AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33418

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33418.t1 MTR_4g013310 95.477 199 7 1 1 199 1 197 4.64e-131 366
MS.gene33418.t1 MTR_4g013320 71.859 199 56 0 1 199 1 199 3.86e-98 283
MS.gene33418.t1 MTR_4g013350 67.337 199 63 1 1 199 1 197 8.00e-93 269
MS.gene33418.t1 MTR_4g013330 68.159 201 60 2 1 199 1 199 1.54e-90 264
MS.gene33418.t1 MTR_4g013345 67.337 199 62 1 1 199 1 196 1.60e-90 263
MS.gene33418.t1 MTR_4g013335 63.500 200 68 3 1 199 1 196 4.33e-87 255
MS.gene33418.t1 MTR_4g013325 66.000 200 66 2 1 199 1 199 2.61e-81 240
MS.gene33418.t1 MTR_7g070390 61.735 196 68 4 6 199 2 192 2.25e-75 225
MS.gene33418.t1 MTR_4g013385 55.026 189 77 4 11 199 10 190 3.81e-67 204
MS.gene33418.t1 MTR_0433s0040 55.026 189 77 4 11 199 10 190 3.81e-67 204
MS.gene33418.t1 MTR_4g013770 56.725 171 70 3 30 199 24 191 7.94e-64 196
MS.gene33418.t1 MTR_1g054525 51.205 166 79 1 34 199 29 192 9.62e-59 183
MS.gene33418.t1 MTR_4g013355 48.421 190 81 4 10 199 7 179 5.39e-56 175
MS.gene33418.t1 MTR_7g093870 49.704 169 79 3 36 199 26 193 2.22e-53 170
MS.gene33418.t1 MTR_7g093790 48.795 166 83 2 35 199 27 191 7.33e-53 168
MS.gene33418.t1 MTR_7g093820 48.187 193 95 4 8 199 6 194 1.54e-52 167
MS.gene33418.t1 MTR_7g093850 47.668 193 96 4 8 199 6 194 2.66e-52 166
MS.gene33418.t1 MTR_7g093830 48.193 166 84 2 35 199 29 193 2.59e-51 164
MS.gene33418.t1 MTR_4g073950 45.695 151 81 1 50 199 42 192 7.33e-45 147
MS.gene33418.t1 MTR_1g056370 44.737 152 79 3 51 198 35 185 1.50e-41 139
MS.gene33418.t1 MTR_4g078885 42.282 149 84 1 51 199 39 185 9.00e-40 134
MS.gene33418.t1 MTR_3g034030 42.953 149 83 1 51 199 39 185 1.27e-39 134
MS.gene33418.t1 MTR_3g105640 41.573 178 98 4 24 199 15 188 2.91e-39 133
MS.gene33418.t1 MTR_3g105630 41.875 160 88 3 43 199 32 189 4.10e-37 127
MS.gene33418.t1 MTR_5g096120 37.000 200 102 5 7 199 7 189 4.66e-36 125
MS.gene33418.t1 MTR_4g122130 40.141 142 85 0 58 199 39 180 1.92e-27 102
MS.gene33418.t1 MTR_4g122110 39.437 142 86 0 58 199 39 180 4.58e-27 101
MS.gene33418.t1 MTR_4g049550 32.653 147 99 0 48 194 27 173 7.42e-24 93.2
MS.gene33418.t1 MTR_4g049570 32.168 143 97 0 52 194 31 173 2.05e-22 89.7
MS.gene33418.t1 MTR_8g099115 31.915 141 85 4 51 182 34 172 4.13e-16 73.2
