AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00333

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00333.t1 MTR_2g437260 96.078 204 8 0 22 225 190 393 1.36e-148 419
MS.gene00333.t1 MTR_2g437240 49.180 183 91 1 23 205 225 405 1.19e-59 193
MS.gene00333.t1 MTR_2g438020 50.273 183 89 2 23 205 264 444 1.40e-57 190
MS.gene00333.t1 MTR_2g437020 50.276 181 89 1 22 202 195 374 2.03e-56 184
MS.gene00333.t1 MTR_2g437090 50.633 158 78 0 45 202 5 162 2.93e-56 177
MS.gene00333.t1 MTR_2g437130 44.221 199 104 2 21 219 196 387 2.04e-55 181
MS.gene00333.t1 MTR_2g437160 48.315 178 90 1 25 202 133 308 6.17e-55 178
MS.gene00333.t1 MTR_2g437150 47.778 180 92 2 23 202 217 394 6.60e-55 181
MS.gene00333.t1 MTR_2g437040 48.370 184 93 1 22 205 196 377 8.03e-55 180
MS.gene00333.t1 MTR_4g119550 50.311 161 80 0 43 203 225 385 1.33e-54 179
MS.gene00333.t1 MTR_2g437080 48.485 165 85 0 41 205 213 377 1.49e-54 179
MS.gene00333.t1 MTR_2g437160 48.333 180 91 1 23 202 222 399 1.55e-54 180
MS.gene00333.t1 MTR_2g437940 48.649 185 93 2 21 205 179 361 3.87e-54 177
MS.gene00333.t1 MTR_2g437170 46.995 183 95 2 23 205 217 397 8.27e-54 178
MS.gene00333.t1 MTR_2g437960 47.568 185 95 2 21 205 211 393 2.57e-53 176
MS.gene00333.t1 MTR_2g437960 45.408 196 105 2 21 216 211 404 4.06e-53 176
MS.gene00333.t1 MTR_2g436460 52.532 158 74 1 43 199 220 377 4.22e-53 175
MS.gene00333.t1 MTR_2g437200 48.571 175 88 2 23 197 225 397 2.27e-52 174
MS.gene00333.t1 MTR_4g120380 48.876 178 89 1 19 196 195 370 2.28e-52 173
MS.gene00333.t1 MTR_2g437060 46.707 167 89 0 39 205 226 392 3.08e-52 173
MS.gene00333.t1 MTR_2g437120 49.171 181 89 3 22 202 210 387 3.15e-52 174
MS.gene00333.t1 MTR_2g438010 46.237 186 98 2 18 203 225 408 4.16e-52 174
MS.gene00333.t1 MTR_2g076320 44.809 183 99 1 21 203 208 388 5.02e-52 173
MS.gene00333.t1 MTR_2g437100 46.632 193 97 3 23 215 222 408 1.41e-51 172
MS.gene00333.t1 MTR_2g436400 48.171 164 85 0 39 202 218 381 1.64e-51 171
MS.gene00333.t1 MTR_2g437030 49.367 158 80 0 45 202 303 460 1.83e-51 173
MS.gene00333.t1 MTR_2g437180 48.087 183 91 3 23 205 209 387 3.78e-51 171
MS.gene00333.t1 MTR_2g437990 45.355 183 98 1 21 203 207 387 6.12e-51 171
MS.gene00333.t1 MTR_2g436440 47.826 161 84 0 45 205 223 383 6.12e-51 170
MS.gene00333.t1 MTR_4g119580 45.506 178 95 1 19 196 195 370 3.40e-48 162
MS.gene00333.t1 MTR_4g120380 48.734 158 79 1 19 176 195 350 2.86e-45 155
