AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33677


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33677.t1 MTR_4g013325 92.965 199 12 1 1 197 1 199 9.87e-119 335
MS.gene33677.t1 MTR_4g013335 83.060 183 27 3 16 197 17 196 7.69e-111 315
MS.gene33677.t1 MTR_4g013350 77.273 198 43 2 1 197 1 197 2.54e-107 306
MS.gene33677.t1 MTR_4g013320 77.387 199 43 2 1 197 1 199 6.83e-107 305
MS.gene33677.t1 MTR_4g013345 76.263 198 44 2 1 197 1 196 4.14e-104 298
MS.gene33677.t1 MTR_4g013330 73.500 200 49 3 1 197 1 199 1.02e-102 294
MS.gene33677.t1 MTR_4g013310 69.849 199 56 3 1 197 1 197 6.70e-93 270
MS.gene33677.t1 MTR_7g070390 68.254 189 57 2 11 197 5 192 3.12e-83 245
MS.gene33677.t1 MTR_4g013385 57.672 189 74 3 9 197 8 190 3.25e-76 227
MS.gene33677.t1 MTR_0433s0040 57.672 189 74 3 9 197 8 190 3.25e-76 227
MS.gene33677.t1 MTR_4g013770 61.538 169 63 2 30 197 24 191 6.49e-69 208
MS.gene33677.t1 MTR_1g054525 60.000 165 63 2 34 197 30 192 6.17e-67 203
MS.gene33677.t1 MTR_4g013355 52.381 189 75 3 9 197 6 179 1.65e-62 192
MS.gene33677.t1 MTR_7g093870 53.049 164 72 2 39 197 30 193 5.03e-59 184
MS.gene33677.t1 MTR_7g093820 49.462 186 91 3 13 197 11 194 9.30e-58 180
MS.gene33677.t1 MTR_7g093850 46.073 191 90 3 13 197 11 194 1.53e-57 180
MS.gene33677.t1 MTR_4g073950 52.597 154 72 1 45 197 39 192 3.64e-57 179
MS.gene33677.t1 MTR_7g093790 48.171 164 84 1 35 197 28 191 6.50e-57 178
MS.gene33677.t1 MTR_7g093830 49.390 164 82 1 35 197 30 193 1.47e-56 177
MS.gene33677.t1 MTR_1g056370 46.497 157 79 3 44 196 30 185 9.64e-48 154
MS.gene33677.t1 MTR_3g105640 47.368 152 78 2 48 197 37 188 1.62e-45 149
MS.gene33677.t1 MTR_4g078885 44.737 152 82 1 46 197 36 185 8.76e-45 147
MS.gene33677.t1 MTR_3g034030 45.395 152 81 1 46 197 36 185 1.66e-44 146
MS.gene33677.t1 MTR_5g096120 43.137 204 90 6 4 197 2 189 2.07e-43 144
MS.gene33677.t1 MTR_3g105630 40.933 193 103 4 8 197 5 189 6.59e-43 142
MS.gene33677.t1 MTR_4g122110 38.028 142 88 0 56 197 39 180 9.85e-28 103
MS.gene33677.t1 MTR_4g122130 37.931 145 84 2 56 197 39 180 1.21e-25 97.8
MS.gene33677.t1 MTR_4g013340 51.042 96 12 1 102 197 78 138 5.72e-25 95.1
MS.gene33677.t1 MTR_4g049550 29.655 145 102 0 48 192 29 173 3.16e-19 81.3
MS.gene33677.t1 MTR_4g049570 29.371 143 101 0 50 192 31 173 7.35e-19 80.1
MS.gene33677.t1 MTR_8g099115 31.788 151 94 3 38 180 23 172 5.98e-16 72.8
MS.gene33677.t1 MTR_8g099135 33.083 133 78 4 57 180 38 168 1.17e-13 66.6
MS.gene33677.t1 MTR_1g046490 37.778 90 55 1 84 173 121 209 1.33e-13 67.4
MS.gene33677.t1 MTR_1g046800 41.111 90 52 1 84 173 135 223 1.43e-13 67.4
MS.gene33677.t1 MTR_1g046500 41.111 90 52 1 84 173 135 223 2.21e-13 67.0
MS.gene33677.t1 MTR_1g115510 35.537 121 67 4 85 196 235 353 9.11e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33677.t1 AT1G58170 59.677 186 68 1 12 197 7 185 3.43e-80 237
MS.gene33677.t1 AT5G49040 55.851 188 82 1 11 197 4 191 4.01e-76 227
MS.gene33677.t1 AT1G55210 55.789 190 77 3 9 197 4 187 1.46e-74 223
MS.gene33677.t1 AT1G55210 55.789 190 77 3 9 197 4 187 1.46e-74 223
MS.gene33677.t1 AT3G13650 53.763 186 83 1 12 197 4 186 1.06e-69 210
MS.gene33677.t1 AT5G49030 55.172 174 77 1 11 183 4 177 2.31e-59 200
MS.gene33677.t1 AT1G65870 56.000 150 66 0 47 196 40 189 4.33e-58 181
MS.gene33677.t1 AT3G13662 49.714 175 81 3 11 184 4 172 1.76e-55 174
MS.gene33677.t1 AT2G21100 50.323 155 77 0 42 196 33 187 5.47e-55 173
MS.gene33677.t1 AT2G21100 50.323 155 77 0 42 196 33 187 5.47e-55 173
MS.gene33677.t1 AT3G13660 66.102 118 40 0 80 197 8 125 4.55e-54 169
MS.gene33677.t1 AT5G42500 48.667 150 75 1 47 196 38 185 4.32e-49 158
MS.gene33677.t1 AT1G22900 50.000 150 73 1 47 196 46 193 1.00e-48 157
MS.gene33677.t1 AT5G42510 48.667 150 75 1 47 196 35 182 2.95e-48 155
MS.gene33677.t1 AT4G38700 43.827 162 85 3 42 197 29 190 1.82e-44 146
MS.gene33677.t1 AT3G58090 54.128 109 50 0 88 196 163 271 6.73e-40 137
MS.gene33677.t1 AT2G21110 38.462 169 95 2 33 197 23 186 2.12e-39 133
MS.gene33677.t1 AT4G23690 35.664 143 84 4 41 179 31 169 3.17e-17 76.3
MS.gene33677.t1 AT1G64160 31.944 144 91 3 41 180 25 165 3.21e-16 73.6
MS.gene33677.t1 AT4G11190 33.824 136 82 5 41 172 27 158 1.55e-15 71.6
MS.gene33677.t1 AT4G11210 29.834 181 101 7 7 180 5 166 6.70e-15 70.1
MS.gene33677.t1 AT4G13580 34.951 103 60 2 84 180 129 230 3.01e-11 60.8
MS.gene33677.t1 AT3G24020 37.778 90 55 1 84 173 128 216 3.04e-11 60.8
MS.gene33677.t1 AT4G11180 32.331 133 84 4 48 176 34 164 4.61e-11 59.7

