AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058703

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058703.t1 MTR_8g102520 77.880 217 46 2 1 215 106 322 8.10e-116 333
MS.gene058703.t1 MTR_7g079400 64.253 221 73 3 1 215 117 337 3.08e-94 279
MS.gene058703.t1 MTR_8g098830 60.204 196 70 4 22 215 32 221 2.60e-77 232
MS.gene058703.t1 MTR_7g079370 56.019 216 91 4 2 213 139 354 2.17e-72 224
MS.gene058703.t1 MTR_7g079450 75.540 139 31 1 77 215 2 137 1.13e-70 212
MS.gene058703.t1 MTR_2g048580 51.389 216 82 8 10 215 140 342 7.48e-59 189
MS.gene058703.t1 MTR_7g079420 58.791 182 63 5 42 215 967 1144 3.55e-57 195
MS.gene058703.t1 MTR_4g117720 49.309 217 98 7 2 211 162 373 1.80e-56 183
MS.gene058703.t1 MTR_6g060650 47.706 218 100 8 2 214 164 372 5.24e-52 172
MS.gene058703.t1 MTR_1g055195 42.534 221 109 6 2 215 269 478 1.98e-45 157
MS.gene058703.t1 MTR_1g055175 43.939 198 107 4 21 215 5 201 5.80e-44 146
MS.gene058703.t1 MTR_3g103020 44.292 219 111 7 3 215 165 378 7.92e-44 150
MS.gene058703.t1 MTR_5g097210 42.453 212 116 5 2 210 150 358 1.48e-43 150
MS.gene058703.t1 MTR_4g116320 42.654 211 113 6 3 209 46 252 2.61e-43 146
MS.gene058703.t1 MTR_5g070130 42.466 219 115 6 2 211 156 372 5.58e-43 149
MS.gene058703.t1 MTR_5g070088 41.395 215 118 5 2 211 170 381 8.91e-43 148
MS.gene058703.t1 MTR_4g109280 43.056 216 114 7 4 215 149 359 2.16e-42 146
MS.gene058703.t1 MTR_4g023130 42.857 217 105 7 2 214 111 312 4.38e-42 144
MS.gene058703.t1 MTR_4g023080 44.240 217 102 8 2 214 152 353 5.05e-42 145
MS.gene058703.t1 MTR_4g118380 45.178 197 92 6 2 187 166 357 2.97e-41 143
MS.gene058703.t1 MTR_5g070080 43.182 220 112 9 2 215 174 386 8.30e-41 143
MS.gene058703.t1 MTR_4g094365 42.922 219 111 8 2 215 155 364 4.05e-40 140
MS.gene058703.t1 MTR_4g116330 45.408 196 98 6 25 215 189 380 1.40e-39 139
MS.gene058703.t1 MTR_3g034180 43.043 230 103 10 2 214 270 488 2.70e-39 141
MS.gene058703.t1 MTR_4g118400 42.857 196 92 7 16 209 117 294 7.07e-39 135
MS.gene058703.t1 MTR_4g122850 41.553 219 119 9 2 215 150 364 1.20e-38 137
MS.gene058703.t1 MTR_8g433030 43.662 213 108 9 4 211 133 338 1.42e-38 136
MS.gene058703.t1 MTR_8g032390 43.662 213 108 9 4 211 166 371 3.07e-38 136
MS.gene058703.t1 MTR_1g055135 41.704 223 118 6 2 215 156 375 4.54e-38 135
MS.gene058703.t1 MTR_4g117850 41.935 217 113 8 3 210 163 375 4.73e-38 135
MS.gene058703.t1 MTR_4g021785 41.284 218 110 8 2 215 152 355 1.44e-37 134
MS.gene058703.t1 MTR_4g109270 43.119 218 108 8 3 215 158 364 2.26e-37 133
