149 3.94e-35 125
MS.gene48825.t1 AT5G27810 50.538 93 46 0 29 121 1 93 5.71e-30 108
MS.gene48825.t1 AT1G31630 34.857 175 102 4 3 173 2 168 2.74e-29 112
MS.gene48825.t1 AT5G26580 38.710 155 80 2 1 155 1 140 3.68e-28 109
MS.gene48825.t1 AT1G31640 33.333 180 111 4 3 175 2 179 8.63e-27 107
MS.gene48825.t1 AT2G28700 30.052 193 125 3 1 186 1 190 3.52e-24 98.6
MS.gene48825.t1 AT5G06500 38.129 139 71 4 1 135 1 128 4.14e-21 88.6
MS.gene48825.t1 AT1G22590 36.190 105 67 0 1 105 1 105 9.07e-21 85.9
MS.gene48825.t1 AT2G40210 41.176 119 70 0 1 119 1 119 3.63e-19 85.5
MS.gene48825.t1 AT5G55690 39.216 102 49 3 1 95 1 96 4.09e-13 67.4
MS.gene48825.t1 AT5G55690 39.216 102 49 3 1 95 1 96 4.09e-13 67.4
MS.gene48825.t1 AT5G58890 42.857 98 46 4 1 90 1 96 1.71e-12 65.9

Find 51 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAACAATGACTCGGAAAA+AGG 0.208892 4.4:+73999340 None:intergenic
TTGTGTCTTCAGTTTCTCTT+TGG 0.304045 4.4:-73999636 None:intergenic
GAAGCTTGTGCCATTGTCTA+TGG 0.334796 4.4:+73999470 MS.gene48825:CDS
ATTCATTCAAAGAAGTAGAT+TGG 0.368355 4.4:-74000026 None:intergenic
ATCTCCAGTTGAGGCTCATA+TGG 0.393582 4.4:-73999494 None:intergenic
GTGGGAGAAGAGCCAGAAAA+TGG 0.406526 4.4:+73999574 MS.gene48825:CDS
TTCATTCAAAGAAGTAGATT+GGG 0.410094 4.4:-74000025 None:intergenic
GGTGCCATTTGGAATTGAAT+TGG 0.421214 4.4:-73999836 None:intergenic
ATGAGCCTCAACTGGAGATC+TGG 0.421304 4.4:+73999498 MS.gene48825:CDS
TTTGTATCATATAAGTCTCT+TGG 0.443115 4.4:-73999601 None:intergenic
GAAGGACATTAGTAGAAGGT+TGG 0.444167 4.4:+73999787 MS.gene48825:CDS
TGGACCATATGAGCCTCAAC+TGG 0.450896 4.4:+73999490 MS.gene48825:CDS
AATTGAAGGACATTAGTAGA+AGG 0.455635 4.4:+73999783 MS.gene48825:CDS
TTGATTCAAAACATCTTTGT+TGG 0.470119 4.4:+73999747 MS.gene48825:CDS
ATGTCAATGGTGGTGCCATT+TGG 0.473417 4.4:-73999847 None:intergenic
GGAGATCTGGCCATCACCAC+GGG 0.478240 4.4:+73999511 MS.gene48825:CDS
ATTAGTAGAAGGTTGGAAGC+AGG 0.491391 4.4:+73999794 MS.gene48825:CDS
GCAGAAGGGTCTATTGAAGA+AGG 0.498190 4.4:+73999418 MS.gene48825:CDS
GGATTGATGATGAATGATAA+AGG 0.511410 4.4:+73999959 MS.gene48825:CDS
ACATCCAATTCAATTCCAAA+TGG 0.514429 4.4:+73999832 MS.gene48825:CDS
TAGGAACAATGGTGACATCA+TGG 0.530450 4.4:+73999919 MS.gene48825:CDS
TGATTGGTCATGGCTATGTT+GGG 0.530714 4.4:+73999891 MS.gene48825:CDS
ATGTTTCAATGTCTTTGTGA+AGG 0.533884 4.4:+73999695 MS.gene48825:CDS
CTAGGATCGACCTCGCCAAA+GGG 0.537658 4.4:-73999995 None:intergenic
AGTGCAGAATAATATCTCCT+TGG 0.537754 4.4:+73999724 MS.gene48825:CDS
ATGATTGGTCATGGCTATGT+TGG 0.538765 4.4:+73999890 MS.gene48825:CDS
ATGGCTATGTTGGGATGACT+AGG 0.544058 4.4:+73999900 MS.gene48825:CDS