Find 36 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAAGTACACTTACTATTT+TGG 0.090168 4.3:+84200707 MS.gene33677:CDS
AGTTCTGGTCCTAATGTTAA+AGG 0.200219 4.3:-84200576 None:intergenic
CTAAACACGACAACTGCTTT+TGG 0.250268 4.3:+84200531 MS.gene33677:CDS
ATTGATAACCCTTTAACATT+AGG 0.316470 4.3:+84200567 MS.gene33677:CDS
TTTAATAATTTGCGGTCTAT+AGG 0.343916 4.3:-84200408 None:intergenic
AGATGAAGTTGATTTGCTTA+TGG 0.369472 4.3:+84200650 MS.gene33677:CDS
CATTGGTTTGATATCAAAAC+CGG 0.379656 4.3:+84200825 MS.gene33677:CDS
TTTACTGAAGGAAAATATAA+TGG 0.380359 4.3:+84200687 MS.gene33677:CDS
AGGACCAGAACTGAGTTCTA+AGG 0.395502 4.3:+84200587 MS.gene33677:CDS
AAGTGATGGTGTTGCAAGAT+AGG 0.403929 4.3:-84200338 None:intergenic
TCTTTAGGTTTAATAATTTG+CGG 0.414614 4.3:-84200416 None:intergenic
GTTCTGGTCCTAATGTTAAA+GGG 0.423463 4.3:-84200575 None:intergenic
ATGCTGAAGCTAATACTCAT+TGG 0.445682 4.3:+84200808 MS.gene33677:CDS
GAACTGAGTTCTAAGGTTGT+TGG 0.452309 4.3:+84200594 MS.gene33677:CDS
GTTGTCGTGTTTAGTTTCAA+TGG 0.464443 4.3:-84200522 None:intergenic
GGAACAACTGCAACTGAAGT+AGG 0.473877 4.3:-84200495 None:intergenic
ACAACCTTAGAACTCAGTTC+TGG 0.474628 4.3:-84200591 None:intergenic
AGAACAAAGTGATGAAGTGT+TGG 0.478622 4.3:-84200305 None:intergenic
GAACAAAGTGATGAAGTGTT+GGG 0.498072 4.3:-84200304 None:intergenic
GTGTTTAGTTTCAATGGTGG+TGG 0.501953 4.3:-84200516 None:intergenic
TAAGTCATTTCAGATTCTAC+TGG 0.503837 4.3:+84200448 MS.gene33677:CDS
AAGGTTGTTGGAAAAGCTCA+AGG 0.511935 4.3:+84200606 MS.gene33677:CDS
ATGCCTGTGATTGGTGGAAG+TGG 0.514663 4.3:+84200762 MS.gene33677:CDS
CAAATTATTAAACCTAAAGA+AGG 0.527897 4.3:+84200419 MS.gene33677:CDS
TGGTGTTGCAAGATAGGAGA+AGG 0.539243 4.3:-84200332 None:intergenic
ATACTCAACAATAGCATCCC+CGG 0.565003 4.3:-84200844 None:intergenic
GTTAGAGAGATGCCTGTGAT+TGG 0.567283 4.3:+84200753 MS.gene33677:CDS
ACTCCACTTCCACCAATCAC+AGG 0.589329 4.3:-84200765 None:intergenic
GAACAACTGCAACTGAAGTA+GGG 0.596771 4.3:-84200494 None:intergenic
AGAGAGATGCCTGTGATTGG+TGG 0.606895 4.3:+84200756 MS.gene33677:CDS
TGATGATGATGTTAAAGTGA+TGG 0.638584 4.3:-84200352 None:intergenic
TACTGGCACGACATAGTGAG+TGG 0.639000 4.3:+84200465 MS.gene33677:CDS
AGGTTGTTGGAAAAGCTCAA+GGG 0.639795 4.3:+84200607 MS.gene33677:CDS
ATTGGTTTGATATCAAAACC+GGG 0.644981 4.3:+84200826 MS.gene33677:CDS
GTCGTGTTTAGTTTCAATGG+TGG 0.656285 4.3:-84200519 None:intergenic
TTGGTTTGATATCAAAACCG+GGG 0.681345 4.3:+84200827 MS.gene33677:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAATTATTAAACCTAAAGA+AGG + chr4.3:84200419-84200438 MS.gene33677:CDS 20.0%
!! TTTACTGAAGGAAAATATAA+TGG + chr4.3:84200687-84200706 MS.gene33677:CDS 20.0%
!!! ATTATATTTTCCTTCAGTAA+AGG - chr4.3:84200688-84200707 None:intergenic 20.0%
!!! TCTTTAGGTTTAATAATTTG+CGG - chr4.3:84200419-84200438 None:intergenic 20.0%
!! ATTGATAACCCTTTAACATT+AGG + chr4.3:84200567-84200586 MS.gene33677:CDS 25.0%
!! TTTAATAATTTGCGGTCTAT+AGG - chr4.3:84200411-84200430 None:intergenic 25.0%
TAAGTCATTTCAGATTCTAC+TGG + chr4.3:84200448-84200467 MS.gene33677:CDS 30.0%