MS.gene058703.t1 MTR_3g034130 41.667 204 93 8 2 188 156 350 3.06e-37 133
MS.gene058703.t1 MTR_4g117750 40.724 221 122 5 2 214 139 358 3.09e-37 135
MS.gene058703.t1 MTR_4g117750 39.552 134 67 5 88 209 346 477 5.61e-16 76.3
MS.gene058703.t1 MTR_6g463430 42.268 194 102 7 25 215 16 202 5.23e-37 128
MS.gene058703.t1 MTR_3g034160 42.291 227 105 9 4 214 158 374 5.73e-37 132
MS.gene058703.t1 MTR_1g055250 40.909 198 111 5 2 196 56 250 1.94e-36 130
MS.gene058703.t1 MTR_8g040935 40.404 198 108 7 25 215 14 208 5.24e-36 126
MS.gene058703.t1 MTR_4g117770 41.818 220 112 7 3 215 157 367 9.10e-36 129
MS.gene058703.t1 MTR_4g117810 41.818 220 112 7 3 215 157 367 9.10e-36 129
MS.gene058703.t1 MTR_1g055165 44.785 163 87 3 55 215 157 318 4.07e-35 126
MS.gene058703.t1 MTR_4g118370 40.376 213 102 8 2 210 64 255 4.39e-35 125
MS.gene058703.t1 MTR_4g023070 37.931 232 119 7 1 214 145 369 1.90e-33 123
MS.gene058703.t1 MTR_4g117530 37.674 215 89 7 3 215 82 253 2.35e-33 120
MS.gene058703.t1 MTR_8g433040 40.092 217 112 6 2 215 163 364 5.42e-33 122
MS.gene058703.t1 MTR_8g032380 40.092 217 112 6 2 215 163 364 5.42e-33 122
MS.gene058703.t1 MTR_4g117780 39.269 219 119 7 3 215 157 367 1.20e-32 121
MS.gene058703.t1 MTR_4g023120 37.931 232 119 8 2 215 146 370 2.42e-32 120
MS.gene058703.t1 MTR_4g023190 38.182 220 114 9 1 213 153 357 1.64e-30 115
MS.gene058703.t1 MTR_4g023090 36.771 223 114 8 4 209 166 378 2.24e-30 115
MS.gene058703.t1 MTR_4g118360 49.167 120 59 2 92 209 1 120 1.09e-28 104
MS.gene058703.t1 MTR_4g023150 37.273 220 117 10 1 213 153 358 1.97e-28 109
MS.gene058703.t1 MTR_4g023200 37.273 220 117 10 1 213 153 358 2.55e-28 109
MS.gene058703.t1 MTR_4g023380 35.455 220 110 6 15 209 159 371 8.01e-28 108
MS.gene058703.t1 MTR_4g023440 35.484 217 92 7 1 215 162 332 8.79e-28 107
MS.gene058703.t1 MTR_4g117870 35.780 218 94 9 2 215 92 267 2.66e-26 102
MS.gene058703.t1 MTR_4g116330 37.755 196 74 7 25 215 189 341 5.38e-25 100
MS.gene058703.t1 MTR_5g023000 48.936 94 45 2 124 215 7 99 3.77e-22 87.0
MS.gene058703.t1 MTR_4g114700 34.783 207 83 5 4 206 60 218 7.58e-22 90.1
MS.gene058703.t1 MTR_4g122860 33.649 211 99 9 16 215 140 320 2.17e-19 85.1
MS.gene058703.t1 MTR_4g117430 43.564 101 40 4 2 99 49 135 9.84e-19 79.7
MS.gene058703.t1 MTR_7g117720 45.217 115 53 5 104 210 160 272 2.47e-18 81.3
MS.gene058703.t1 MTR_8g013010 44.828 116 55 5 2 117 203 309 2.31e-17 79.3
MS.gene058703.t1 MTR_4g133170 29.167 144 90 6 2 141 150 285 1.71e-12 65.9
