AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33681

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33681.t1 MTR_4g013350 95.455 198 8 1 1 198 1 197 1.61e-137 382
MS.gene33681.t1 MTR_4g013345 89.617 183 18 1 16 198 15 196 7.34e-122 343
MS.gene33681.t1 MTR_4g013330 83.152 184 29 1 17 198 16 199 6.20e-117 330
MS.gene33681.t1 MTR_4g013335 79.293 198 39 1 1 198 1 196 4.94e-112 318
MS.gene33681.t1 MTR_4g013320 78.261 184 38 1 17 198 16 199 1.81e-109 311
MS.gene33681.t1 MTR_4g013310 67.000 200 61 3 1 198 1 197 3.19e-92 268
MS.gene33681.t1 MTR_4g013325 75.622 201 44 3 1 198 1 199 5.66e-92 267
MS.gene33681.t1 MTR_7g070390 66.495 194 61 3 6 198 2 192 2.43e-82 243
MS.gene33681.t1 MTR_4g013385 60.317 189 69 3 10 198 8 190 4.61e-77 229
MS.gene33681.t1 MTR_0433s0040 60.317 189 69 3 10 198 8 190 4.61e-77 229
MS.gene33681.t1 MTR_4g013770 62.353 170 61 2 30 198 24 191 5.71e-70 211
MS.gene33681.t1 MTR_1g054525 56.633 196 75 3 3 198 7 192 8.09e-70 211
MS.gene33681.t1 MTR_4g013355 54.497 189 71 3 10 198 6 179 9.80e-65 197
MS.gene33681.t1 MTR_4g073950 55.921 152 66 1 48 198 41 192 7.24e-61 188
MS.gene33681.t1 MTR_7g093850 50.000 186 90 3 14 198 11 194 9.56e-59 183
MS.gene33681.t1 MTR_7g093820 50.000 186 90 3 14 198 11 194 1.43e-58 182
MS.gene33681.t1 MTR_7g093830 47.849 186 94 3 14 198 10 193 2.69e-57 179
MS.gene33681.t1 MTR_7g093790 48.795 166 83 2 34 198 27 191 2.79e-57 179
MS.gene33681.t1 MTR_7g093870 53.846 156 67 2 48 198 38 193 6.32e-55 174
MS.gene33681.t1 MTR_3g105640 48.447 161 81 2 40 198 28 188 4.44e-48 155
MS.gene33681.t1 MTR_1g056370 49.669 151 74 2 48 197 36 185 5.43e-48 155
MS.gene33681.t1 MTR_3g105630 42.487 193 100 3 9 198 5 189 8.80e-47 152
MS.gene33681.t1 MTR_4g078885 46.980 149 77 1 50 198 39 185 2.07e-44 146
MS.gene33681.t1 MTR_3g034030 47.651 149 76 1 50 198 39 185 4.57e-44 145
MS.gene33681.t1 MTR_5g096120 44.231 156 75 3 51 198 38 189 1.12e-40 137
MS.gene33681.t1 MTR_4g122110 36.620 142 90 0 57 198 39 180 9.61e-28 103
MS.gene33681.t1 MTR_4g122130 35.915 142 91 0 57 198 39 180 4.47e-25 96.7
MS.gene33681.t1 MTR_4g049550 31.293 147 101 0 47 193 27 173 4.37e-18 78.2
MS.gene33681.t1 MTR_4g049570 30.769 143 99 0 51 193 31 173 3.97e-17 75.9
MS.gene33681.t1 MTR_8g099115 33.088 136 82 3 50 177 34 168 1.42e-15 72.0
MS.gene33681.t1 MTR_8g099135 34.091 132 70 4 58 177 38 164 1.98e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33681.t1 AT1G55210 60.317 189 70 2 10 198 4 187 7.27e-80 236
MS.gene33681.t1 AT1G55210 60.317 189 70 2 10 198 4 187 7.27e-80 236
MS.gene33681.t1 AT1G58170 56.915 188 70 2 13 198 7 185 2.00e-74 222
MS.gene33681.t1 AT5G49040 53.403 191 89 0 8 198 1 191 5.64e-74 221