MS.gene33418.t1 MTR_8g099135 32.090 134 80 4 58 182 37 168 2.88e-15 70.9
MS.gene33418.t1 MTR_1g115510 31.361 169 103 6 42 198 186 353 5.36e-15 72.4
MS.gene33418.t1 MTR_1g046800 32.479 117 74 2 86 198 135 250 1.29e-13 67.8
MS.gene33418.t1 MTR_1g046500 32.479 117 74 2 86 198 135 250 1.59e-13 67.4
MS.gene33418.t1 MTR_1g046490 31.624 117 75 2 86 198 121 236 2.42e-13 66.6
MS.gene33418.t1 MTR_4g062520 35.294 119 68 4 87 198 187 303 3.44e-13 67.0
MS.gene33418.t1 MTR_7g021300 33.051 118 70 4 87 196 271 387 3.59e-13 67.4
MS.gene33418.t1 MTR_4g062470 35.294 119 68 4 87 198 188 304 3.68e-13 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33418.t1 AT1G58170 55.556 162 71 1 38 199 25 185 5.98e-68 206
MS.gene33418.t1 AT1G55210 50.785 191 87 2 9 199 4 187 5.64e-64 196
MS.gene33418.t1 AT1G55210 50.785 191 87 2 9 199 4 187 5.64e-64 196
MS.gene33418.t1 AT5G49040 47.090 189 99 1 11 199 4 191 8.79e-63 193
MS.gene33418.t1 AT3G13650 49.735 189 89 3 11 199 4 186 5.89e-60 186
MS.gene33418.t1 AT1G65870 50.000 148 74 0 51 198 42 189 9.42e-52 165
MS.gene33418.t1 AT5G49030 46.629 178 94 1 11 188 4 180 3.32e-50 174
MS.gene33418.t1 AT1G22900 49.669 151 74 1 48 198 45 193 1.22e-47 154
MS.gene33418.t1 AT2G21100 47.403 154 81 0 45 198 34 187 7.55e-47 152
MS.gene33418.t1 AT2G21100 47.403 154 81 0 45 198 34 187 7.55e-47 152
MS.gene33418.t1 AT5G42500 48.649 148 74 1 51 198 40 185 1.29e-46 152
MS.gene33418.t1 AT3G13662 44.767 172 88 4 11 182 4 168 1.44e-45 149
MS.gene33418.t1 AT5G42510 47.973 148 75 1 51 198 37 182 3.39e-45 148
MS.gene33418.t1 AT3G13660 55.085 118 53 0 82 199 8 125 6.97e-42 137
MS.gene33418.t1 AT4G38700 37.186 199 106 6 7 199 5 190 4.91e-39 132
MS.gene33418.t1 AT3G58090 50.000 110 55 0 89 198 162 271 1.60e-36 128
MS.gene33418.t1 AT2G21110 37.853 177 100 3 27 199 16 186 3.24e-35 122
MS.gene33418.t1 AT4G23690 34.848 132 79 3 47 174 34 162 4.72e-16 73.2
MS.gene33418.t1 AT4G11210 30.058 173 109 4 10 182 6 166 5.15e-16 72.8
MS.gene33418.t1 AT3G55230 31.967 122 74 2 87 199 183 304 4.98e-15 72.4
MS.gene33418.t1 AT2G39430 30.328 122 74 3 87 198 200 320 6.21e-15 72.0
MS.gene33418.t1 AT4G11180 34.868 152 92 5 50 197 34 182 1.01e-14 69.7
MS.gene33418.t1 AT4G11190 32.061 131 82 4 48 174 31 158 1.16e-14 69.3
MS.gene33418.t1 AT1G64160 33.333 135 80 4 53 183 35 163 1.63e-14 68.9
