AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene034789


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034789.t1 MTR_1g057270 94.355 248 13 1 1 247 1 248 3.91e-146 408
MS.gene034789.t1 MTR_4g119428 62.602 246 88 2 1 245 2 244 5.68e-109 314
MS.gene034789.t1 MTR_7g105870 52.521 238 97 3 4 240 5 227 1.10e-62 196
MS.gene034789.t1 MTR_7g106000 39.516 248 121 6 1 241 1 226 1.28e-57 183
MS.gene034789.t1 MTR_1g057400 39.216 204 114 4 43 241 11 209 1.53e-46 154
MS.gene034789.t1 MTR_7g106010 36.214 243 130 6 5 241 4 227 1.26e-45 152
MS.gene034789.t1 MTR_7g106030 38.865 229 117 5 5 228 7 217 1.70e-44 149
MS.gene034789.t1 MTR_7g105970 39.167 240 120 5 5 240 8 225 4.98e-43 145
MS.gene034789.t1 MTR_6g071410 40.361 166 92 5 61 220 15 179 1.08e-31 116
MS.gene034789.t1 MTR_6g070890 40.361 166 92 5 61 220 15 179 1.08e-31 116
MS.gene034789.t1 MTR_6g471090 40.588 170 93 6 57 220 10 177 1.55e-30 113
MS.gene034789.t1 MTR_6g070900 35.152 165 102 3 61 220 15 179 4.88e-28 106
MS.gene034789.t1 MTR_6g071400 35.152 165 102 3 61 220 15 179 4.88e-28 106
MS.gene034789.t1 MTR_1g057290 37.952 166 98 3 81 241 52 217 3.29e-26 102
MS.gene034789.t1 MTR_6g471080 42.105 171 89 7 57 220 7 174 6.00e-26 101
MS.gene034789.t1 MTR_2g011350 30.070 143 99 1 73 215 40 181 5.58e-21 87.8
MS.gene034789.t1 MTR_4g094322 55.714 70 29 1 180 247 2 71 1.23e-20 83.2
MS.gene034789.t1 MTR_2g048270 38.356 146 84 5 95 237 2 144 7.28e-19 81.3
MS.gene034789.t1 MTR_3g063310 31.250 176 104 5 75 245 87 250 3.47e-17 78.6
MS.gene034789.t1 MTR_1g057230 50.769 65 32 0 181 245 30 94 2.33e-16 72.4
MS.gene034789.t1 MTR_3g078800 24.845 161 118 3 60 218 73 232 3.17e-13 67.8
MS.gene034789.t1 MTR_2g086790 28.777 139 79 4 56 175 19 156 4.46e-13 66.6
MS.gene034789.t1 MTR_7g118270 27.273 165 113 4 62 221 48 210 5.96e-13 66.6
MS.gene034789.t1 MTR_5g076170 28.205 156 109 3 72 226 96 249 6.18e-13 67.0
MS.gene034789.t1 MTR_5g087760 24.229 227 142 7 15 231 41 247 1.59e-12 65.9
MS.gene034789.t1 MTR_2g100060 22.222 180 136 2 70 246 78 256 2.36e-12 65.5
MS.gene034789.t1 MTR_1g105570 22.467 227 151 6 1 218 1 211 2.99e-12 64.7
MS.gene034789.t1 MTR_7g106050 27.119 177 121 4 55 229 23 193 4.47e-12 63.9
MS.gene034789.t1 MTR_3g078820 26.207 145 104 3 75 218 44 186 1.16e-11 62.8
MS.gene034789.t1 MTR_1g057300 40.000 100 53 3 43 142 12 104 1.65e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034789.t1 AT3G11650 46.218 238 118 6 6 240 8 238 1.58e-70 216
