AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33676

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33676.t1 MTR_4g013320 94.000 200 11 1 1 200 1 199 1.36e-131 367
MS.gene33676.t1 MTR_4g013350 76.500 200 44 2 1 200 1 197 1.87e-108 309
MS.gene33676.t1 MTR_4g013345 76.500 200 43 2 1 200 1 196 1.17e-106 304
MS.gene33676.t1 MTR_4g013330 78.109 201 41 2 1 200 1 199 1.18e-106 305
MS.gene33676.t1 MTR_4g013335 70.270 185 50 2 16 200 17 196 2.18e-97 281
MS.gene33676.t1 MTR_4g013310 72.000 200 53 2 1 200 1 197 2.78e-97 281
MS.gene33676.t1 MTR_4g013325 71.642 201 54 3 1 200 1 199 6.16e-91 265
MS.gene33676.t1 MTR_7g070390 70.349 172 48 2 30 200 23 192 1.81e-78 233
MS.gene33676.t1 MTR_4g013385 57.812 192 72 3 9 200 8 190 1.00e-73 221
MS.gene33676.t1 MTR_0433s0040 57.812 192 72 3 9 200 8 190 1.00e-73 221
MS.gene33676.t1 MTR_1g054525 53.977 176 78 2 25 200 20 192 4.32e-65 199
MS.gene33676.t1 MTR_4g013770 56.471 170 72 1 31 200 24 191 2.80e-64 197
MS.gene33676.t1 MTR_4g013355 51.562 192 75 5 9 200 6 179 4.42e-59 183
MS.gene33676.t1 MTR_4g073950 53.289 152 71 0 49 200 41 192 1.50e-56 177
MS.gene33676.t1 MTR_7g093820 47.619 189 93 5 13 200 11 194 6.91e-53 168
MS.gene33676.t1 MTR_7g093850 47.090 189 94 5 13 200 11 194 1.09e-52 167
MS.gene33676.t1 MTR_7g093790 47.904 167 84 3 35 200 27 191 1.64e-52 167
MS.gene33676.t1 MTR_7g093870 52.564 156 70 2 49 200 38 193 3.05e-52 167
MS.gene33676.t1 MTR_7g093830 45.503 189 97 5 13 200 10 193 9.54e-52 165
MS.gene33676.t1 MTR_1g056370 50.327 153 70 3 51 199 35 185 1.17e-47 154
MS.gene33676.t1 MTR_3g105640 45.342 161 87 1 41 200 28 188 3.15e-45 148
MS.gene33676.t1 MTR_4g078885 45.695 151 79 1 50 200 38 185 1.04e-42 142
MS.gene33676.t1 MTR_3g034030 45.695 151 79 1 50 200 38 185 2.28e-42 141
MS.gene33676.t1 MTR_3g105630 43.396 159 88 2 44 200 31 189 1.34e-40 136
MS.gene33676.t1 MTR_5g096120 40.127 157 81 3 52 200 38 189 5.30e-36 125
MS.gene33676.t1 MTR_4g122110 37.415 147 91 1 54 200 35 180 2.25e-26 100
MS.gene33676.t1 MTR_4g122130 37.762 143 88 1 58 200 39 180 7.41e-25 95.9
MS.gene33676.t1 MTR_4g013340 40.625 96 22 1 105 200 78 138 2.90e-17 75.1
MS.gene33676.t1 MTR_4g049550 30.263 152 97 2 48 195 27 173 5.35e-17 75.5
MS.gene33676.t1 MTR_4g049570 30.405 148 94 2 52 195 31 173 1.86e-16 73.9
MS.gene33676.t1 MTR_8g099135 33.333 132 80 3 59 183 38 168 3.31e-16 73.6
MS.gene33676.t1 MTR_8g099115 30.714 140 89 3 51 183 34 172 2.10e-15 71.2
MS.gene33676.t1 MTR_8g073850 31.250 144 93 4 55 196 42 181 4.17e-13 65.5
MS.gene33676.t1 MTR_8g073770 31.250 144 93 4 55 196 42 181 4.62e-13 65.1
MS.gene33676.t1 MTR_1g115510 33.607 122 68 4 88 199 235 353 2.84e-12 64.7
MS.gene33676.t1 MTR_4g062520 38.889 90 51 3 88 175 187 274 5.68e-11 60.8
MS.gene33676.t1 MTR_4g062470 38.889 90 51 3 88 175 188 275 5.76e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33676.t1 AT1G55210 62.651 166 58 1 35 200 26 187 1.94e-75 225
