AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene037851

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037851.t1 MTR_8g007300 97.273 220 6 0 1 220 1 220 5.84e-157 433
MS.gene037851.t1 MTR_3g096330 60.294 204 80 1 9 212 560 762 2.81e-79 252
MS.gene037851.t1 MTR_5g036570 45.856 181 93 4 24 201 25 203 8.33e-42 141
MS.gene037851.t1 MTR_1g085500 43.158 190 101 3 25 211 22 207 3.03e-38 132
MS.gene037851.t1 MTR_5g046410 38.991 218 117 5 11 214 4 219 1.46e-37 130
MS.gene037851.t1 MTR_5g046430 38.991 218 117 5 11 214 4 219 1.46e-37 130
MS.gene037851.t1 MTR_4g017030 38.991 218 117 5 11 214 4 219 1.46e-37 130
MS.gene037851.t1 MTR_2g019250 39.450 218 116 5 11 214 4 219 2.52e-37 130
MS.gene037851.t1 MTR_4g017040 40.500 200 106 4 26 214 22 219 4.13e-37 129
MS.gene037851.t1 MTR_4g017050 38.532 218 118 5 11 214 4 219 5.12e-37 129
MS.gene037851.t1 MTR_1g060120 36.946 203 121 2 14 211 14 214 2.00e-36 127
MS.gene037851.t1 MTR_7g111240 45.342 161 85 2 25 184 19 177 4.15e-36 126
MS.gene037851.t1 MTR_1g079490 43.210 162 89 1 26 184 22 183 2.23e-35 125
MS.gene037851.t1 MTR_6g005330 37.143 210 123 5 10 216 5 208 1.00e-34 123
MS.gene037851.t1 MTR_7g111240 44.720 161 83 2 25 184 19 174 1.06e-34 123
MS.gene037851.t1 MTR_6g005360 37.824 193 112 4 26 216 22 208 1.14e-33 120
MS.gene037851.t1 MTR_6g005310 37.824 193 112 4 26 216 22 208 1.56e-33 120
MS.gene037851.t1 MTR_6g005340 37.824 193 112 4 26 216 22 208 7.85e-33 118
MS.gene037851.t1 MTR_1g023770 39.216 204 106 4 17 210 13 208 2.21e-32 117
MS.gene037851.t1 MTR_1g085140 38.974 195 101 4 25 203 23 215 3.46e-32 116
MS.gene037851.t1 MTR_2g030855 44.785 163 82 4 25 184 21 178 9.29e-32 115
MS.gene037851.t1 MTR_1g112200 38.182 165 96 1 20 184 17 175 9.39e-31 112
MS.gene037851.t1 MTR_2g041570 36.158 177 102 3 4 179 3 169 2.05e-30 112
MS.gene037851.t1 MTR_2g041580 36.158 177 102 3 4 179 3 169 2.67e-30 111
MS.gene037851.t1 MTR_6g005380 37.313 201 121 3 10 206 5 204 4.61e-30 110
MS.gene037851.t1 MTR_8g020770 46.269 134 69 2 47 178 38 170 1.25e-29 110
MS.gene037851.t1 MTR_2g045100 33.143 175 108 2 5 179 3 168 2.51e-29 108
MS.gene037851.t1 MTR_2g036120 42.105 133 76 1 47 179 37 168 2.82e-29 108
MS.gene037851.t1 MTR_2g041550 35.882 170 100 2 12 180 9 170 3.46e-29 108
MS.gene037851.t1 MTR_2g031270 39.791 191 100 5 30 210 27 212 6.35e-29 108
MS.gene037851.t1 MTR_3g019650 33.491 212 116 5 5 202 3 203 7.01e-28 105
MS.gene037851.t1 MTR_8g020630 30.806 211 124 3 5 202 3 204 9.17e-28 105
MS.gene037851.t1 MTR_8g020590 37.037 135 84 1 47 180 34 168 1.71e-27 104
MS.gene037851.t1 MTR_3g019680 36.158 177 99 4 5 179 3 167 5.46e-27 102
MS.gene037851.t1 MTR_2g019780 31.481 216 116 5 7 202 4 207 1.12e-26 102
MS.gene037851.t1 MTR_6g005350 39.560 182 103 3 26 203 22 200 1.27e-26 102