MS.gene034789.t1 AT2G35460 39.004 241 139 4 3 240 2 237 4.44e-60 189
MS.gene034789.t1 AT2G35980 43.033 244 119 7 1 241 1 227 5.06e-60 189
MS.gene034789.t1 AT5G06320 43.460 237 124 4 6 241 4 231 1.16e-55 178
MS.gene034789.t1 AT1G32270 36.184 152 97 0 78 229 1 152 6.81e-26 103
MS.gene034789.t1 AT1G32270 36.184 152 97 0 78 229 1 152 2.12e-25 103
MS.gene034789.t1 AT3G52470 28.324 173 122 2 57 228 19 190 8.84e-18 79.3
MS.gene034789.t1 AT5G22870 27.778 180 121 4 55 226 24 202 3.47e-17 77.8
MS.gene034789.t1 AT4G09590 28.750 160 112 2 57 215 22 180 1.24e-16 76.3
MS.gene034789.t1 AT4G05220 26.347 167 120 3 53 218 42 206 1.74e-16 76.3
MS.gene034789.t1 AT4G01410 30.488 164 106 3 57 216 44 203 3.61e-16 75.5
MS.gene034789.t1 AT2G35970 28.750 160 112 2 57 215 22 180 8.53e-15 71.2
MS.gene034789.t1 AT1G61760 24.848 165 119 4 56 218 43 204 3.88e-14 69.7
MS.gene034789.t1 AT5G53730 27.333 150 105 3 68 214 38 186 1.72e-13 67.8
MS.gene034789.t1 AT3G44220 25.000 168 124 2 57 223 20 186 4.75e-13 66.6
MS.gene034789.t1 AT2G27080 24.444 180 124 4 43 218 68 239 7.48e-13 66.6
MS.gene034789.t1 AT2G27080 24.444 180 124 4 43 218 68 239 7.48e-13 66.6
MS.gene034789.t1 AT3G11660 28.485 165 111 4 56 214 14 177 1.09e-12 65.5
MS.gene034789.t1 AT5G36970 24.675 154 107 4 69 218 78 226 4.46e-12 64.3
MS.gene034789.t1 AT1G65690 24.684 158 116 3 58 214 71 226 7.82e-12 63.9
MS.gene034789.t1 AT2G35960 30.973 113 70 2 73 177 37 149 7.84e-12 63.2

Find 62 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAAAATTGATGGGGTTTA+TGG 0.105048 1.1:+44858472 MS.gene034789:CDS
ATCACATAATGGTTCTTCTT+TGG 0.207292 1.1:+44858597 MS.gene034789:CDS
GGGATTACAAATGGAGATTA+TGG 0.235819 1.1:+44858650 MS.gene034789:CDS
TGATCCTCGGGTTCCTCTTC+TGG 0.237356 1.1:+44858140 MS.gene034789:CDS
TCACATAATGGTTCTTCTTT+GGG 0.268146 1.1:+44858598 MS.gene034789:CDS
TAAATACCAACTCTTCGATT+AGG 0.295908 1.1:-44858283 None:intergenic
TTGAAATGAGGTTTAAATAT+TGG 0.313606 1.1:+44858515 MS.gene034789:CDS
AAATACCAACTCTTCGATTA+GGG 0.324696 1.1:-44858282 None:intergenic
ACTTGTTTATCTTTGAAAAC+AGG 0.325553 1.1:-44858409 None:intergenic
AGCGCCGTTGAGTTGATTTC+CGG 0.331355 1.1:-44857939 None:intergenic
GGCTTCGGTTGCGGTGGTGG+AGG 0.353148 1.1:-44857980 None:intergenic
CGAGGCTTCGGTTGCGGTGG+TGG 0.355024 1.1:-44857983 None:intergenic
CATTGAAATTGAATTGCGTT+AGG 0.363749 1.1:-44858210 None:intergenic
CAGTTTGCGAATCAAACCTT+AGG 0.372572 1.1:+44858346 MS.gene034789:CDS