MS.gene33676.t1 AT1G55210 62.651 166 58 1 35 200 26 187 1.94e-75 225
MS.gene33676.t1 AT5G49040 54.211 190 85 2 11 200 4 191 4.98e-72 216
MS.gene33676.t1 AT1G58170 62.092 153 57 1 48 200 34 185 9.71e-72 216
MS.gene33676.t1 AT3G13650 52.632 190 83 3 11 200 4 186 6.79e-67 203
MS.gene33676.t1 AT5G49030 53.371 178 79 2 9 186 4 177 1.49e-55 189
MS.gene33676.t1 AT3G13662 56.000 150 62 2 38 187 27 172 1.85e-54 171
MS.gene33676.t1 AT2G21100 53.333 150 69 1 50 199 39 187 2.53e-53 169
MS.gene33676.t1 AT2G21100 53.333 150 69 1 50 199 39 187 2.53e-53 169
MS.gene33676.t1 AT1G65870 49.342 152 76 1 48 199 39 189 6.85e-53 168
MS.gene33676.t1 AT3G13660 65.254 118 41 0 83 200 8 125 1.34e-51 162
MS.gene33676.t1 AT1G22900 48.684 152 75 2 48 199 45 193 8.75e-46 150
MS.gene33676.t1 AT5G42510 48.026 152 74 3 49 199 35 182 3.79e-44 145
MS.gene33676.t1 AT5G42500 42.775 173 91 3 27 199 21 185 6.32e-44 145
MS.gene33676.t1 AT4G38700 45.912 159 80 4 47 200 33 190 3.38e-41 138
MS.gene33676.t1 AT2G21110 40.698 172 93 2 32 200 21 186 4.30e-38 130
MS.gene33676.t1 AT3G58090 53.211 109 51 0 91 199 163 271 1.01e-37 132
MS.gene33676.t1 AT4G23690 33.571 140 85 3 47 182 34 169 6.20e-16 72.8
MS.gene33676.t1 AT4G11210 27.841 176 114 3 8 183 4 166 4.43e-14 67.8
MS.gene33676.t1 AT1G64160 28.571 140 92 3 48 183 30 165 1.07e-13 66.6

Find 39 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGCATCACAAGATGATTT+TGG 0.206525 4.3:+84207397 MS.gene33676:CDS
TTTGATGACCCTTTGACTTT+AGG 0.248779 4.3:+84207325 MS.gene33676:CDS
ACTATCTTGGGGAGGAATTC+TGG 0.259975 4.3:+84207478 MS.gene33676:CDS
CAACAAGCTTAGAACTCAAT+TGG 0.313870 4.3:-84207351 None:intergenic
ATAAACACAACCACTTCTTT+TGG 0.334067 4.3:+84207289 MS.gene33676:CDS
CATTGGTTTGATCTCAAAAC+TGG 0.336336 4.3:+84207583 MS.gene33676:CDS
TGAGAGTACTATTACTATCT+TGG 0.339355 4.3:+84207465 MS.gene33676:CDS
CAATTGAGTTCTAAGCTTGT+TGG 0.346083 4.3:+84207352 MS.gene33676:CDS
CCTAACAACTTGCGGTCTAT+TGG 0.349675 4.3:-84207160 None:intergenic
GAGGAATTCTGGTATTAATA+AGG 0.355147 4.3:+84207489 MS.gene33676:CDS
CCAATAGACCGCAAGTTGTT+AGG 0.362080 4.3:+84207160 MS.gene33676:CDS
TAAGTCACTTCAGATTCTAT+TGG 0.373289 4.3:+84207203 MS.gene33676:CDS
GAGAGTACTATTACTATCTT+GGG 0.382670 4.3:+84207466 MS.gene33676:CDS
AACAAGCTTAGAACTCAATT+GGG 0.402997 4.3:-84207350 None:intergenic
AAGTGAGAGTGTTGCAAGAG+AGG 0.407219 4.3:-84207087 None:intergenic
ATGCCAATAGTTGGTGGTAG+TGG 0.428780 4.3:+84207520 MS.gene33676:CDS
ATGCTAAAGCTACTACTCAT+TGG 0.447261 4.3:+84207566 MS.gene33676:CDS
AGTCCACTACCACCAACTAT+TGG 0.457800 4.3:-84207523 None:intergenic
GAGTGTTGCAAGAGAGGAGA+AGG 0.459092 4.3:-84207081 None:intergenic
AGAACAAATTGAGAAAATGA+TGG 0.464684 4.3:-84207054 None:intergenic
GGAACAATTGTTATTGCAGT+GGG 0.508564 4.3:-84207250 None:intergenic
AAGCTTGTTGGAAAAGCTCA+AGG 0.509980 4.3:+84207364 MS.gene33676:CDS