MS.gene33681.t1 AT3G13650 51.832 191 87 3 8 198 1 186 7.51e-67 203
MS.gene33681.t1 AT5G49030 53.107 177 83 0 8 184 1 177 1.98e-58 197
MS.gene33681.t1 AT1G65870 52.318 151 72 0 47 197 39 189 9.57e-56 175
MS.gene33681.t1 AT2G21100 52.349 149 71 0 49 197 39 187 1.23e-54 172
MS.gene33681.t1 AT2G21100 52.349 149 71 0 49 197 39 187 1.23e-54 172
MS.gene33681.t1 AT3G13662 54.362 149 65 1 37 185 27 172 6.35e-53 167
MS.gene33681.t1 AT3G13660 63.559 118 43 0 81 198 8 125 7.31e-51 160
MS.gene33681.t1 AT1G22900 50.993 151 72 1 47 197 45 193 3.06e-50 161
MS.gene33681.t1 AT5G42500 48.344 151 74 2 48 197 38 185 3.78e-47 153
MS.gene33681.t1 AT5G42510 47.020 151 76 2 48 197 35 182 4.21e-46 150
MS.gene33681.t1 AT4G38700 44.872 156 80 3 49 198 35 190 1.49e-40 136
MS.gene33681.t1 AT3G58090 51.818 110 53 0 88 197 162 271 1.72e-37 131
MS.gene33681.t1 AT2G21110 38.235 170 95 2 33 198 23 186 2.04e-37 128
MS.gene33681.t1 AT4G11210 28.729 181 114 4 1 181 1 166 3.18e-16 73.6
MS.gene33681.t1 AT4G23690 36.364 132 77 3 46 173 34 162 4.86e-16 73.2
MS.gene33681.t1 AT4G11180 29.703 202 118 7 1 197 1 183 1.09e-11 61.2

Find 36 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTCTGGTCCTAAAGTTAA+AGG 0.191161 4.3:-84174873 None:intergenic
CATTGGATTGATTTCAAAAC+TGG 0.225984 4.3:+84175122 MS.gene33681:CDS
ATTGACAACCCTTTAACTTT+AGG 0.265955 4.3:+84174864 MS.gene33681:CDS
TTCATTGAAGGAAAGTATAA+TGG 0.275934 4.3:+84174984 MS.gene33681:CDS
GTAAATTCAACCACTGCTTT+TGG 0.313845 4.3:+84174828 MS.gene33681:CDS
CCAATAGATCGCAAGTTGTT+AGG 0.329140 4.3:+84174702 MS.gene33681:CDS
CCTAACAACTTGCGATCTAT+TGG 0.333660 4.3:-84174702 None:intergenic
TAAGTCATTTCAGATTCTAT+TGG 0.351815 4.3:+84174745 MS.gene33681:CDS
GAGGAATCCTGCTATTAATA+TGG 0.364770 4.3:+84175028 MS.gene33681:CDS
ATGCCTGTTGTTGGTGGTAG+TGG 0.375988 4.3:+84175059 MS.gene33681:CDS
GAACTGAGTTCTAAACTTGT+TGG 0.385159 4.3:+84174891 MS.gene33681:CDS
GGGAGTACTCTTACTATTGT+AGG 0.399599 4.3:+84175005 MS.gene33681:CDS
GTTCTGGTCCTAAAGTTAAA+GGG 0.426776 4.3:-84174872 None:intergenic
ACAAGTTTAGAACTCAGTTC+TGG 0.427865 4.3:-84174888 None:intergenic
GGAACAATTGCAACCGAAGT+TGG 0.428664 4.3:-84174792 None:intergenic
TCATTGAAGGAAAGTATAAT+GGG 0.435892 4.3:+84174985 MS.gene33681:CDS
ACAAAGTCATGATGAAATGT+TGG 0.438715 4.3:-84174599 None:intergenic
ATCCTGCTATTAATATGGTT+AGG 0.453886 4.3:+84175033 MS.gene33681:CDS
ATGCTCAAGCTAATACTCAT+TGG 0.456460 4.3:+84175105 MS.gene33681:CDS
CAAAGTCATGATGAAATGTT+GGG 0.470092 4.3:-84174598 None:intergenic
AAACTTGTTGGAAGAGCTCA+AGG 0.479877 4.3:+84174903 MS.gene33681:CDS
ATTCTATGCATCTGCATCAC+AGG 0.484694 4.3:+84174926 MS.gene33681:CDS