MS.gene33418.t1 AT1G07730 34.146 123 69 2 87 198 268 389 1.69e-13 68.6
MS.gene33418.t1 AT2G28670 34.959 123 68 2 87 198 105 226 4.91e-13 65.9
MS.gene33418.t1 AT3G24020 31.092 119 77 2 84 198 126 243 1.17e-12 65.1
MS.gene33418.t1 AT2G28670 34.959 123 68 2 87 198 315 436 1.79e-12 65.5
MS.gene33418.t1 AT4G13580 35.106 94 60 1 84 177 127 219 1.69e-11 61.6

Find 30 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTTAGGTGTAACAATTT+TGG 0.181250 4.2:-87201411 None:intergenic
GAGAAATTCTGCTCTTAATA+AGG 0.256687 4.2:+87201728 MS.gene33418:CDS
ATTGACAACCCTTTAACTTT+AGG 0.265955 4.2:+87201564 MS.gene33418:CDS
TTCATTGAAGGAAAGTATAA+TGG 0.359474 4.2:+87201684 MS.gene33418:CDS
CTAAACACAAGTACTTCTTT+TGG 0.360096 4.2:+87201528 MS.gene33418:CDS
AAAATGAGTTCTAAGCTTGT+TGG 0.360872 4.2:+87201591 MS.gene33418:CDS
ATTCTGCTCTTAATAAGGTT+AGG 0.369008 4.2:+87201733 MS.gene33418:CDS
TAAGTCATTTCAGATTCTTT+TGG 0.375139 4.2:+87201445 MS.gene33418:CDS
GGTAGTACCATTACTATCTT+GGG 0.378846 4.2:+87201705 MS.gene33418:CDS
TGGTAGTACCATTACTATCT+TGG 0.383256 4.2:+87201704 MS.gene33418:CDS
GGATGAGTTTAGTTTGTTCA+TGG 0.386901 4.2:+87201647 MS.gene33418:CDS
GTACTTGTGTTTAGCTTCAA+TGG 0.393834 4.2:-87201519 None:intergenic
AACAGTAGTATCTTGAGAAT+TGG 0.397318 4.2:-87201835 None:intergenic
CGTCCGGTACCACCAACAAT+AGG 0.438872 4.2:-87201762 None:intergenic
TTCTGCTCTTAATAAGGTTA+GGG 0.438908 4.2:+87201734 MS.gene33418:CDS
GGTACAACTGTAACTGAAGT+AGG 0.446875 4.2:-87201492 None:intergenic
ATGCCTATTGTTGGTGGTAC+CGG 0.451597 4.2:+87201759 MS.gene33418:CDS
GTGTTTAGCTTCAATGGTAG+TGG 0.471842 4.2:-87201513 None:intergenic
GTTAGGGAAATGCCTATTGT+TGG 0.493287 4.2:+87201750 MS.gene33418:CDS
AAGCTTGTTGGAAAAGCTCA+AGG 0.497360 4.2:+87201603 MS.gene33418:CDS
TCTTGCAAATCTAAAACGTC+CGG 0.540242 4.2:-87201778 None:intergenic
AGGGAAATGCCTATTGTTGG+TGG 0.541474 4.2:+87201753 MS.gene33418:CDS
GAGGAAGTGTTGGGTAGGCA+TGG 0.569144 4.2:-87201286 None:intergenic
GTTCTATGCATCTACATCAA+AGG 0.577189 4.2:+87201626 MS.gene33418:CDS
GAATGTTCCAAGAAAAGAGA+AGG 0.578138 4.2:-87201323 None:intergenic
AAAGTGAGGAAGTGTTGGGT+AGG 0.593119 4.2:-87201291 None:intergenic
GTACAACTGTAACTGAAGTA+GGG 0.601312 4.2:-87201491 None:intergenic
AGCTTGTTGGAAAAGCTCAA+GGG 0.605732 4.2:+87201604 MS.gene33418:CDS
ATTTCTCCCCAAGATAGTAA+TGG 0.614631 4.2:-87201712 None:intergenic