MS.gene037851.t1 MTR_8g020650 33.136 169 99 2 47 202 37 204 1.27e-26 102
MS.gene037851.t1 MTR_3g019710 39.850 133 79 1 47 179 37 168 2.45e-26 101
MS.gene037851.t1 MTR_8g020763 38.060 134 81 2 47 179 17 149 2.72e-26 100
MS.gene037851.t1 MTR_3g073170 34.911 169 93 3 47 202 41 205 2.97e-26 101
MS.gene037851.t1 MTR_2g030895 43.478 138 74 3 51 184 7 144 3.26e-26 100
MS.gene037851.t1 MTR_0284s0010 36.723 177 99 4 5 179 3 168 4.43e-26 100
MS.gene037851.t1 MTR_2g030865 43.478 138 74 3 51 184 7 144 4.43e-26 99.8
MS.gene037851.t1 MTR_4g010340 36.842 171 94 6 11 179 6 164 8.04e-26 99.8
MS.gene037851.t1 MTR_5g031460 35.252 139 89 1 41 179 31 168 1.00e-25 99.8
MS.gene037851.t1 MTR_7g011340 36.970 165 93 2 47 201 37 200 1.60e-25 99.4
MS.gene037851.t1 MTR_8g020610 33.908 174 106 4 8 180 2 167 2.01e-25 99.0
MS.gene037851.t1 MTR_2g044040 34.483 174 103 3 8 179 4 168 2.99e-25 98.6
MS.gene037851.t1 MTR_8g020750 41.791 134 76 2 47 179 39 171 2.03e-24 96.3
MS.gene037851.t1 MTR_8g020670 31.548 168 101 2 48 202 38 204 2.58e-23 93.6
MS.gene037851.t1 MTR_8g020760 38.346 133 81 1 47 179 39 170 6.88e-23 92.4
MS.gene037851.t1 MTR_2g031300 40.876 137 58 3 51 184 7 123 3.58e-21 86.3
MS.gene037851.t1 MTR_2g086640 39.640 111 64 3 86 194 72 181 2.42e-19 82.8
MS.gene037851.t1 MTR_2g086620 37.615 109 67 1 87 194 74 182 1.37e-18 80.9
MS.gene037851.t1 MTR_2g086630 36.697 109 68 1 87 194 74 182 3.78e-18 79.7
MS.gene037851.t1 MTR_4g052770 37.273 110 68 1 86 194 74 183 9.21e-18 78.6
MS.gene037851.t1 MTR_4g052780 37.273 110 68 1 86 194 74 183 1.58e-17 78.2
MS.gene037851.t1 MTR_4g027415 40.566 106 62 1 48 153 38 142 1.83e-16 73.6
MS.gene037851.t1 MTR_3g019810 33.835 133 81 2 47 179 143 268 1.50e-14 71.6
MS.gene037851.t1 MTR_2g072560 33.058 121 73 1 5 125 3 115 4.64e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037851.t1 AT5G61750 54.054 185 77 2 1 184 1 178 1.71e-66 204
MS.gene037851.t1 AT1G10460 44.375 160 85 3 25 180 18 177 1.77e-38 132
MS.gene037851.t1 AT3G04200 43.713 167 89 3 22 184 23 188 3.41e-37 130
MS.gene037851.t1 AT3G62020 45.161 186 87 5 10 187 6 184 8.21e-37 129
MS.gene037851.t1 AT1G09560 47.239 163 83 2 23 184 21 181 1.01e-36 128
MS.gene037851.t1 AT1G02335 42.262 168 84 3 26 187 24 184 2.63e-36 127
MS.gene037851.t1 AT5G38930 43.976 166 90 2 25 187 25 190 4.92e-35 124
MS.gene037851.t1 AT5G38960 41.463 164 92 2 25 184 25 188 2.38e-34 122
MS.gene037851.t1 AT5G38940 38.947 190 106 3 25 204 25 214 3.77e-34 122
MS.gene037851.t1 AT5G38940 38.947 190 106 3 25 204 49 238 4.42e-34 122
MS.gene037851.t1 AT3G05950 39.894 188 104 4 22 205 22 204 5.04e-34 122
MS.gene037851.t1 AT3G05930 35.616 219 124 4 1 212 1 209 3.95e-33 119
MS.gene037851.t1 AT3G04170 40.642 187 101 4 22 205 22 201 5.32e-33 119
MS.gene037851.t1 AT3G10080 37.368 190 114 2 25 211 25 212 1.25e-32 118