GTTGTGTTTATAAACTTCAA+TGG 0.515154 4.3:-84207277 None:intergenic
CGTTTAGGCCTAACAACTTG+CGG 0.520020 4.3:-84207168 None:intergenic
TTTATAAACTTCAATGGTGG+TGG 0.522057 4.3:-84207271 None:intergenic
GAACAAATTGAGAAAATGAT+GGG 0.523672 4.3:-84207053 None:intergenic
AATTGGGGTCCTAAAGTCAA+AGG 0.527872 4.3:-84207334 None:intergenic
TGGAACAATTGTTATTGCAG+TGG 0.544715 4.3:-84207251 None:intergenic
TATTGGCATGACATCTTGAG+TGG 0.547551 4.3:+84207220 MS.gene33676:CDS
GCTAGAGAGATGCCAATAGT+TGG 0.553289 4.3:+84207511 MS.gene33676:CDS
ATTGGGGTCCTAAAGTCAAA+GGG 0.594373 4.3:-84207333 None:intergenic
AGAGAGATGCCAATAGTTGG+TGG 0.597518 4.3:+84207514 MS.gene33676:CDS
GTTGATTGAACCAAAAGAAG+TGG 0.598684 4.3:-84207299 None:intergenic
ATAAACATTGTACTCAACAA+TGG 0.615275 4.3:-84207611 None:intergenic
GTGTTTATAAACTTCAATGG+TGG 0.627180 4.3:-84207274 None:intergenic
GTACTATTACTATCTTGGGG+AGG 0.673978 4.3:+84207470 MS.gene33676:CDS
ACAAGCTTAGAACTCAATTG+GGG 0.691901 4.3:-84207349 None:intergenic
GAACAATTGTTATTGCAGTG+GGG 0.694795 4.3:-84207249 None:intergenic
AGAGTACTATTACTATCTTG+GGG 0.700411 4.3:+84207467 MS.gene33676:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAACAAATTGAGAAAATGA+TGG - chr4.3:84207057-84207076 None:intergenic 25.0%
! ATAAACATTGTACTCAACAA+TGG - chr4.3:84207614-84207633 None:intergenic 25.0%
! GAACAAATTGAGAAAATGAT+GGG - chr4.3:84207056-84207075 None:intergenic 25.0%
! GTTGTGTTTATAAACTTCAA+TGG - chr4.3:84207280-84207299 None:intergenic 25.0%
!! ATGAATTTTGCTTTCATTGA+AGG + chr4.3:84207433-84207452 MS.gene33676:CDS 25.0%
!!! TTAGTTTTTCTTTCTCGTTT+AGG - chr4.3:84207186-84207205 None:intergenic 25.0%
AACAAGCTTAGAACTCAATT+GGG - chr4.3:84207353-84207372 None:intergenic 30.0%
GAGGAATTCTGGTATTAATA+AGG + chr4.3:84207489-84207508 MS.gene33676:CDS 30.0%
GTGTTTATAAACTTCAATGG+TGG - chr4.3:84207277-84207296 None:intergenic 30.0%
TAAGTCACTTCAGATTCTAT+TGG + chr4.3:84207203-84207222 MS.gene33676:CDS 30.0%
TTTATAAACTTCAATGGTGG+TGG - chr4.3:84207274-84207293 None:intergenic 30.0%
! AGAGTACTATTACTATCTTG+GGG + chr4.3:84207467-84207486 MS.gene33676:CDS 30.0%
! ATAAACACAACCACTTCTTT+TGG + chr4.3:84207289-84207308 MS.gene33676:CDS 30.0%
!! GAGAGTACTATTACTATCTT+GGG + chr4.3:84207466-84207485 MS.gene33676:CDS 30.0%
!! TGAGAGTACTATTACTATCT+TGG + chr4.3:84207465-84207484 MS.gene33676:CDS 30.0%
!!! AGATGATTTTGGTTTTCTCA+TGG + chr4.3:84207408-84207427 MS.gene33676:CDS 30.0%
ACAAGCTTAGAACTCAATTG+GGG - chr4.3:84207352-84207371 None:intergenic 35.0%
ATGCTAAAGCTACTACTCAT+TGG + chr4.3:84207566-84207585 MS.gene33676:CDS 35.0%
CAACAAGCTTAGAACTCAAT+TGG - chr4.3:84207354-84207373 None:intergenic 35.0%
GTTGATTGAACCAAAAGAAG+TGG - chr4.3:84207302-84207321 None:intergenic 35.0%
! GAACAATTGTTATTGCAGTG+GGG - chr4.3:84207252-84207271 None:intergenic 35.0%
! GGAACAATTGTTATTGCAGT+GGG - chr4.3:84207253-84207272 None:intergenic 35.0%