GTAGTACCATTACTATCTTG+GGG 0.688802 4.2:+87201706 MS.gene33418:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAGTTTTTCTTTGTTGTTT+AGG - chr4.2:87201428-87201447 None:intergenic 20.0%
!! TAAGTCATTTCAGATTCTTT+TGG + chr4.2:87201445-87201464 MS.gene33418:CDS 25.0%
!! TGTTTAGGTGTAACAATTTT+GGG - chr4.2:87201413-87201432 None:intergenic 25.0%
!! TTCATTGAAGGAAAGTATAA+TGG + chr4.2:87201684-87201703 MS.gene33418:CDS 25.0%
!! TTGTTTAGGTGTAACAATTT+TGG - chr4.2:87201414-87201433 None:intergenic 25.0%
!!! ATTTTTGGTCCTAAAGTTAA+AGG - chr4.2:87201576-87201595 None:intergenic 25.0%
!!! GTTTCTTCTTTTTCAAATGA+CGG - chr4.2:87201366-87201385 None:intergenic 25.0%
!!! TTTTTGGTCCTAAAGTTAAA+GGG - chr4.2:87201575-87201594 None:intergenic 25.0%
AACAGTAGTATCTTGAGAAT+TGG - chr4.2:87201838-87201857 None:intergenic 30.0%
ATTCTGCTCTTAATAAGGTT+AGG + chr4.2:87201733-87201752 MS.gene33418:CDS 30.0%
GAGAAATTCTGCTCTTAATA+AGG + chr4.2:87201728-87201747 MS.gene33418:CDS 30.0%
TTCTGCTCTTAATAAGGTTA+GGG + chr4.2:87201734-87201753 MS.gene33418:CDS 30.0%
! ACAAGCTTAGAACTCATTTT+TGG - chr4.2:87201591-87201610 None:intergenic 30.0%
! ATGACTTTTGCTTTCATTGA+AGG + chr4.2:87201672-87201691 MS.gene33418:CDS 30.0%
! ATTGACAACCCTTTAACTTT+AGG + chr4.2:87201564-87201583 MS.gene33418:CDS 30.0%
! CTAAACACAAGTACTTCTTT+TGG + chr4.2:87201528-87201547 MS.gene33418:CDS 30.0%
!! AAAATGAGTTCTAAGCTTGT+TGG + chr4.2:87201591-87201610 MS.gene33418:CDS 30.0%
ATTTCTCCCCAAGATAGTAA+TGG - chr4.2:87201715-87201734 None:intergenic 35.0%
GAAGGAAGAAGAAAAAAGTG+AGG - chr4.2:87201308-87201327 None:intergenic 35.0%
GAATGTTCCAAGAAAAGAGA+AGG - chr4.2:87201326-87201345 None:intergenic 35.0%
GGTAGTACCATTACTATCTT+GGG + chr4.2:87201705-87201724 MS.gene33418:CDS 35.0%
GTACAACTGTAACTGAAGTA+GGG - chr4.2:87201494-87201513 None:intergenic 35.0%
GTAGTACCATTACTATCTTG+GGG + chr4.2:87201706-87201725 MS.gene33418:CDS 35.0%
GTTCTATGCATCTACATCAA+AGG + chr4.2:87201626-87201645 MS.gene33418:CDS 35.0%
TGGTAGTACCATTACTATCT+TGG + chr4.2:87201704-87201723 MS.gene33418:CDS 35.0%
! AGAAAAAAGTGAGGAAGTGT+TGG - chr4.2:87201299-87201318 None:intergenic 35.0%
! GTACTTGTGTTTAGCTTCAA+TGG - chr4.2:87201522-87201541 None:intergenic 35.0%
! TCTTCTTCCTTCTCTTTTCT+TGG + chr4.2:87201316-87201335 MS.gene33418:CDS 35.0%