CAACTCAACGGCGCTTATTA+CGG 0.374153 1.1:+44857947 MS.gene034789:CDS
TTTGATAAGGAGAAAATTGA+TGG 0.386908 1.1:+44858463 MS.gene034789:CDS
TGTCTCTGCGGCTGCGTTCG+AGG 0.389789 1.1:+44858043 MS.gene034789:CDS
GTCATCATCCTCGTGATCCT+CGG 0.401598 1.1:+44858127 MS.gene034789:CDS
TGCGGTGGTGGAGGGATCGA+TGG 0.406509 1.1:-44857971 None:intergenic
TTGAAGCTACTGAATGTGAT+TGG 0.408421 1.1:+44858629 MS.gene034789:CDS
GTGCCTTTGAAATCACATAA+TGG 0.416264 1.1:+44858586 MS.gene034789:CDS
TTGCGGTGTCGACGAGGCTT+CGG 0.436719 1.1:-44857995 None:intergenic
TAAGGTTCGTTGTGATTTGA+AGG 0.444006 1.1:+44858564 MS.gene034789:CDS
ATAAAACGCCATCGTTTCAA+TGG 0.453733 1.1:-44858314 None:intergenic
ATTGAAATTGAATTGCGTTA+GGG 0.468485 1.1:-44858209 None:intergenic
AATGGTTCTTCTTTGGGGCA+TGG 0.469938 1.1:+44858604 MS.gene034789:CDS
CGTTAGGGTTGCATCGTTGA+CGG 0.471907 1.1:-44858194 None:intergenic
ACGGTGAATTTGACGACGTT+AGG 0.476132 1.1:-44858175 None:intergenic
GCTTCGGTTGCGGTGGTGGA+GGG 0.481685 1.1:-44857979 None:intergenic
TTTGAATGAAGATCAGACTA+AGG 0.481981 1.1:+44858438 MS.gene034789:CDS
TTCAAATCACAACGAACCTT+AGG 0.482759 1.1:-44858562 None:intergenic
TGAAGCTACTGAATGTGATT+GGG 0.483584 1.1:+44858630 MS.gene034789:CDS
CACCGCAACGACGACGGTTG+CGG 0.485935 1.1:+44858010 MS.gene034789:CDS
AATGTGATTGGGATTACAAA+TGG 0.489479 1.1:+44858641 MS.gene034789:CDS
CACATAATGGTTCTTCTTTG+GGG 0.491410 1.1:+44858599 MS.gene034789:CDS
TGTCGACGAGGCTTCGGTTG+CGG 0.501015 1.1:-44857989 None:intergenic
TCAGACTAAGGAGTTTGATA+AGG 0.501704 1.1:+44858450 MS.gene034789:CDS
TCATCATCCTCGTGATCCTC+GGG 0.502379 1.1:+44858128 MS.gene034789:CDS
GCGGTGGTGGAGGGATCGAT+GGG 0.511767 1.1:-44857970 None:intergenic
CTTGTTTATCTTTGAAAACA+GGG 0.515714 1.1:-44858408 None:intergenic
TTAAGATGGTGATTGAAATG+AGG 0.522786 1.1:+44858503 MS.gene034789:CDS
GATTGGACATGCGAAACCTA+AGG 0.537152 1.1:+44858546 MS.gene034789:CDS
TTGATAAGGAGAAAATTGAT+GGG 0.540563 1.1:+44858464 MS.gene034789:CDS
AGTTTGCGAATCAAACCTTA+GGG 0.549610 1.1:+44858347 MS.gene034789:CDS
CGTAACCCTAATCGAAGAGT+TGG 0.550944 1.1:+44858277 MS.gene034789:CDS
GGCTGCGTTCGAGGCTGTTG+CGG 0.552748 1.1:+44858052 MS.gene034789:CDS
GAACCATTATGTGATTTCAA+AGG 0.571830 1.1:-44858589 None:intergenic
TGCCGCAACCGTCGTCGTTG+CGG 0.575842 1.1:-44858012 None:intergenic
CGACGAGGCTTCGGTTGCGG+TGG 0.601168 1.1:-44857986 None:intergenic
CTATGACACCATTGAAACGA+TGG 0.601443 1.1:+44858306 MS.gene034789:CDS
GAGATCGTAGTGAAGTGTGT+TGG 0.609814 1.1:-44858236 None:intergenic