MS.gene058703.t1 MTR_0267s0050 30.075 133 74 4 57 170 214 346 1.73e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 48 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTATTGCCTTTGATTTAA+AGG 0.116438 7.4:-26429862 MS.gene058703:CDS
TTGATTCTCATTTCCCTTAT+AGG 0.126352 7.4:-26429977 MS.gene058703:CDS
ACTCTGTATACACTGCTATT+TGG 0.172257 7.4:+26429508 None:intergenic
CGATGATTACATGGTAGTTT+TGG 0.205646 7.4:-26430087 MS.gene058703:CDS
GGCAATAATAACATCCCTTT+TGG 0.284778 7.4:+26429875 None:intergenic
TCAGAGCTTGAAGTCCTATA+AGG 0.287235 7.4:+26429963 None:intergenic
CTCTGTATACACTGCTATTT+GGG 0.303953 7.4:+26429509 None:intergenic
TCTTGAATGGTTCTATTCAT+TGG 0.308230 7.4:-26429917 MS.gene058703:CDS
CCACCATTTGTAAAGCATAC+TGG 0.341955 7.4:+26429633 None:intergenic
AGATGTCTACACTTAAGATA+TGG 0.412369 7.4:-26429734 MS.gene058703:CDS
TAAGCTTGTTCAGTGCCATC+AGG 0.417768 7.4:+26429471 None:intergenic
AATGTCGGGTCGTTCTTGAA+TGG 0.418865 7.4:-26429930 MS.gene058703:CDS
TTTATAATTATGAGACCAAA+AGG 0.423323 7.4:-26429890 MS.gene058703:CDS
CATAGGAGTGATACTCTAAC+AGG 0.423667 7.4:+26429553 None:intergenic
CAGAGCTTGAAGTCCTATAA+GGG 0.435057 7.4:+26429964 None:intergenic
TTCGCGGACTTATCAGTGTA+TGG 0.439782 7.4:-26429764 MS.gene058703:CDS
ATTACTGTAATTGTATTTGA+AGG 0.443950 7.4:+26430061 None:intergenic
AATACAAAGTGCATTCATCT+TGG 0.445198 7.4:-26429701 MS.gene058703:CDS
ACTGATAAGTCCGCGAAATA+CGG 0.447963 7.4:+26429770 None:intergenic
TTCAAGAACGACCCGACATT+GGG 0.457176 7.4:+26429933 None:intergenic
TGTCATTTCCTTTAAATCAA+AGG 0.465778 7.4:+26429854 None:intergenic
ACAAATGGTGGTGATATTGT+TGG 0.467745 7.4:-26429621 MS.gene058703:CDS
ATCCCAGTATGCTTTACAAA+TGG 0.468448 7.4:-26429636 MS.gene058703:CDS
CACCATTTGTAAAGCATACT+GGG 0.484537 7.4:+26429634 None:intergenic
CATGTCAAGCGATGATTACA+TGG 0.486681 7.4:-26430096 MS.gene058703:CDS
GCTAATCCACCATCAGCAAC+TGG 0.487853 7.4:+26429597 None:intergenic
CTGTTAGAGTATCACTCCTA+TGG 0.509163 7.4:-26429552 MS.gene058703:CDS
GATGTCTACACTTAAGATAT+GGG 0.517647 7.4:-26429733 MS.gene058703:CDS
TATGATTTGTCCGTATTTCG+CGG 0.518178 7.4:-26429780 MS.gene058703:CDS
TCTTTGCTTTCACTCCCTGA+TGG 0.527790 7.4:-26429486 MS.gene058703:CDS
CTGAAGATGATCCCAATGTC+GGG 0.534343 7.4:-26429944 MS.gene058703:CDS
AAGCATACTGGGATAAAATC+CGG 0.535099 7.4:+26429645 None:intergenic
TAATACTAGCTCGATTGACT+TGG 0.537112 7.4:-26430042 MS.gene058703:CDS
ATTCAAGAACGACCCGACAT+TGG 0.540647 7.4:+26429932 None:intergenic
CCAGTATGCTTTACAAATGG+TGG 0.556297 7.4:-26429633 MS.gene058703:CDS
CTCATTTAGAGCTAATGAGT+GGG 0.557981 7.4:-26430012 MS.gene058703:CDS
GTTGGACCAGTTGCTGATGG+TGG 0.559934 7.4:-26429603 MS.gene058703:CDS