AATTCAGAACAATGTCTAAG+TGG 0.549030 4.4:+73999555 MS.gene48825:CDS
GTATGGACTCCCCGTGGTGA+TGG 0.556504 4.4:-73999521 None:intergenic
TCTAGGATCGACCTCGCCAA+AGG 0.563277 4.4:-73999996 None:intergenic
AACCTACAATAAAAGGCAGA+AGG 0.564320 4.4:+73999403 MS.gene48825:CDS
TAGTAGAAGGTTGGAAGCAG+GGG 0.565783 4.4:+73999796 MS.gene48825:CDS
ATTCAGAACAATGTCTAAGT+GGG 0.572255 4.4:+73999556 MS.gene48825:CDS
AGAGACTTATATGATACAAA+GGG 0.576379 4.4:+73999604 MS.gene48825:CDS
TTAGTAGAAGGTTGGAAGCA+GGG 0.576545 4.4:+73999795 MS.gene48825:CDS
GGAGACGAGACAGTACCCTT+TGG 0.577776 4.4:+73999980 MS.gene48825:CDS
AAGAGACTTATATGATACAA+AGG 0.581969 4.4:+73999603 MS.gene48825:CDS
GGCACCACCATTGACATCCA+AGG 0.599236 4.4:+73999853 MS.gene48825:CDS
GATGGCCAGATCTCCAGTTG+AGG 0.607571 4.4:-73999503 None:intergenic
TCATCCTTGGATGTCAATGG+TGG 0.611981 4.4:-73999857 None:intergenic
TGGAGATCTGGCCATCACCA+CGG 0.614340 4.4:+73999510 MS.gene48825:CDS
ACCTACAATAAAAGGCAGAA+GGG 0.621576 4.4:+73999404 MS.gene48825:CDS
AAAATGGCAATGATTGGTCA+TGG 0.627083 4.4:+73999881 MS.gene48825:CDS
TATGAACTAAGTACTCTATG+TGG 0.633582 4.4:+73999443 MS.gene48825:CDS
CTCATATGGTCCATAGACAA+TGG 0.638902 4.4:-73999480 None:intergenic
TGACAACTATGAGAAAGAGA+TGG 0.664057 4.4:+73999664 MS.gene48825:CDS
AAGAGAAACTGAAGACACAA+AGG 0.673063 4.4:+73999639 MS.gene48825:CDS
CGAGACAGTACCCTTTGGCG+AGG 0.701727 4.4:+73999985 MS.gene48825:CDS
GTTGGGATGACTAGGAACAA+TGG 0.708539 4.4:+73999908 MS.gene48825:CDS
GAGATCTGGCCATCACCACG+GGG 0.761872 4.4:+73999512 MS.gene48825:CDS
AGCACTGTATGGACTCCCCG+TGG 0.777500 4.4:-73999527 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGAGACTTATATGATACAA+AGG + chr4.4:73999603-73999622 MS.gene48825:CDS 25.0%
! AGAGACTTATATGATACAAA+GGG + chr4.4:73999604-73999623 MS.gene48825:CDS 25.0%
! GAAAAACAACCTACAATAAA+AGG + chr4.4:73999396-73999415 MS.gene48825:CDS 25.0%
! TTGATTCAAAACATCTTTGT+TGG + chr4.4:73999747-73999766 MS.gene48825:CDS 25.0%
! TTTGTATCATATAAGTCTCT+TGG - chr4.4:73999604-73999623 None:intergenic 25.0%
!! ATGGAAAGTCAAATTTTCAT+GGG + chr4.4:73999938-73999957 MS.gene48825:CDS 25.0%
!! GTTGATTTACCAAAAATTGA+AGG + chr4.4:73999769-73999788 MS.gene48825:CDS 25.0%
!! TACTAATGTCCTTCAATTTT+TGG - chr4.4:73999781-73999800 None:intergenic 25.0%
AATTCAGAACAATGTCTAAG+TGG + chr4.4:73999555-73999574 MS.gene48825:CDS 30.0%
AATTGAAGGACATTAGTAGA+AGG + chr4.4:73999783-73999802 MS.gene48825:CDS 30.0%
ACATCCAATTCAATTCCAAA+TGG + chr4.4:73999832-73999851 MS.gene48825:CDS 30.0%
ATGTTTCAATGTCTTTGTGA+AGG + chr4.4:73999695-73999714 MS.gene48825:CDS 30.0%