! ATGAATTTTGCCTTTACTGA+AGG + chr4.3:84200675-84200694 MS.gene33677:CDS 30.0%
! TGATGATGATGTTAAAGTGA+TGG - chr4.3:84200355-84200374 None:intergenic 30.0%
!! AGATGAAGTTGATTTGCTTA+TGG + chr4.3:84200650-84200669 MS.gene33677:CDS 30.0%
!! ATTGGTTTGATATCAAAACC+GGG + chr4.3:84200826-84200845 MS.gene33677:CDS 30.0%
!! CATTGGTTTGATATCAAAAC+CGG + chr4.3:84200825-84200844 MS.gene33677:CDS 30.0%
!! GACTTAGTTTTTCCTTCTTT+AGG - chr4.3:84200434-84200453 None:intergenic 30.0%
!! GGAAGTACACTTACTATTTT+GGG + chr4.3:84200708-84200727 MS.gene33677:CDS 30.0%
!! TGGAAGTACACTTACTATTT+TGG + chr4.3:84200707-84200726 MS.gene33677:CDS 30.0%
AGAACAAAGTGATGAAGTGT+TGG - chr4.3:84200308-84200327 None:intergenic 35.0%
ATGCTGAAGCTAATACTCAT+TGG + chr4.3:84200808-84200827 MS.gene33677:CDS 35.0%
GTTCTGGTCCTAATGTTAAA+GGG - chr4.3:84200578-84200597 None:intergenic 35.0%
! AGTTCTGGTCCTAATGTTAA+AGG - chr4.3:84200579-84200598 None:intergenic 35.0%
! GAACAAAGTGATGAAGTGTT+GGG - chr4.3:84200307-84200326 None:intergenic 35.0%
! GTTGTCGTGTTTAGTTTCAA+TGG - chr4.3:84200525-84200544 None:intergenic 35.0%
! TTGGTTTGATATCAAAACCG+GGG + chr4.3:84200827-84200846 MS.gene33677:CDS 35.0%
!! GTACACTTACTATTTTGGGA+AGG + chr4.3:84200712-84200731 MS.gene33677:CDS 35.0%
AAGGTTGTTGGAAAAGCTCA+AGG + chr4.3:84200606-84200625 MS.gene33677:CDS 40.0%
ACAACCTTAGAACTCAGTTC+TGG - chr4.3:84200594-84200613 None:intergenic 40.0%
AGGTTGTTGGAAAAGCTCAA+GGG + chr4.3:84200607-84200626 MS.gene33677:CDS 40.0%
ATACTCAACAATAGCATCCC+CGG - chr4.3:84200847-84200866 None:intergenic 40.0%
GAACAACTGCAACTGAAGTA+GGG - chr4.3:84200497-84200516 None:intergenic 40.0%
! CTAAACACGACAACTGCTTT+TGG + chr4.3:84200531-84200550 MS.gene33677:CDS 40.0%
! GTCGTGTTTAGTTTCAATGG+TGG - chr4.3:84200522-84200541 None:intergenic 40.0%
! GTGTTTAGTTTCAATGGTGG+TGG - chr4.3:84200519-84200538 None:intergenic 40.0%
!! AAGTGATGGTGTTGCAAGAT+AGG - chr4.3:84200341-84200360 None:intergenic 40.0%
!! GAACTGAGTTCTAAGGTTGT+TGG + chr4.3:84200594-84200613 MS.gene33677:CDS 40.0%
!!! GGAGTTTTCAGATTTGCTAG+AGG + chr4.3:84200783-84200802 MS.gene33677:CDS 40.0%
AGGACCAGAACTGAGTTCTA+AGG + chr4.3:84200587-84200606 MS.gene33677:CDS 45.0%
GGAACAACTGCAACTGAAGT+AGG - chr4.3:84200498-84200517 None:intergenic 45.0%
GTTAGAGAGATGCCTGTGAT+TGG + chr4.3:84200753-84200772 MS.gene33677:CDS 45.0%
!! TGGTGTTGCAAGATAGGAGA+AGG - chr4.3:84200335-84200354 None:intergenic 45.0%
ACTCCACTTCCACCAATCAC+AGG - chr4.3:84200768-84200787 None:intergenic 50.0%
AGAGAGATGCCTGTGATTGG+TGG + chr4.3:84200756-84200775 MS.gene33677:CDS 50.0%
ATGCCTGTGATTGGTGGAAG+TGG + chr4.3:84200762-84200781 MS.gene33677:CDS 50.0%
TACTGGCACGACATAGTGAG+TGG + chr4.3:84200465-84200484 MS.gene33677:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 84200297 84200890 84200297 ID=MS.gene33677
chr4.3 mRNA 84200297 84200890 84200297 ID=MS.gene33677.t1;Parent=MS.gene33677
chr4.3 exon 84200297 84200890 84200297 ID=MS.gene33677.t1.exon1;Parent=MS.gene33677.t1
chr4.3 CDS 84200297 84200890 84200297 ID=cds.MS.gene33677.t1;Parent=MS.gene33677.t1
Gene Sequence