ATTGTTGGACCAGTTGCTGA+TGG 0.574060 7.4:-26429606 MS.gene058703:CDS
ACTGGGATAAAATCCGGAGC+GGG 0.593830 7.4:+26429651 None:intergenic
TCTCATTTAGAGCTAATGAG+TGG 0.594394 7.4:-26430013 MS.gene058703:CDS
TCTGAAGATGATCCCAATGT+CGG 0.596330 7.4:-26429945 MS.gene058703:CDS
TTATAATTATGAGACCAAAA+GGG 0.608278 7.4:-26429889 MS.gene058703:CDS
ACTTATCAGTGTATGGAATG+TGG 0.619206 7.4:-26429757 MS.gene058703:CDS
AAGCTTGTTCAGTGCCATCA+GGG 0.620091 7.4:+26429472 None:intergenic
AAATTGATATTAAAATCATG+TGG 0.650461 7.4:+26429813 None:intergenic
TTAGCAAAGCTTGATGACAG+AGG 0.669327 7.4:-26429579 MS.gene058703:CDS
TACTGGGATAAAATCCGGAG+CGG 0.669643 7.4:+26429650 None:intergenic
TGCAGAGTAACAGTCACCAT+AGG 0.670737 7.4:+26429536 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTGATATTAAAATCATG+TGG + chr7.4:26429755-26429774 None:intergenic 15.0%
!! ATTACTGTAATTGTATTTGA+AGG + chr7.4:26429507-26429526 None:intergenic 20.0%
!! TTATAATTATGAGACCAAAA+GGG - chr7.4:26429676-26429695 MS.gene058703:CDS 20.0%
!! TTTATAATTATGAGACCAAA+AGG - chr7.4:26429675-26429694 MS.gene058703:CDS 20.0%
!!! TATTATTGCCTTTGATTTAA+AGG - chr7.4:26429703-26429722 MS.gene058703:CDS 20.0%
!! TGTCATTTCCTTTAAATCAA+AGG + chr7.4:26429714-26429733 None:intergenic 25.0%
AATACAAAGTGCATTCATCT+TGG - chr7.4:26429864-26429883 MS.gene058703:CDS 30.0%
AGATGTCTACACTTAAGATA+TGG - chr7.4:26429831-26429850 MS.gene058703:CDS 30.0%
GATGTCTACACTTAAGATAT+GGG - chr7.4:26429832-26429851 MS.gene058703:CDS 30.0%
TTGATTCTCATTTCCCTTAT+AGG - chr7.4:26429588-26429607 MS.gene058703:CDS 30.0%
! GATGATTACATGGTAGTTTT+GGG - chr7.4:26429479-26429498 MS.gene058703:CDS 30.0%
! TCTTGAATGGTTCTATTCAT+TGG - chr7.4:26429648-26429667 MS.gene058703:CDS 30.0%
!! ATGATTACATGGTAGTTTTG+GGG - chr7.4:26429480-26429499 MS.gene058703:CDS 30.0%
AAGCATACTGGGATAAAATC+CGG + chr7.4:26429923-26429942 None:intergenic 35.0%
ACTCTGTATACACTGCTATT+TGG + chr7.4:26430060-26430079 None:intergenic 35.0%
ACTTATCAGTGTATGGAATG+TGG - chr7.4:26429808-26429827 MS.gene058703:CDS 35.0%
ATCCCAGTATGCTTTACAAA+TGG - chr7.4:26429929-26429948 MS.gene058703:CDS 35.0%
CACCATTTGTAAAGCATACT+GGG + chr7.4:26429934-26429953 None:intergenic 35.0%
TAATACTAGCTCGATTGACT+TGG - chr7.4:26429523-26429542 MS.gene058703:CDS 35.0%
! ACAAATGGTGGTGATATTGT+TGG - chr7.4:26429944-26429963 MS.gene058703:CDS 35.0%
! CGATGATTACATGGTAGTTT+TGG - chr7.4:26429478-26429497 MS.gene058703:CDS 35.0%
! CTCATTTAGAGCTAATGAGT+GGG - chr7.4:26429553-26429572 MS.gene058703:CDS 35.0%