MS.gene00333.t1 MTR_4g120380 29.747 158 91 4 21 163 264 416 4.64e-12 65.1
MS.gene00333.t1 MTR_2g019810 47.514 181 86 4 17 197 187 358 5.42e-43 149
MS.gene00333.t1 MTR_2g019840 41.954 174 99 2 38 211 213 384 2.67e-37 134
MS.gene00333.t1 MTR_4g119570 37.853 177 75 2 18 194 86 227 1.64e-32 118
MS.gene00333.t1 MTR_3g450500 32.571 175 118 0 22 196 196 370 6.37e-28 109
MS.gene00333.t1 MTR_4g007490 29.545 176 124 0 21 196 193 368 4.63e-25 101
MS.gene00333.t1 MTR_3g085240 42.222 90 35 1 99 188 175 247 5.36e-17 77.8
MS.gene00333.t1 MTR_2g436380 46.552 58 31 0 43 100 3 60 4.69e-14 70.1
MS.gene00333.t1 MTR_8g080990 26.316 171 125 1 27 196 202 372 1.11e-13 69.7
MS.gene00333.t1 MTR_8g081000 24.204 157 119 0 40 196 229 385 2.06e-12 65.9
MS.gene00333.t1 MTR_8g081000 24.204 157 119 0 40 196 229 385 2.79e-12 65.5
MS.gene00333.t1 MTR_8g081000 24.204 157 119 0 40 196 229 385 2.85e-12 65.5
MS.gene00333.t1 MTR_4g119615 53.448 58 26 1 131 188 18 74 3.32e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00333.t1 AT5G07900 35.135 185 113 2 21 201 224 405 2.09e-32 121
MS.gene00333.t1 AT1G21150 31.609 174 118 1 21 193 175 348 1.07e-24 100
MS.gene00333.t1 AT1G21150 31.609 174 118 1 21 193 211 384 2.51e-24 99.8
MS.gene00333.t1 AT1G21150 31.609 174 118 1 21 193 275 448 4.25e-24 99.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61970 25.641 195 107 4 40 196 222 416 1.96e-16 77.8
MS.gene00333.t1 AT1G61960 25.824 182 131 2 18 195 270 451 7.08e-16 76.3
MS.gene00333.t1 AT1G61980 26.154 195 106 4 40 196 222 416 2.83e-15 74.3
MS.gene00333.t1 AT1G61980 26.154 195 106 4 40 196 222 416 2.83e-15 74.3
MS.gene00333.t1 AT1G61980 26.154 195 106 4 40 196 222 416 2.83e-15 74.3
MS.gene00333.t1 AT1G61990 25.521 192 105 2 44 197 219 410 1.84e-14 72.0
MS.gene00333.t1 AT1G61990 25.521 192 105 2 44 197 219 410 1.84e-14 72.0
MS.gene00333.t1 AT1G62110 25.143 175 114 4 18 181 271 439 8.11e-14 70.1
MS.gene00333.t1 AT1G62085 26.064 188 123 5 18 195 274 455 1.59e-13 69.3
MS.gene00333.t1 AT1G62085 26.064 188 123 5 18 195 274 455 1.59e-13 69.3
MS.gene00333.t1 AT5G64950 30.263 152 101 2 50 196 225 376 1.70e-13 68.9
MS.gene00333.t1 AT1G62010 26.230 183 99 3 40 186 206 388 2.44e-12 65.9
MS.gene00333.t1 AT3G46950 27.869 122 87 1 77 197 325 446 1.58e-11 63.5
MS.gene00333.t1 AT5G23930 25.641 117 87 0 79 195 329 445 1.67e-11 63.5
MS.gene00333.t1 AT1G62150 28.358 134 92 3 68 197 326 459 2.05e-11 63.2