MS.gene037851.t1 AT5G38910 35.714 224 124 6 1 216 1 212 1.85e-32 117
MS.gene037851.t1 AT5G26700 38.947 190 104 4 1 187 1 181 1.94e-32 117
MS.gene037851.t1 AT4G14630 41.143 175 99 2 17 187 17 191 4.12e-32 116
MS.gene037851.t1 AT3G10080 37.368 190 114 2 25 211 96 283 4.32e-32 118
MS.gene037851.t1 AT5G39110 36.735 196 113 4 17 205 12 203 5.10e-32 116
MS.gene037851.t1 AT3G62020 46.358 151 69 3 44 187 10 155 6.35e-32 115
MS.gene037851.t1 AT5G39120 35.961 203 120 4 7 205 6 202 1.01e-31 115
MS.gene037851.t1 AT5G39150 38.043 184 106 3 26 205 23 202 1.85e-31 115
MS.gene037851.t1 AT1G72610 42.537 134 76 1 48 180 35 168 4.19e-31 113
MS.gene037851.t1 AT5G39180 40.491 163 93 2 26 184 23 185 7.99e-31 113
MS.gene037851.t1 AT3G04190 42.500 160 85 4 30 184 30 187 1.25e-30 112
MS.gene037851.t1 AT5G20630 34.783 184 109 5 4 186 3 176 3.83e-30 111
MS.gene037851.t1 AT3G04180 38.587 184 104 4 26 205 26 204 7.52e-30 110
MS.gene037851.t1 AT5G39160 36.082 194 119 3 22 211 20 212 1.27e-29 110
MS.gene037851.t1 AT5G39130 36.598 194 118 3 22 211 20 212 1.62e-29 110
MS.gene037851.t1 AT5G39190 36.082 194 119 3 22 211 20 212 1.98e-29 109
MS.gene037851.t1 AT3G04150 37.766 188 112 3 1 184 1 187 4.15e-29 108
MS.gene037851.t1 AT1G18970 37.778 180 105 5 10 188 14 187 1.08e-28 107
MS.gene037851.t1 AT1G18980 39.394 165 94 4 25 188 28 187 4.04e-28 106
MS.gene037851.t1 AT3G04150 41.781 146 81 2 43 184 55 200 1.02e-27 105
MS.gene037851.t1 AT5G39160 35.567 194 116 3 22 211 20 208 5.85e-27 103
MS.gene037851.t1 AT5G39160 33.544 158 102 1 57 211 33 190 5.81e-21 87.0
MS.gene037851.t1 AT5G39190 36.232 138 85 1 77 211 53 190 8.74e-21 86.7
MS.gene037851.t1 AT1G74820 30.516 213 134 5 8 210 16 224 8.01e-18 79.3
MS.gene037851.t1 AT5G38910 29.279 222 104 6 1 216 1 175 1.34e-15 72.4

Find 33 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAATATGGTTTGTTTATT+TGG 0.147969 8.3:-80600446 None:intergenic
TGCTAATGAAACTTGGATTT+TGG 0.152319 8.3:-80600384 None:intergenic
CACCAACTTTGAGAACATTT+TGG 0.167372 8.3:-80600751 None:intergenic
CTTTCTGCTTCTCAAGTTCA+TGG 0.253166 8.3:+80600947 MS.gene037851:CDS
GTCACTGCTGCTGAATTTCC+AGG 0.267510 8.3:+80600578 MS.gene037851:CDS
ATGTAATGGAATAAACCTTT+AGG 0.303470 8.3:-80600788 None:intergenic
TCTTGAGCTGTTACATTAGC+TGG 0.333856 8.3:-80600491 None:intergenic
GGGTAGACCATTGATGAATA+TGG 0.338217 8.3:-80600459 None:intergenic
CAGTAGCTCTTGGATGATAA+TGG 0.340284 8.3:-80600664 None:intergenic
TGTTTATTTGGTGGAATTGA+TGG 0.371662 8.3:-80600434 None:intergenic
TTCCAAAATGTTCTCAAAGT+TGG 0.374296 8.3:+80600749 MS.gene037851:CDS
TGTAATGGAATAAACCTTTA+GGG 0.377741 8.3:-80600787 None:intergenic
CACAATCTGCTAATGAAACT+TGG 0.384262 8.3:-80600391 None:intergenic
TTCCATTACATTCTAAATCA+AGG 0.393287 8.3:+80600800 MS.gene037851:CDS