ATGCTGAAAGAATCTCCCTA+AGG 0.610928 1.1:-44858362 None:intergenic
CGTCGACACCGCAACGACGA+CGG 0.610999 1.1:+44858004 MS.gene034789:CDS
TGATAAGGAGAAAATTGATG+GGG 0.622850 1.1:+44858465 MS.gene034789:CDS
GTCGAACAATGAGCCAGAAG+AGG 0.628717 1.1:-44858153 None:intergenic
CGATCTCGCTCTTAACGTCA+CGG 0.640093 1.1:+44858252 MS.gene034789:CDS
TGAGCCAGAAGAGGAACCCG+AGG 0.651046 1.1:-44858144 None:intergenic
AGAGGAACCCGAGGATCACG+AGG 0.656504 1.1:-44858135 None:intergenic
GGCATCTGCAGCTGTCTCTG+CGG 0.663821 1.1:+44858031 MS.gene034789:CDS
TCGTCGTTGCGGTGTCGACG+AGG 0.664976 1.1:-44858001 None:intergenic
CACGAGGATGATGACGATTG+TGG 0.692820 1.1:-44858119 None:intergenic
ATGGCCGGAAATCAACTCAA+CGG 0.693203 1.1:+44857935 MS.gene034789:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATATTGGTTTTTTAAGAT+TGG + chr1.1:44858529-44858548 MS.gene034789:CDS 15.0%
!! TTGAAATGAGGTTTAAATAT+TGG + chr1.1:44858515-44858534 MS.gene034789:CDS 20.0%
!!! TTATGGAATTGATTTTAAGA+TGG + chr1.1:44858489-44858508 MS.gene034789:CDS 20.0%
! ATTGAAATTGAATTGCGTTA+GGG - chr1.1:44858212-44858231 None:intergenic 25.0%
! TTGATAAGGAGAAAATTGAT+GGG + chr1.1:44858464-44858483 MS.gene034789:CDS 25.0%
! TTTGATAAGGAGAAAATTGA+TGG + chr1.1:44858463-44858482 MS.gene034789:CDS 25.0%
!! ACTTGTTTATCTTTGAAAAC+AGG - chr1.1:44858412-44858431 None:intergenic 25.0%
!! CTTGTTTATCTTTGAAAACA+GGG - chr1.1:44858411-44858430 None:intergenic 25.0%
AAATACCAACTCTTCGATTA+GGG - chr1.1:44858285-44858304 None:intergenic 30.0%
AATGTGATTGGGATTACAAA+TGG + chr1.1:44858641-44858660 MS.gene034789:CDS 30.0%
ATCACATAATGGTTCTTCTT+TGG + chr1.1:44858597-44858616 MS.gene034789:CDS 30.0%
CATTGAAATTGAATTGCGTT+AGG - chr1.1:44858213-44858232 None:intergenic 30.0%
GAACCATTATGTGATTTCAA+AGG - chr1.1:44858592-44858611 None:intergenic 30.0%
TAAATACCAACTCTTCGATT+AGG - chr1.1:44858286-44858305 None:intergenic 30.0%
TCACATAATGGTTCTTCTTT+GGG + chr1.1:44858598-44858617 MS.gene034789:CDS 30.0%
TGATAAGGAGAAAATTGATG+GGG + chr1.1:44858465-44858484 MS.gene034789:CDS 30.0%
TTAAGATGGTGATTGAAATG+AGG + chr1.1:44858503-44858522 MS.gene034789:CDS 30.0%
TTTGAATGAAGATCAGACTA+AGG + chr1.1:44858438-44858457 MS.gene034789:CDS 30.0%
AGTTTGCGAATCAAACCTTA+GGG + chr1.1:44858347-44858366 MS.gene034789:CDS 35.0%
ATAAAACGCCATCGTTTCAA+TGG - chr1.1:44858317-44858336 None:intergenic 35.0%
CACATAATGGTTCTTCTTTG+GGG + chr1.1:44858599-44858618 MS.gene034789:CDS 35.0%