MS.gene00333.t1 AT1G62120 25.683 183 100 3 40 186 228 410 2.36e-11 62.8

Find 34 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAGTCTCGCCAACCTTTCT+AGG 0.219097 2.1:+56126218 None:intergenic
TCGGATACCAACATACATTT+TGG 0.230388 2.1:+56126032 None:intergenic
AATTTCTCAGATGCATAAAA+TGG 0.299065 2.1:+56125828 None:intergenic
AAACTGTTATGGAAGCTATT+AGG 0.360815 2.1:-56126061 MS.gene00333:CDS
TTTGACGATATAACTTCAAT+AGG 0.365383 2.1:+56125760 None:intergenic
TTTGTTATTGTTTGGAGAAA+AGG 0.386519 2.1:-56125926 MS.gene00333:CDS
TTGTTATTGTTTGGAGAAAA+GGG 0.398686 2.1:-56125925 MS.gene00333:CDS
TTGGGTTAATGAGTTAGGTT+GGG 0.414764 2.1:-56125982 MS.gene00333:CDS
TTTGGGTTAATGAGTTAGGT+TGG 0.425653 2.1:-56125983 MS.gene00333:CDS
TCTTACCTTGCCAAGGGACC+AGG 0.434193 2.1:-56125954 MS.gene00333:CDS
TATCTTCCGTGTTCCTAGAA+AGG 0.434490 2.1:-56126231 MS.gene00333:CDS
TAAAAGACAACCATAGCTCT+TGG 0.452781 2.1:+56125897 None:intergenic
GGAACACGGAAGATAGCATT+AGG 0.467423 2.1:+56126239 None:intergenic
GGATTCTTCTTACCTTGCCA+AGG 0.474249 2.1:-56125961 MS.gene00333:CDS
ACAAAACATCCCTGGTCCCT+TGG 0.484060 2.1:+56125944 None:intergenic
GATCCTACTAGATATAACTT+TGG 0.490359 2.1:-56126170 MS.gene00333:CDS
GATGAAGATGGCAGATAAGA+AGG 0.507694 2.1:-56125736 MS.gene00333:CDS
TCACCAAAGTTATATCTAGT+AGG 0.526211 2.1:+56126167 None:intergenic
TTCCGTGTTCCTAGAAAGGT+TGG 0.540591 2.1:-56126227 MS.gene00333:CDS
GATTCTTCTTACCTTGCCAA+GGG 0.546470 2.1:-56125960 MS.gene00333:CDS
TTGGTCGGAGGAAACTGTTA+TGG 0.549880 2.1:-56126072 MS.gene00333:CDS
CGCCAACCTTTCTAGGAACA+CGG 0.558478 2.1:+56126225 None:intergenic
TACAGCAAAATCATAAGTCA+TGG 0.560142 2.1:-56125713 MS.gene00333:CDS
AAACAATAACAAAACATCCC+TGG 0.578613 2.1:+56125936 None:intergenic
AAGGGTCATTCCAAGAGCTA+TGG 0.579014 2.1:-56125907 MS.gene00333:CDS
CTTACCTTGCCAAGGGACCA+GGG 0.580713 2.1:-56125953 MS.gene00333:CDS
ATATCGTCAAATGATGAAGA+TGG 0.584508 2.1:-56125748 MS.gene00333:CDS
ACATCCCTGGTCCCTTGGCA+AGG 0.588697 2.1:+56125949 None:intergenic
GAAGCAGCCAAAATGTATGT+TGG 0.599690 2.1:-56126039 MS.gene00333:CDS
TAAGAAATGGGGTTGGTCGG+AGG 0.603714 2.1:-56126084 MS.gene00333:CDS
CGATATAACTTCAATAGGTG+AGG 0.626156 2.1:+56125765 None:intergenic
GTATCGCAGGAAAGAAGCCA+TGG 0.666550 2.1:+56126554 None:intergenic
ATCAATTCTATCATTCCACG+TGG 0.690865 2.1:+56126112 None:intergenic
TATGTTTAAGCAAATCCACG+TGG 0.729827 2.1:-56126127 MS.gene00333:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGAATGAATTGAAAAATTT+GGG - chr2.1:56126029-56126048 MS.gene00333:CDS 15.0%