! TCTGCATCACAAGATGATTT+TGG + chr4.3:84207397-84207416 MS.gene33676:CDS 35.0%
! TGGAACAATTGTTATTGCAG+TGG - chr4.3:84207254-84207273 None:intergenic 35.0%
! TTTGATGACCCTTTGACTTT+AGG + chr4.3:84207325-84207344 MS.gene33676:CDS 35.0%
!! CAATTGAGTTCTAAGCTTGT+TGG + chr4.3:84207352-84207371 MS.gene33676:CDS 35.0%
!! CATTGGTTTGATCTCAAAAC+TGG + chr4.3:84207583-84207602 MS.gene33676:CDS 35.0%
!!! GACTTTTCAGATTTGCTAGA+GGG + chr4.3:84207542-84207561 MS.gene33676:CDS 35.0%
AATTGGGGTCCTAAAGTCAA+AGG - chr4.3:84207337-84207356 None:intergenic 40.0%
ATTGGGGTCCTAAAGTCAAA+GGG - chr4.3:84207336-84207355 None:intergenic 40.0%
GTACTATTACTATCTTGGGG+AGG + chr4.3:84207470-84207489 MS.gene33676:CDS 40.0%
TATTGGCATGACATCTTGAG+TGG + chr4.3:84207220-84207239 MS.gene33676:CDS 40.0%
!! AAGCTTGTTGGAAAAGCTCA+AGG + chr4.3:84207364-84207383 MS.gene33676:CDS 40.0%
!!! GGACTTTTCAGATTTGCTAG+AGG + chr4.3:84207541-84207560 MS.gene33676:CDS 40.0%
ACTATCTTGGGGAGGAATTC+TGG + chr4.3:84207478-84207497 MS.gene33676:CDS 45.0%
AGAGAGATGCCAATAGTTGG+TGG + chr4.3:84207514-84207533 MS.gene33676:CDS 45.0%
AGTCCACTACCACCAACTAT+TGG - chr4.3:84207526-84207545 None:intergenic 45.0%
CCAATAGACCGCAAGTTGTT+AGG + chr4.3:84207160-84207179 MS.gene33676:CDS 45.0%
CCTAACAACTTGCGGTCTAT+TGG - chr4.3:84207163-84207182 None:intergenic 45.0%
CGTTTAGGCCTAACAACTTG+CGG - chr4.3:84207171-84207190 None:intergenic 45.0%
GCTAGAGAGATGCCAATAGT+TGG + chr4.3:84207511-84207530 MS.gene33676:CDS 45.0%
!! AAGTGAGAGTGTTGCAAGAG+AGG - chr4.3:84207090-84207109 None:intergenic 45.0%
!! ATGCCAATAGTTGGTGGTAG+TGG + chr4.3:84207520-84207539 MS.gene33676:CDS 45.0%
! GAGTGTTGCAAGAGAGGAGA+AGG - chr4.3:84207084-84207103 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 84207046 84207648 84207046 ID=MS.gene33676
chr4.3 mRNA 84207046 84207648 84207046 ID=MS.gene33676.t1;Parent=MS.gene33676
chr4.3 exon 84207046 84207648 84207046 ID=MS.gene33676.t1.exon1;Parent=MS.gene33676.t1
chr4.3 CDS 84207046 84207648 84207046 ID=cds.MS.gene33676.t1;Parent=MS.gene33676.t1
Gene Sequence

>MS.gene33676

ATGCTTTCCCATCATTTTCTCAATTTGTTCTTCTTCCTTCTCCTCTCTTGCAACACTCTCACTTCAACTTCATTACAATCTTTAGAAAAACAAGAAACTTTTGATTTTGTTCGTCCAATAGACCGCAAGTTGTTAGGCCTAAACGAGAAAGAAAAACTAAGTCACTTCAGATTCTATTGGCATGACATCTTGAGTGGAAAAAACCCCACTGCAATAACAATTGTTCCACCACCATTGAAGTTTATAAACACAACCACTTCTTTTGGTTCAATCAACATGTTTGATGACCCTTTGACTTTAGGACCCCAATTGAGTTCTAAGCTTGTTGGAAAAGCTCAAGGTTTCTATGCATCTGCATCACAAGATGATTTTGGTTTTCTCATGGCTATGAATTTTGCTTTCATTGAAGGAAAGTATAATGAGAGTACTATTACTATCTTGGGGAGGAATTCTGGTATTAATAAGGCTAGAGAGATGCCAATAGTTGGTGGTAGTGGACTTTTCAGATTTGCTAGAGGGTATGCTAAAGCTACTACTCATTGGTTTGATCTCAAAACTGGAGATGCCATTGTTGAGTACAATGTTTATGTTTTTCACTATTGA
Protein sequence

>MS.gene33676.t1

MLSHHFLNLFFFLLLSCNTLTSTSLQSLEKQETFDFVRPIDRKLLGLNEKEKLSHFRFYWHDILSGKNPTAITIVPPPLKFINTTTSFGSINMFDDPLTLGPQLSSKLVGKAQGFYASASQDDFGFLMAMNFAFIEGKYNESTITILGRNSGINKAREMPIVGGSGLFRFARGYAKATTHWFDLKTGDAIVEYNVYVFHY