ATTCAGAACAATGTCTAAGT+GGG + chr4.4:73999556-73999575 MS.gene48825:CDS 30.0%
GATGAAAAAATGGCAATGAT+TGG + chr4.4:73999875-73999894 MS.gene48825:CDS 30.0%
TATGAACTAAGTACTCTATG+TGG + chr4.4:73999443-73999462 MS.gene48825:CDS 30.0%
! CATGGAAAGTCAAATTTTCA+TGG + chr4.4:73999937-73999956 MS.gene48825:CDS 30.0%
!! AAGATGTTTTGAATCAACCA+AGG - chr4.4:73999744-73999763 None:intergenic 30.0%
!! GGATTGATGATGAATGATAA+AGG + chr4.4:73999959-73999978 MS.gene48825:CDS 30.0%
AACCTACAATAAAAGGCAGA+AGG + chr4.4:73999403-73999422 MS.gene48825:CDS 35.0%
AAGAGAAACTGAAGACACAA+AGG + chr4.4:73999639-73999658 MS.gene48825:CDS 35.0%
ACCTACAATAAAAGGCAGAA+GGG + chr4.4:73999404-73999423 MS.gene48825:CDS 35.0%
AGTAGATTGGGCAAAAATCT+AGG - chr4.4:74000016-74000035 None:intergenic 35.0%
AGTGCAGAATAATATCTCCT+TGG + chr4.4:73999724-73999743 MS.gene48825:CDS 35.0%
GACATCCAAGGATGAAAAAA+TGG + chr4.4:73999865-73999884 MS.gene48825:CDS 35.0%
TGACAACTATGAGAAAGAGA+TGG + chr4.4:73999664-73999683 MS.gene48825:CDS 35.0%
TTGTGTCTTCAGTTTCTCTT+TGG - chr4.4:73999639-73999658 None:intergenic 35.0%
! AAAATGGCAATGATTGGTCA+TGG + chr4.4:73999881-73999900 MS.gene48825:CDS 35.0%
! TTTTCATCCTTGGATGTCAA+TGG - chr4.4:73999863-73999882 None:intergenic 35.0%
!!! CATTGCCATTTTTTCATCCT+TGG - chr4.4:73999873-73999892 None:intergenic 35.0%
!!! TGAATTTTGAGAGCACTGTA+TGG - chr4.4:73999541-73999560 None:intergenic 35.0%
ATTAGTAGAAGGTTGGAAGC+AGG + chr4.4:73999794-73999813 MS.gene48825:CDS 40.0%
CTCATATGGTCCATAGACAA+TGG - chr4.4:73999483-73999502 None:intergenic 40.0%
GAAGGACATTAGTAGAAGGT+TGG + chr4.4:73999787-73999806 MS.gene48825:CDS 40.0%
TAGGAACAATGGTGACATCA+TGG + chr4.4:73999919-73999938 MS.gene48825:CDS 40.0%
TTAGTAGAAGGTTGGAAGCA+GGG + chr4.4:73999795-73999814 MS.gene48825:CDS 40.0%
! ACCCTTCTGCCTTTTATTGT+AGG - chr4.4:73999408-73999427 None:intergenic 40.0%
! ATGATTGGTCATGGCTATGT+TGG + chr4.4:73999890-73999909 MS.gene48825:CDS 40.0%
! TCTCTTGGTTCACCATTTTC+TGG - chr4.4:73999589-73999608 None:intergenic 40.0%
! TGATTGGTCATGGCTATGTT+GGG + chr4.4:73999891-73999910 MS.gene48825:CDS 40.0%
!! GGTGCCATTTGGAATTGAAT+TGG - chr4.4:73999839-73999858 None:intergenic 40.0%
ATCTCCAGTTGAGGCTCATA+TGG - chr4.4:73999497-73999516 None:intergenic 45.0%
ATGGCTATGTTGGGATGACT+AGG + chr4.4:73999900-73999919 MS.gene48825:CDS 45.0%
GCAGAAGGGTCTATTGAAGA+AGG + chr4.4:73999418-73999437 MS.gene48825:CDS 45.0%
GTTGGGATGACTAGGAACAA+TGG + chr4.4:73999908-73999927 MS.gene48825:CDS 45.0%
TAGTAGAAGGTTGGAAGCAG+GGG + chr4.4:73999796-73999815 MS.gene48825:CDS 45.0%
TCATCCTTGGATGTCAATGG+TGG - chr4.4:73999860-73999879 None:intergenic 45.0%