!! GAGTTATCAAATTATAATTA+GGG + chr2.1:56125821-56125840 None:intergenic 15.0%
!! TATGAATGAATTGAAAAATT+TGG - chr2.1:56126028-56126047 MS.gene00333:CDS 15.0%
!! TGAGTTATCAAATTATAATT+AGG + chr2.1:56125822-56125841 None:intergenic 15.0%
!!! AATTGATACTTTTAAGAAAT+GGG - chr2.1:56126130-56126149 MS.gene00333:CDS 15.0%
!! AGAGTAAAAATTGAAACTTT+GGG + chr2.1:56125713-56125732 None:intergenic 20.0%
!! ATTCCTTAAATCTAATCAAA+AGG - chr2.1:56125842-56125861 MS.gene00333:CDS 20.0%
!! TAATTACAACAAATCAAAGA+AGG + chr2.1:56125891-56125910 None:intergenic 20.0%
!!! ATCAATTTGATGATTGATAA+TGG - chr2.1:56125924-56125943 MS.gene00333:CDS 20.0%
!!! ATTGATACTTTTAAGAAATG+GGG - chr2.1:56126131-56126150 MS.gene00333:CDS 20.0%
!!! GAATTGATACTTTTAAGAAA+TGG - chr2.1:56126129-56126148 MS.gene00333:CDS 20.0%
! AAACTTGATTTCATGAATCT+AGG + chr2.1:56125783-56125802 None:intergenic 25.0%
! AACTTGATTTCATGAATCTA+GGG + chr2.1:56125782-56125801 None:intergenic 25.0%
! AATTTCTCAGATGCATAAAA+TGG + chr2.1:56126401-56126420 None:intergenic 25.0%
! ACTAAGAATTCTATAAATGC+TGG + chr2.1:56125961-56125980 None:intergenic 25.0%
! GAGAGTAAAAATTGAAACTT+TGG + chr2.1:56125714-56125733 None:intergenic 25.0%
! TTTGACGATATAACTTCAAT+AGG + chr2.1:56126469-56126488 None:intergenic 25.0%
!! ACAATCAAACGTTTTACAAA+CGG + chr2.1:56126545-56126564 None:intergenic 25.0%
!! TTGTTATTGTTTGGAGAAAA+GGG - chr2.1:56126301-56126320 MS.gene00333:intron 25.0%
!! TTTCAATTTTTACTCTCCAA+AGG - chr2.1:56125717-56125736 MS.gene00333:CDS 25.0%
!!! GTATGTGTTATTTTATGAAG+AGG - chr2.1:56126433-56126452 MS.gene00333:intron 25.0%
!!! TAGCCTTTTGATTAGATTTA+AGG + chr2.1:56125848-56125867 None:intergenic 25.0%
!!! TTTGTTATTGTTTGGAGAAA+AGG - chr2.1:56126300-56126319 MS.gene00333:intron 25.0%
AAACAATAACAAAACATCCC+TGG + chr2.1:56126293-56126312 None:intergenic 30.0%
AAACTGTTATGGAAGCTATT+AGG - chr2.1:56126165-56126184 MS.gene00333:CDS 30.0%
ATATCGTCAAATGATGAAGA+TGG - chr2.1:56126478-56126497 MS.gene00333:intron 30.0%
GATCCTACTAGATATAACTT+TGG - chr2.1:56126056-56126075 MS.gene00333:CDS 30.0%
TACAGCAAAATCATAAGTCA+TGG - chr2.1:56126513-56126532 MS.gene00333:CDS 30.0%
TCACCAAAGTTATATCTAGT+AGG + chr2.1:56126062-56126081 None:intergenic 30.0%
! CAATCAAACGTTTTACAAAC+GGG + chr2.1:56126544-56126563 None:intergenic 30.0%
! GTCTTTTATCTTCTAACGAA+GGG - chr2.1:56126344-56126363 MS.gene00333:intron 30.0%