>MS.gene33677

ATGCAAACCCAACACTTCATCACTTTGTTCTTCTTCCTTCTCCTATCTTGCAACACCATCACTTTAACATCATCATCATCAGAAAATGATGACACTTTTGAATTTGTTCGTCCTATAGACCGCAAATTATTAAACCTAAAGAAGGAAAAACTAAGTCATTTCAGATTCTACTGGCACGACATAGTGAGTGGAAAAAACCCTACTTCAGTTGCAGTTGTTCCACCACCATTGAAACTAAACACGACAACTGCTTTTGGAACAGTTCGCATGATTGATAACCCTTTAACATTAGGACCAGAACTGAGTTCTAAGGTTGTTGGAAAAGCTCAAGGGTTCTATGCATCTGCATGCAAAGATGAAGTTGATTTGCTTATGGCTATGAATTTTGCCTTTACTGAAGGAAAATATAATGGAAGTACACTTACTATTTTGGGAAGGAATGCTGTTTTTCATAAAGTTAGAGAGATGCCTGTGATTGGTGGAAGTGGAGTTTTCAGATTTGCTAGAGGATATGCTGAAGCTAATACTCATTGGTTTGATATCAAAACCGGGGATGCTATTGTTGAGTATAATGTTTATGTTTTTCACTATTGA

Protein sequence

>MS.gene33677.t1

MQTQHFITLFFFLLLSCNTITLTSSSSENDDTFEFVRPIDRKLLNLKKEKLSHFRFYWHDIVSGKNPTSVAVVPPPLKLNTTTAFGTVRMIDNPLTLGPELSSKVVGKAQGFYASACKDEVDLLMAMNFAFTEGKYNGSTLTILGRNAVFHKVREMPVIGGSGVFRFARGYAEANTHWFDIKTGDAIVEYNVYVFHY