AACCTTGATTTAGAATGTAA+TGG 0.410800 8.3:-80600802 None:intergenic
AAGATCATTTCAGTAGCTCT+TGG 0.441209 8.3:-80600674 None:intergenic
TTTCCAGGGCTGAACACTCT+TGG 0.460820 8.3:+80600593 MS.gene037851:CDS
AATGTTGTGTCAGAAGTTGT+AGG 0.463329 8.3:-80600887 None:intergenic
AGCAGCAGTGACAAGTTTCA+CGG 0.470392 8.3:-80600567 None:intergenic
AACACTCTTGGTCTCTCGAT+TGG 0.484763 8.3:+80600605 MS.gene037851:CDS
AATATGGTTTGTTTATTTGG+TGG 0.491327 8.3:-80600443 None:intergenic
GGAATAATAGATACTTGTCC+AGG 0.507182 8.3:-80600866 None:intergenic
TACAACTTCTGACACAACAT+TGG 0.513431 8.3:+80600889 MS.gene037851:CDS
AAACAAACCATATTCATCAA+TGG 0.515657 8.3:+80600452 MS.gene037851:CDS
CAATAATATGAATGGCTAAG+AGG 0.529024 8.3:-80600987 None:intergenic
GTGTACAATAGTCAAAATCC+TGG 0.531942 8.3:+80600848 MS.gene037851:CDS
AGACCAAGAGTGTTCAGCCC+TGG 0.540141 8.3:-80600596 None:intergenic
TCACTGCTGCTGAATTTCCA+GGG 0.546815 8.3:+80600579 MS.gene037851:CDS
AGAATCGATATCGATAATGA+TGG 0.562159 8.3:+80600629 MS.gene037851:CDS
AAAGAAAATATTGTAAACAA+AGG 0.628168 8.3:-80600339 None:intergenic
ACTAGCGTTATTTAATTCCG+CGG 0.642834 8.3:-80600522 None:intergenic
AGCTCAAGATTTCAAGACCG+CGG 0.654864 8.3:+80600505 MS.gene037851:CDS
ATTGTACACTGAGTAGACAA+TGG 0.673180 8.3:-80600834 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGAAAATATTGTAAACAA+AGG - chr8.3:80600342-80600361 None:intergenic 15.0%
!! GAAATGATCTTTGTTAAAAA+AGG + chr8.3:80600686-80600705 MS.gene037851:CDS 20.0%
!!! ATGAATATGGTTTGTTTATT+TGG - chr8.3:80600449-80600468 None:intergenic 20.0%
! AAACAAACCATATTCATCAA+TGG + chr8.3:80600452-80600471 MS.gene037851:CDS 25.0%
! TTCCATTACATTCTAAATCA+AGG + chr8.3:80600800-80600819 MS.gene037851:CDS 25.0%
!! AAAAAAGGTGTATTACTAGT+TGG + chr8.3:80600701-80600720 MS.gene037851:CDS 25.0%
!! AACCTTGATTTAGAATGTAA+TGG - chr8.3:80600805-80600824 None:intergenic 25.0%
!! ATGTAATGGAATAAACCTTT+AGG - chr8.3:80600791-80600810 None:intergenic 25.0%
!! TGTAATGGAATAAACCTTTA+GGG - chr8.3:80600790-80600809 None:intergenic 25.0%
!!! AATATGGTTTGTTTATTTGG+TGG - chr8.3:80600446-80600465 None:intergenic 25.0%
AGAATCGATATCGATAATGA+TGG + chr8.3:80600629-80600648 MS.gene037851:CDS 30.0%
TTCCAAAATGTTCTCAAAGT+TGG + chr8.3:80600749-80600768 MS.gene037851:CDS 30.0%
! TGCTAATGAAACTTGGATTT+TGG - chr8.3:80600387-80600406 None:intergenic 30.0%
! TGTTTATTTGGTGGAATTGA+TGG - chr8.3:80600437-80600456 None:intergenic 30.0%
AAGATCATTTCAGTAGCTCT+TGG - chr8.3:80600677-80600696 None:intergenic 35.0%
AATGTTGTGTCAGAAGTTGT+AGG - chr8.3:80600890-80600909 None:intergenic 35.0%
ACTAGCGTTATTTAATTCCG+CGG - chr8.3:80600525-80600544 None:intergenic 35.0%
ATTGTACACTGAGTAGACAA+TGG - chr8.3:80600837-80600856 None:intergenic 35.0%
CACAATCTGCTAATGAAACT+TGG - chr8.3:80600394-80600413 None:intergenic 35.0%
GGAATAATAGATACTTGTCC+AGG - chr8.3:80600869-80600888 None:intergenic 35.0%