! TGCATCTGAGAAATTGTTTT+TGG - chr2.1:56126406-56126425 MS.gene00333:intron 30.0%
! TGTCTTTTATCTTCTAACGA+AGG - chr2.1:56126343-56126362 MS.gene00333:intron 30.0%
!! ATACTTTTAAGAAATGGGGT+TGG - chr2.1:56126135-56126154 MS.gene00333:CDS 30.0%
!!! AGGGATGTTTTGTTATTGTT+TGG - chr2.1:56126292-56126311 MS.gene00333:intron 30.0%
!!! AGTTTTTGGGTTAATGAGTT+AGG - chr2.1:56126239-56126258 MS.gene00333:CDS 30.0%
!!! CTGAGAAATTGTTTTTGGAA+AGG - chr2.1:56126411-56126430 MS.gene00333:intron 30.0%
ATCAATTCTATCATTCCACG+TGG + chr2.1:56126117-56126136 None:intergenic 35.0%
ATCCGACGAAAAAATCGATA+GGG - chr2.1:56126211-56126230 MS.gene00333:CDS 35.0%
CGATATAACTTCAATAGGTG+AGG + chr2.1:56126464-56126483 None:intergenic 35.0%
GACATTCTTCGTATTGTTGT+AGG - chr2.1:56125753-56125772 MS.gene00333:CDS 35.0%
TAAAAGACAACCATAGCTCT+TGG + chr2.1:56126332-56126351 None:intergenic 35.0%
TATCCGACGAAAAAATCGAT+AGG - chr2.1:56126210-56126229 MS.gene00333:CDS 35.0%
TATGTTTAAGCAAATCCACG+TGG - chr2.1:56126099-56126118 MS.gene00333:CDS 35.0%
TTGGGTTAATGAGTTAGGTT+GGG - chr2.1:56126244-56126263 MS.gene00333:CDS 35.0%
! TCGGATACCAACATACATTT+TGG + chr2.1:56126197-56126216 None:intergenic 35.0%
! TTTGGGTTAATGAGTTAGGT+TGG - chr2.1:56126243-56126262 MS.gene00333:CDS 35.0%
!! ACTTTGGGAGAATTCTTTTG+TGG + chr2.1:56125698-56125717 None:intergenic 35.0%
!! CTTTGGGAGAATTCTTTTGT+GGG + chr2.1:56125697-56125716 None:intergenic 35.0%
!! TTTTAAGAAATGGGGTTGGT+CGG - chr2.1:56126139-56126158 MS.gene00333:CDS 35.0%
GAAGCAGCCAAAATGTATGT+TGG - chr2.1:56126187-56126206 MS.gene00333:CDS 40.0%
GATGAAGATGGCAGATAAGA+AGG - chr2.1:56126490-56126509 MS.gene00333:intron 40.0%
GATTCTTCTTACCTTGCCAA+GGG - chr2.1:56126266-56126285 MS.gene00333:CDS 40.0%
TATCTTCCGTGTTCCTAGAA+AGG - chr2.1:56125995-56126014 MS.gene00333:CDS 40.0%
!! AATTCTTTTGTGGGTATCGC+AGG + chr2.1:56125688-56125707 None:intergenic 40.0%
!!! CACCCTATCGATTTTTTCGT+CGG + chr2.1:56126216-56126235 None:intergenic 40.0%
AAGGGTCATTCCAAGAGCTA+TGG - chr2.1:56126319-56126338 MS.gene00333:intron 45.0%
ATAGTCTCGCCAACCTTTCT+AGG + chr2.1:56126011-56126030 None:intergenic 45.0%
GGAACACGGAAGATAGCATT+AGG + chr2.1:56125990-56126009 None:intergenic 45.0%
GGATTCTTCTTACCTTGCCA+AGG - chr2.1:56126265-56126284 MS.gene00333:CDS 45.0%
TTCCGTGTTCCTAGAAAGGT+TGG - chr2.1:56125999-56126018 MS.gene00333:CDS 45.0%
TTGGTCGGAGGAAACTGTTA+TGG - chr2.1:56126154-56126173 MS.gene00333:CDS 45.0%