TCCTGCTATTAATATGGTTA+GGG 0.491633 4.3:+84175034 MS.gene33681:CDS
GTTAGGGAGATGCCTGTTGT+TGG 0.492441 4.3:+84175050 MS.gene33681:CDS
AGTCCACTACCACCAACAAC+AGG 0.512977 4.3:-84175062 None:intergenic
AGGGAGATGCCTGTTGTTGG+TGG 0.521357 4.3:+84175053 MS.gene33681:CDS
GGAGTACTCTTACTATTGTA+GGG 0.530187 4.3:+84175006 MS.gene33681:CDS
TATTGGCATGATATCTTGAG+TGG 0.535975 4.3:+84174762 MS.gene33681:CDS
TCCCTAACCATATTAATAGC+AGG 0.536411 4.3:-84175035 None:intergenic
TCTGCATCACAGGAAGAACT+AGG 0.571860 4.3:+84174936 MS.gene33681:CDS
GTCATGATGAAATGTTGGGA+AGG 0.583236 4.3:-84174594 None:intergenic
ATTGGATTGATTTCAAAACT+GGG 0.602248 4.3:+84175123 MS.gene33681:CDS
TTGGATTGATTTCAAAACTG+GGG 0.621102 4.3:+84175124 MS.gene33681:CDS
GTGTGTTGCAAGATATGAGA+AGG 0.624292 4.3:-84174629 None:intergenic
GTTGACTAAACCAAAAGCAG+TGG 0.670239 4.3:-84174838 None:intergenic
GTACTCTTACTATTGTAGGG+AGG 0.687219 4.3:+84175009 MS.gene33681:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TAAGTCATTTCAGATTCTAT+TGG + chr4.3:84174745-84174764 MS.gene33681:CDS 25.0%
!! ATGAATTTTGCTTTCATTGA+AGG + chr4.3:84174972-84174991 MS.gene33681:CDS 25.0%
!! ATTGGATTGATTTCAAAACT+GGG + chr4.3:84175123-84175142 MS.gene33681:CDS 25.0%
!! TCATTGAAGGAAAGTATAAT+GGG + chr4.3:84174985-84175004 MS.gene33681:CDS 25.0%
!! TTCATTGAAGGAAAGTATAA+TGG + chr4.3:84174984-84175003 MS.gene33681:CDS 25.0%
!!! GTTGAATTTACTTTTGATGA+TGG - chr4.3:84174819-84174838 None:intergenic 25.0%
ACAAAGTCATGATGAAATGT+TGG - chr4.3:84174602-84174621 None:intergenic 30.0%
ATCCTGCTATTAATATGGTT+AGG + chr4.3:84175033-84175052 MS.gene33681:CDS 30.0%
CAAAGTCATGATGAAATGTT+GGG - chr4.3:84174601-84174620 None:intergenic 30.0%
TCCTGCTATTAATATGGTTA+GGG + chr4.3:84175034-84175053 MS.gene33681:CDS 30.0%
! ATTGACAACCCTTTAACTTT+AGG + chr4.3:84174864-84174883 MS.gene33681:CDS 30.0%
! CATTGGATTGATTTCAAAAC+TGG + chr4.3:84175122-84175141 MS.gene33681:CDS 30.0%
! TTGGATTGATTTCAAAACTG+GGG + chr4.3:84175124-84175143 MS.gene33681:CDS 30.0%
!!! GAATTTACTTTTGATGATGG+TGG - chr4.3:84174816-84174835 None:intergenic 30.0%
ATGCTCAAGCTAATACTCAT+TGG + chr4.3:84175105-84175124 MS.gene33681:CDS 35.0%
GAGGAATCCTGCTATTAATA+TGG + chr4.3:84175028-84175047 MS.gene33681:CDS 35.0%
GAGTGGAAAAAATCCAACTT+CGG + chr4.3:84174779-84174798 MS.gene33681:CDS 35.0%
GTTCTGGTCCTAAAGTTAAA+GGG - chr4.3:84174875-84174894 None:intergenic 35.0%
TATTGGCATGATATCTTGAG+TGG + chr4.3:84174762-84174781 MS.gene33681:CDS 35.0%
TCCCTAACCATATTAATAGC+AGG - chr4.3:84175038-84175057 None:intergenic 35.0%
! ACAAGTTTAGAACTCAGTTC+TGG - chr4.3:84174891-84174910 None:intergenic 35.0%
! AGTTCTGGTCCTAAAGTTAA+AGG - chr4.3:84174876-84174895 None:intergenic 35.0%