GTGTACAATAGTCAAAATCC+TGG + chr8.3:80600848-80600867 MS.gene037851:CDS 35.0%
TACAACTTCTGACACAACAT+TGG + chr8.3:80600889-80600908 MS.gene037851:CDS 35.0%
! ACATTAGCTGGATTTTTGCA+GGG - chr8.3:80600482-80600501 None:intergenic 35.0%
! GATGTTTGTGTTTTCCCTAA+AGG + chr8.3:80600773-80600792 MS.gene037851:CDS 35.0%
! TACATTAGCTGGATTTTTGC+AGG - chr8.3:80600483-80600502 None:intergenic 35.0%
!! CACCAACTTTGAGAACATTT+TGG - chr8.3:80600754-80600773 None:intergenic 35.0%
CAGTAGCTCTTGGATGATAA+TGG - chr8.3:80600667-80600686 None:intergenic 40.0%
CTTTCTGCTTCTCAAGTTCA+TGG + chr8.3:80600947-80600966 MS.gene037851:CDS 40.0%
GGGTAGACCATTGATGAATA+TGG - chr8.3:80600462-80600481 None:intergenic 40.0%
TCTTGAGCTGTTACATTAGC+TGG - chr8.3:80600494-80600513 None:intergenic 40.0%
!!! GCTAGTTCTACCGACATTTT+TGG + chr8.3:80600539-80600558 MS.gene037851:CDS 40.0%
AACACTCTTGGTCTCTCGAT+TGG + chr8.3:80600605-80600624 MS.gene037851:CDS 45.0%
AGCAGCAGTGACAAGTTTCA+CGG - chr8.3:80600570-80600589 None:intergenic 45.0%
AGCTCAAGATTTCAAGACCG+CGG + chr8.3:80600505-80600524 MS.gene037851:CDS 45.0%
TCACTGCTGCTGAATTTCCA+GGG + chr8.3:80600579-80600598 MS.gene037851:CDS 45.0%
CACGGATGCGCCAAAAATGT+CGG - chr8.3:80600552-80600571 None:intergenic 50.0%
GTCACTGCTGCTGAATTTCC+AGG + chr8.3:80600578-80600597 MS.gene037851:CDS 50.0%
TTTCCAGGGCTGAACACTCT+TGG + chr8.3:80600593-80600612 MS.gene037851:CDS 50.0%
!! AGACCAAGAGTGTTCAGCCC+TGG - chr8.3:80600599-80600618 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 80600332 80600994 80600332 ID=MS.gene037851
chr8.3 mRNA 80600332 80600994 80600332 ID=MS.gene037851.t1;Parent=MS.gene037851
chr8.3 exon 80600332 80600994 80600332 ID=MS.gene037851.t1.exon1;Parent=MS.gene037851.t1
chr8.3 CDS 80600332 80600994 80600332 ID=cds.MS.gene037851.t1;Parent=MS.gene037851.t1
Gene Sequence

>MS.gene037851

ATGAAATCCTTTGTTTACAATATTTTCTTTGTGTTCTTTTTTAATCTCTTAACCAAAATCCAAGTTTCATTAGCAGATTGTGACAACTTACAAGACACATGTCCATCAATTCCACCAAATAAACAAACCATATTCATCAATGGTCTACCCTGCAAAAATCCAGCTAATGTAACAGCTCAAGATTTCAAGACCGCGGAATTAAATAACGCTAGTTCTACCGACATTTTTGGCGCATCCGTGAAACTTGTCACTGCTGCTGAATTTCCAGGGCTGAACACTCTTGGTCTCTCGATTGGAAGAATCGATATCGATAATGATGGCTTAGTAAACTTCCATTATCATCCAAGAGCTACTGAAATGATCTTTGTTAAAAAAGGTGTATTACTAGTTGGATTTATTGATACACAAAATCAAGTTTTCCAAAATGTTCTCAAAGTTGGTGATGTTTGTGTTTTCCCTAAAGGTTTATTCCATTACATTCTAAATCAAGGTTTTGAAGAAGCCATTGTCTACTCAGTGTACAATAGTCAAAATCCTGGACAAGTATCTATTATTCCTACAACTTCTGACACAACATTGGAATCTGTAGAGAAGCTGAAAAAGAAAATTATCTCACTTTCTGCTTCTCAAGTTCATGGTGATATTATCAGTTCAACCTCTTAG
Protein sequence

>MS.gene037851.t1

MKSFVYNIFFVFFFNLLTKIQVSLADCDNLQDTCPSIPPNKQTIFINGLPCKNPANVTAQDFKTAELNNASSTDIFGASVKLVTAAEFPGLNTLGLSIGRIDIDNDGLVNFHYHPRATEMIFVKKGVLLVGFIDTQNQVFQNVLKVGDVCVFPKGLFHYILNQGFEEAIVYSVYNSQNPGQVSIIPTTSDTTLESVEKLKKKIISLSASQVHGDIISSTS