!! GTCAGATTCAGAAGCACCTT+TGG + chr2.1:56125736-56125755 None:intergenic 45.0%
!!! CGATAGGGTGCTGAGTTTTT+GGG - chr2.1:56126226-56126245 MS.gene00333:CDS 45.0%
!!! TCGATAGGGTGCTGAGTTTT+TGG - chr2.1:56126225-56126244 MS.gene00333:CDS 45.0%
ACAAAACATCCCTGGTCCCT+TGG + chr2.1:56126285-56126304 None:intergenic 50.0%
! CGCCAACCTTTCTAGGAACA+CGG + chr2.1:56126004-56126023 None:intergenic 50.0%
!! TAAGAAATGGGGTTGGTCGG+AGG - chr2.1:56126142-56126161 MS.gene00333:CDS 50.0%
CTTACCTTGCCAAGGGACCA+GGG - chr2.1:56126273-56126292 MS.gene00333:intron 55.0%
TCTTACCTTGCCAAGGGACC+AGG - chr2.1:56126272-56126291 MS.gene00333:intron 55.0%
ACATCCCTGGTCCCTTGGCA+AGG + chr2.1:56126280-56126299 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 56125674 56126574 56125674 ID=MS.gene00333
chr2.1 mRNA 56125674 56126574 56125674 ID=MS.gene00333.t1;Parent=MS.gene00333
chr2.1 exon 56126510 56126574 56126510 ID=MS.gene00333.t1.exon1;Parent=MS.gene00333.t1
chr2.1 CDS 56126510 56126574 56126510 ID=cds.MS.gene00333.t1;Parent=MS.gene00333.t1
chr2.1 exon 56125674 56126286 56125674 ID=MS.gene00333.t1.exon2;Parent=MS.gene00333.t1
chr2.1 CDS 56125674 56126286 56125674 ID=cds.MS.gene00333.t1;Parent=MS.gene00333.t1
Gene Sequence

>MS.gene00333

ATGGCTTCTTTCCTGCGATACCCACAAAAGAATTCTCCCAAAGTTTCAATTTTTACTCTCCAAAGGTGCTTCTGAATCTGACATTCTTCGTATTGTTGTAGGTAACCCTAGATTCATGAAATCAAGTTTGAAGAATCGTGTTATCCCTAATTATAATTTGATAACTCAATTCCTTAAATCTAATCAAAAGGCTATGTCTTCTGTAATTTTATGTCCTTCTTTGATTTGTTGTAATTATATGATTTCTAATATCAATTTGATGATTGATAATGGTGTTTGCAATACCAGCATTTATAGAATTCTTAGTACTAGACCTAATGCTATCTTCCGTGTTCCTAGAAAGGTTGGCGAGACTATGAATGAATTGAAAAATTTGGGATTTGATCCTACTAGATATAACTTTGGTGATGCATTGCTTGCTAGATTATGTTTAAGCAAATCCACGTGGAATGATAGAATTGATACTTTTAAGAAATGGGGTTGGTCGGAGGAAACTGTTATGGAAGCTATTAGGAAGCAGCCAAAATGTATGTTGGTATCCGACGAAAAAATCGATAGGGTGCTGAGTTTTTGGGTTAATGAGTTAGGTTGGGATTCTTCTTACCTTGCCAAGGGACCAGGGATGTTTTGTTATTGTTTGGAGAAAAGGGTCATTCCAAGAGCTATGGTTGTCTTTTATCTTCTAACGAAGGGTTTGAGAAGCGAGTTTGCTAGCTTGACAAGTCCATTTTATGCATCTGAGAAATTGTTTTTGGAAAGGTATGTGTTATTTTATGAAGAGGATGCTCCTCACCTATTGAAGTTATATCGTCAAATGATGAAGATGGCAGATAAGAAGGTACAGCAAAATCATAAGTCATGGCAAATCCCGTTTGTAAAACGTTTGATTGTAGAAAAGTAG
Protein sequence

>MS.gene00333.t1

MASFLRYPQKNSPKVSIFTLQSIYRILSTRPNAIFRVPRKVGETMNELKNLGFDPTRYNFGDALLARLCLSKSTWNDRIDTFKKWGWSEETVMEAIRKQPKCMLVSDEKIDRVLSFWVNELGWDSSYLAKGPGMFCYCLEKRVIPRAMVVFYLLTKGLRSEFASLTSPFYASEKLFLERYVLFYEEDAPHLLKLYRQMMKMADKKVQQNHKSWQIPFVKRLIVEK