GAGAAAATTGATGGGGTTTA+TGG + chr1.1:44858472-44858491 MS.gene034789:CDS 35.0%
GGGATTACAAATGGAGATTA+TGG + chr1.1:44858650-44858669 MS.gene034789:CDS 35.0%
TAAGGTTCGTTGTGATTTGA+AGG + chr1.1:44858564-44858583 MS.gene034789:CDS 35.0%
TCAGACTAAGGAGTTTGATA+AGG + chr1.1:44858450-44858469 MS.gene034789:CDS 35.0%
TGAAGCTACTGAATGTGATT+GGG + chr1.1:44858630-44858649 MS.gene034789:CDS 35.0%
TTCAAATCACAACGAACCTT+AGG - chr1.1:44858565-44858584 None:intergenic 35.0%
TTGAAGCTACTGAATGTGAT+TGG + chr1.1:44858629-44858648 MS.gene034789:CDS 35.0%
! TGAAACGATGGCGTTTTATA+AGG + chr1.1:44858318-44858337 MS.gene034789:CDS 35.0%
! TGCATTTTCAACTGCATCTT+AGG + chr1.1:44858076-44858095 MS.gene034789:CDS 35.0%
!! GTGCCTTTGAAATCACATAA+TGG + chr1.1:44858586-44858605 MS.gene034789:CDS 35.0%
ATGCTGAAAGAATCTCCCTA+AGG - chr1.1:44858365-44858384 None:intergenic 40.0%
CAGTTTGCGAATCAAACCTT+AGG + chr1.1:44858346-44858365 MS.gene034789:CDS 40.0%
CTATGACACCATTGAAACGA+TGG + chr1.1:44858306-44858325 MS.gene034789:CDS 40.0%
ACGGTGAATTTGACGACGTT+AGG - chr1.1:44858178-44858197 None:intergenic 45.0%
ATGGCCGGAAATCAACTCAA+CGG + chr1.1:44857935-44857954 MS.gene034789:CDS 45.0%
CAACTCAACGGCGCTTATTA+CGG + chr1.1:44857947-44857966 MS.gene034789:CDS 45.0%
CGTAACCCTAATCGAAGAGT+TGG + chr1.1:44858277-44858296 MS.gene034789:CDS 45.0%
GAGATCGTAGTGAAGTGTGT+TGG - chr1.1:44858239-44858258 None:intergenic 45.0%
GATTGGACATGCGAAACCTA+AGG + chr1.1:44858546-44858565 MS.gene034789:CDS 45.0%
!! AATGGTTCTTCTTTGGGGCA+TGG + chr1.1:44858604-44858623 MS.gene034789:CDS 45.0%
CGATCTCGCTCTTAACGTCA+CGG + chr1.1:44858252-44858271 MS.gene034789:CDS 50.0%
CGTTAGGGTTGCATCGTTGA+CGG - chr1.1:44858197-44858216 None:intergenic 50.0%
GTCATCATCCTCGTGATCCT+CGG + chr1.1:44858127-44858146 MS.gene034789:CDS 50.0%
GTCGAACAATGAGCCAGAAG+AGG - chr1.1:44858156-44858175 None:intergenic 50.0%
TCATCATCCTCGTGATCCTC+GGG + chr1.1:44858128-44858147 MS.gene034789:CDS 50.0%
! CACGAGGATGATGACGATTG+TGG - chr1.1:44858122-44858141 None:intergenic 50.0%
!! AGCGCCGTTGAGTTGATTTC+CGG - chr1.1:44857942-44857961 None:intergenic 50.0%
TGATCCTCGGGTTCCTCTTC+TGG + chr1.1:44858140-44858159 MS.gene034789:CDS 55.0%
AGAGGAACCCGAGGATCACG+AGG - chr1.1:44858138-44858157 None:intergenic 60.0%
GGCATCTGCAGCTGTCTCTG+CGG + chr1.1:44858031-44858050 MS.gene034789:CDS 60.0%
TGAGCCAGAAGAGGAACCCG+AGG - chr1.1:44858147-44858166 None:intergenic 60.0%
TGTCGACGAGGCTTCGGTTG+CGG - chr1.1:44857992-44858011 None:intergenic 60.0%