! GGAGTACTCTTACTATTGTA+GGG + chr4.3:84175006-84175025 MS.gene33681:CDS 35.0%
! GTAAATTCAACCACTGCTTT+TGG + chr4.3:84174828-84174847 MS.gene33681:CDS 35.0%
!! GAACTGAGTTCTAAACTTGT+TGG + chr4.3:84174891-84174910 MS.gene33681:CDS 35.0%
ATTCTATGCATCTGCATCAC+AGG + chr4.3:84174926-84174945 MS.gene33681:CDS 40.0%
CCAATAGATCGCAAGTTGTT+AGG + chr4.3:84174702-84174721 MS.gene33681:CDS 40.0%
CCTAACAACTTGCGATCTAT+TGG - chr4.3:84174705-84174724 None:intergenic 40.0%
GTACTCTTACTATTGTAGGG+AGG + chr4.3:84175009-84175028 MS.gene33681:CDS 40.0%
GTCATGATGAAATGTTGGGA+AGG - chr4.3:84174597-84174616 None:intergenic 40.0%
GTGTGTTGCAAGATATGAGA+AGG - chr4.3:84174632-84174651 None:intergenic 40.0%
GTTGACTAAACCAAAAGCAG+TGG - chr4.3:84174841-84174860 None:intergenic 40.0%
!! AAACTTGTTGGAAGAGCTCA+AGG + chr4.3:84174903-84174922 MS.gene33681:CDS 40.0%
!! GGGAGTACTCTTACTATTGT+AGG + chr4.3:84175005-84175024 MS.gene33681:CDS 40.0%
!!! GGACTTTTCAGATTTGCTAG+AGG + chr4.3:84175080-84175099 MS.gene33681:CDS 40.0%
GGAACAATTGCAACCGAAGT+TGG - chr4.3:84174795-84174814 None:intergenic 45.0%
TCTGCATCACAGGAAGAACT+AGG + chr4.3:84174936-84174955 MS.gene33681:CDS 45.0%
AGTCCACTACCACCAACAAC+AGG - chr4.3:84175065-84175084 None:intergenic 50.0%
GTTAGGGAGATGCCTGTTGT+TGG + chr4.3:84175050-84175069 MS.gene33681:CDS 50.0%
!! ATGCCTGTTGTTGGTGGTAG+TGG + chr4.3:84175059-84175078 MS.gene33681:CDS 50.0%
AGGGAGATGCCTGTTGTTGG+TGG + chr4.3:84175053-84175072 MS.gene33681:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 84174591 84175187 84174591 ID=MS.gene33681
chr4.3 mRNA 84174591 84175187 84174591 ID=MS.gene33681.t1;Parent=MS.gene33681
chr4.3 exon 84174591 84175187 84174591 ID=MS.gene33681.t1.exon1;Parent=MS.gene33681.t1
chr4.3 CDS 84174591 84175187 84174591 ID=cds.MS.gene33681.t1;Parent=MS.gene33681.t1
Gene Sequence

>MS.gene33681

ATGCCTTCCCAACATTTCATCATGACTTTGTTCTTCTTCCTTCTCATATCTTGCAACACACTCACTGCTTCAACTTCGTCAGAAAAGCAAGACACTTTCGATTTTGTTCGTCCAATAGATCGCAAGTTGTTAGGCTTAAACAAGAAAGAAAAGCTAAGTCATTTCAGATTCTATTGGCATGATATCTTGAGTGGAAAAAATCCAACTTCGGTTGCAATTGTTCCACCATCATCAAAAGTAAATTCAACCACTGCTTTTGGTTTAGTCAACATGATTGACAACCCTTTAACTTTAGGACCAGAACTGAGTTCTAAACTTGTTGGAAGAGCTCAAGGATTCTATGCATCTGCATCACAGGAAGAACTAGGTTTTCTTATGACAATGAATTTTGCTTTCATTGAAGGAAAGTATAATGGGAGTACTCTTACTATTGTAGGGAGGAATCCTGCTATTAATATGGTTAGGGAGATGCCTGTTGTTGGTGGTAGTGGACTTTTCAGATTTGCTAGAGGATATGCTCAAGCTAATACTCATTGGATTGATTTCAAAACTGGGGATGCTTGTGTTGAGTACAATGTCCATGTTTTTCACTATTGA
Protein sequence

>MS.gene33681.t1

MPSQHFIMTLFFFLLISCNTLTASTSSEKQDTFDFVRPIDRKLLGLNKKEKLSHFRFYWHDILSGKNPTSVAIVPPSSKVNSTTAFGLVNMIDNPLTLGPELSSKLVGRAQGFYASASQEELGFLMTMNFAFIEGKYNGSTLTIVGRNPAINMVREMPVVGGSGLFRFARGYAQANTHWIDFKTGDACVEYNVHVFHY