! TCTTGCAAATCTAAAACGTC+CGG - chr4.2:87201781-87201800 None:intergenic 35.0%
!! GAAAAAAGTGAGGAAGTGTT+GGG - chr4.2:87201298-87201317 None:intergenic 35.0%
!! GGATGAGTTTAGTTTGTTCA+TGG + chr4.2:87201647-87201666 MS.gene33418:CDS 35.0%
GGTACAACTGTAACTGAAGT+AGG - chr4.2:87201495-87201514 None:intergenic 40.0%
GTTAGGGAAATGCCTATTGT+TGG + chr4.2:87201750-87201769 MS.gene33418:CDS 40.0%
! GTGTTTAGCTTCAATGGTAG+TGG - chr4.2:87201516-87201535 None:intergenic 40.0%
! TTTTGGCATGACATCATGAG+TGG + chr4.2:87201462-87201481 MS.gene33418:CDS 40.0%
!! AAGCTTGTTGGAAAAGCTCA+AGG + chr4.2:87201603-87201622 MS.gene33418:CDS 40.0%
!! AGCTTGTTGGAAAAGCTCAA+GGG + chr4.2:87201604-87201623 MS.gene33418:CDS 40.0%
!! GGACGTTTTAGATTTGCAAG+AGG + chr4.2:87201780-87201799 MS.gene33418:CDS 40.0%
AGGGAAATGCCTATTGTTGG+TGG + chr4.2:87201753-87201772 MS.gene33418:CDS 45.0%
!! AAAGTGAGGAAGTGTTGGGT+AGG - chr4.2:87201294-87201313 None:intergenic 45.0%
!! ATGCCTATTGTTGGTGGTAC+CGG + chr4.2:87201759-87201778 MS.gene33418:CDS 45.0%
CGTCCGGTACCACCAACAAT+AGG - chr4.2:87201765-87201784 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 87201288 87201887 87201288 ID=MS.gene33418
chr4.2 mRNA 87201288 87201887 87201288 ID=MS.gene33418.t1;Parent=MS.gene33418
chr4.2 exon 87201288 87201887 87201288 ID=MS.gene33418.t1.exon1;Parent=MS.gene33418.t1
chr4.2 CDS 87201288 87201887 87201288 ID=cds.MS.gene33418.t1;Parent=MS.gene33418.t1
Gene Sequence

>MS.gene33418

ATGCCTACCCAACACTTCCTCACTTTTTTCTTCTTCCTTCTCTTTTCTTGGAACATTCTCACTTCAACTTCATCACCGTCATTTGAAAAAGAAGAAACTTATGATTTTGTTCGTTCAATAGACCCAAAATTGTTACACCTAAACAACAAAGAAAAACTAAGTCATTTCAGATTCTTTTGGCATGACATCATGAGTGGAAAAAACCCTACTTCAGTTACAGTTGTACCACTACCATTGAAGCTAAACACAAGTACTTCTTTTGGTTTAGTCAACATTATTGACAACCCTTTAACTTTAGGACCAAAAATGAGTTCTAAGCTTGTTGGAAAAGCTCAAGGGTTCTATGCATCTACATCAAAGGATGAGTTTAGTTTGTTCATGGCTATGACTTTTGCTTTCATTGAAGGAAAGTATAATGGTAGTACCATTACTATCTTGGGGAGAAATTCTGCTCTTAATAAGGTTAGGGAAATGCCTATTGTTGGTGGTACCGGACGTTTTAGATTTGCAAGAGGCTATGCTCAAACTAAAACTTATCAATATGATACCAATTCTCAAGATACTACTGTTGAGTACAATGTTTATGTTTTTTACTATTGA
Protein sequence

>MS.gene33418.t1

MPTQHFLTFFFFLLFSWNILTSTSSPSFEKEETYDFVRSIDPKLLHLNNKEKLSHFRFFWHDIMSGKNPTSVTVVPLPLKLNTSTSFGLVNIIDNPLTLGPKMSSKLVGKAQGFYASTSKDEFSLFMAMTFAFIEGKYNGSTITILGRNSALNKVREMPIVGGTGRFRFARGYAQTKTYQYDTNSQDTTVEYNVYVFYY