!! TTGCGGTGTCGACGAGGCTT+CGG - chr1.1:44857998-44858017 None:intergenic 60.0%
CACCGCAACGACGACGGTTG+CGG + chr1.1:44858010-44858029 MS.gene034789:CDS 65.0%
CGTCGACACCGCAACGACGA+CGG + chr1.1:44858004-44858023 MS.gene034789:CDS 65.0%
GGCTGCGTTCGAGGCTGTTG+CGG + chr1.1:44858052-44858071 MS.gene034789:CDS 65.0%
TGCCGCAACCGTCGTCGTTG+CGG - chr1.1:44858015-44858034 None:intergenic 65.0%
TGTCTCTGCGGCTGCGTTCG+AGG + chr1.1:44858043-44858062 MS.gene034789:CDS 65.0%
!! GCGGTGGTGGAGGGATCGAT+GGG - chr1.1:44857973-44857992 None:intergenic 65.0%
!! GCTTCGGTTGCGGTGGTGGA+GGG - chr1.1:44857982-44858001 None:intergenic 65.0%
!! TCGTCGTTGCGGTGTCGACG+AGG - chr1.1:44858004-44858023 None:intergenic 65.0%
!! TGCGGTGGTGGAGGGATCGA+TGG - chr1.1:44857974-44857993 None:intergenic 65.0%
CGACGAGGCTTCGGTTGCGG+TGG - chr1.1:44857989-44858008 None:intergenic 70.0%
CGAGGCTTCGGTTGCGGTGG+TGG - chr1.1:44857986-44858005 None:intergenic 70.0%
! GGCTTCGGTTGCGGTGGTGG+AGG - chr1.1:44857983-44858002 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 44857935 44858678 44857935 ID=MS.gene034789
chr1.1 mRNA 44857935 44858678 44857935 ID=MS.gene034789.t1;Parent=MS.gene034789
chr1.1 exon 44857935 44858678 44857935 ID=MS.gene034789.t1.exon1;Parent=MS.gene034789.t1
chr1.1 CDS 44857935 44858678 44857935 ID=cds.MS.gene034789.t1;Parent=MS.gene034789.t1
Gene Sequence

>MS.gene034789

ATGGCCGGAAATCAACTCAACGGCGCTTATTACGGCCCATCGATCCCTCCACCACCGCAACCGAAGCCTCGTCGACACCGCAACGACGACGGTTGCGGCATCTGCAGCTGTCTCTGCGGCTGCGTTCGAGGCTGTTGCGGCTGCATTTTCAACTGCATCTTAGGCTTAATCTGCAAAATCATCACCACAATCGTCATCATCCTCGTGATCCTCGGGTTCCTCTTCTGGCTCATTGTTCGACCTAACGTCGTCAAATTCACCGTCAACGATGCAACCCTAACGCAATTCAATTTCAATGAAACCAACACACTTCACTACGATCTCGCTCTTAACGTCACGGTTCGTAACCCTAATCGAAGAGTTGGTATTTACTATGACACCATTGAAACGATGGCGTTTTATAAGGATGTTCAGTTTGCGAATCAAACCTTAGGGAGATTCTTTCAGCATCATAAGAATACGAGTTTTTTGAACCCTGTTTTCAAAGATAAACAAGTTGTTGTTTTGAATGAAGATCAGACTAAGGAGTTTGATAAGGAGAAAATTGATGGGGTTTATGGAATTGATTTTAAGATGGTGATTGAAATGAGGTTTAAATATTGGTTTTTTAAGATTGGACATGCGAAACCTAAGGTTCGTTGTGATTTGAAGGTGCCTTTGAAATCACATAATGGTTCTTCTTTGGGGCATGGTTTTGAAGCTACTGAATGTGATTGGGATTACAAATGGAGATTATGGCATTAG

Protein sequence

>MS.gene034789.t1

MAGNQLNGAYYGPSIPPPPQPKPRRHRNDDGCGICSCLCGCVRGCCGCIFNCILGLICKIITTIVIILVILGFLFWLIVRPNVVKFTVNDATLTQFNFNETNTLHYDLALNVTVRNPNRRVGIYYDTIETMAFYKDVQFANQTLGRFFQHHKNTSFLNPVFKDKQVVVLNEDQTKEFDKEKIDGVYGIDFKMVIEMRFKYWFFKIGHAKPKVRCDLKVPLKSHNGSSLGHGFEATECDWDYKWRLWH