! GAAGCTTGTGCCATTGTCTA+TGG + chr4.4:73999470-73999489 MS.gene48825:CDS 45.0%
!! ATGTCAATGGTGGTGCCATT+TGG - chr4.4:73999850-73999869 None:intergenic 45.0%
ATGAGCCTCAACTGGAGATC+TGG + chr4.4:73999498-73999517 MS.gene48825:CDS 50.0%
GTGGGAGAAGAGCCAGAAAA+TGG + chr4.4:73999574-73999593 MS.gene48825:CDS 50.0%
TGGACCATATGAGCCTCAAC+TGG + chr4.4:73999490-73999509 MS.gene48825:CDS 50.0%
CTAGGATCGACCTCGCCAAA+GGG - chr4.4:73999998-74000017 None:intergenic 55.0%
GATGGCCAGATCTCCAGTTG+AGG - chr4.4:73999506-73999525 None:intergenic 55.0%
GGAGACGAGACAGTACCCTT+TGG + chr4.4:73999980-73999999 MS.gene48825:CDS 55.0%
GGCACCACCATTGACATCCA+AGG + chr4.4:73999853-73999872 MS.gene48825:CDS 55.0%
TGGAGATCTGGCCATCACCA+CGG + chr4.4:73999510-73999529 MS.gene48825:CDS 55.0%
! TCTAGGATCGACCTCGCCAA+AGG - chr4.4:73999999-74000018 None:intergenic 55.0%
AGCACTGTATGGACTCCCCG+TGG - chr4.4:73999530-73999549 None:intergenic 60.0%
CGAGACAGTACCCTTTGGCG+AGG + chr4.4:73999985-74000004 MS.gene48825:CDS 60.0%
GAGATCTGGCCATCACCACG+GGG + chr4.4:73999512-73999531 MS.gene48825:CDS 60.0%
GGAGATCTGGCCATCACCAC+GGG + chr4.4:73999511-73999530 MS.gene48825:CDS 60.0%
GTATGGACTCCCCGTGGTGA+TGG - chr4.4:73999524-73999543 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 73999347 74000042 73999347 ID=MS.gene48825
chr4.4 mRNA 73999347 74000042 73999347 ID=MS.gene48825.t1;Parent=MS.gene48825
chr4.4 exon 73999347 74000042 73999347 ID=MS.gene48825.t1.exon1;Parent=MS.gene48825.t1
chr4.4 CDS 73999347 74000042 73999347 ID=cds.MS.gene48825.t1;Parent=MS.gene48825.t1
Gene Sequence

>MS.gene48825

ATGACTCGGAAAAAGGTGAAACTTGCTTTCATTGTCAATGATGCTTCTAGAAAAACAACCTACAATAAAAGGCAGAAGGGTCTATTGAAGAAGGTTTATGAACTAAGTACTCTATGTGGAGTTGAAGCTTGTGCCATTGTCTATGGACCATATGAGCCTCAACTGGAGATCTGGCCATCACCACGGGGAGTCCATACAGTGCTCTCAAAATTCAGAACAATGTCTAAGTGGGAGAAGAGCCAGAAAATGGTGAACCAAGAGACTTATATGATACAAAGGGTTCTGAATGCCAAAGAGAAACTGAAGACACAAAGGCATGACAACTATGAGAAAGAGATGGTTATGCTCATGTTTCAATGTCTTTGTGAAGGCAAATTAGTGCAGAATAATATCTCCTTGGTTGATTCAAAACATCTTTGTTGGTTGATTTACCAAAAATTGAAGGACATTAGTAGAAGGTTGGAAGCAGGGGTCAGTAATAGTAAACATCCAATTCAATTCCAAATGGCACCACCATTGACATCCAAGGATGAAAAAATGGCAATGATTGGTCATGGCTATGTTGGGATGACTAGGAACAATGGTGACATCATGGAAAGTCAAATTTTCATGGGATTGATGATGAATGATAAAGGAGACGAGACAGTACCCTTTGGCGAGGTCGATCCTAGATTTTTGCCCAATCTACTTCTTTGA
Protein sequence

>MS.gene48825.t1

MTRKKVKLAFIVNDASRKTTYNKRQKGLLKKVYELSTLCGVEACAIVYGPYEPQLEIWPSPRGVHTVLSKFRTMSKWEKSQKMVNQETYMIQRVLNAKEKLKTQRHDNYEKEMVMLMFQCLCEGKLVQNNISLVDSKHLCWLIYQKLKDISRRLEAGVSNSKHPIQFQMAPPLTSKDEKMAMIGHGYVGMTRNNGDIMESQIFMGLMMNDKGDETVPFGEVDPRFLPNLLL