! CTCTGTATACACTGCTATTT+GGG + chr7.4:26430059-26430078 None:intergenic 35.0%
! GGCAATAATAACATCCCTTT+TGG + chr7.4:26429693-26429712 None:intergenic 35.0%
! TATGATTTGTCCGTATTTCG+CGG - chr7.4:26429785-26429804 MS.gene058703:CDS 35.0%
! TCTCATTTAGAGCTAATGAG+TGG - chr7.4:26429552-26429571 MS.gene058703:CDS 35.0%
ACTGATAAGTCCGCGAAATA+CGG + chr7.4:26429798-26429817 None:intergenic 40.0%
CAGAGCTTGAAGTCCTATAA+GGG + chr7.4:26429604-26429623 None:intergenic 40.0%
CATAGGAGTGATACTCTAAC+AGG + chr7.4:26430015-26430034 None:intergenic 40.0%
CCACCATTTGTAAAGCATAC+TGG + chr7.4:26429935-26429954 None:intergenic 40.0%
CCAGTATGCTTTACAAATGG+TGG - chr7.4:26429932-26429951 MS.gene058703:CDS 40.0%
TCAGAGCTTGAAGTCCTATA+AGG + chr7.4:26429605-26429624 None:intergenic 40.0%
TCTGAAGATGATCCCAATGT+CGG - chr7.4:26429620-26429639 MS.gene058703:CDS 40.0%
! CTGTTAGAGTATCACTCCTA+TGG - chr7.4:26430013-26430032 MS.gene058703:CDS 40.0%
! TTAGCAAAGCTTGATGACAG+AGG - chr7.4:26429986-26430005 MS.gene058703:CDS 40.0%
! TTTTTCTTTTCATCCCGCTC+CGG - chr7.4:26429901-26429920 MS.gene058703:CDS 40.0%
AATGTCGGGTCGTTCTTGAA+TGG - chr7.4:26429635-26429654 MS.gene058703:CDS 45.0%
ATTCAAGAACGACCCGACAT+TGG + chr7.4:26429636-26429655 None:intergenic 45.0%
ATTGTTGGACCAGTTGCTGA+TGG - chr7.4:26429959-26429978 MS.gene058703:CDS 45.0%
CTGAAGATGATCCCAATGTC+GGG - chr7.4:26429621-26429640 MS.gene058703:CDS 45.0%
TACTGGGATAAAATCCGGAG+CGG + chr7.4:26429918-26429937 None:intergenic 45.0%
TCTTTGCTTTCACTCCCTGA+TGG - chr7.4:26430079-26430098 MS.gene058703:CDS 45.0%
TGCAGAGTAACAGTCACCAT+AGG + chr7.4:26430032-26430051 None:intergenic 45.0%
TTCAAGAACGACCCGACATT+GGG + chr7.4:26429635-26429654 None:intergenic 45.0%
TTCGCGGACTTATCAGTGTA+TGG - chr7.4:26429801-26429820 MS.gene058703:CDS 45.0%
! AAGCTTGTTCAGTGCCATCA+GGG + chr7.4:26430096-26430115 None:intergenic 45.0%
! TAAGCTTGTTCAGTGCCATC+AGG + chr7.4:26430097-26430116 None:intergenic 45.0%
ACTGGGATAAAATCCGGAGC+GGG + chr7.4:26429917-26429936 None:intergenic 50.0%
GCTAATCCACCATCAGCAAC+TGG + chr7.4:26429971-26429990 None:intergenic 50.0%
GTTGGACCAGTTGCTGATGG+TGG - chr7.4:26429962-26429981 MS.gene058703:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 26429470 26430117 26429470 ID=MS.gene058703
chr7.4 mRNA 26429470 26430117 26429470 ID=MS.gene058703.t1;Parent=MS.gene058703
chr7.4 exon 26429470 26430117 26429470 ID=MS.gene058703.t1.exon1;Parent=MS.gene058703.t1
chr7.4 CDS 26429470 26430117 26429470 ID=cds.MS.gene058703.t1;Parent=MS.gene058703.t1
Gene Sequence

>MS.gene058703

ATGTCAAGCGATGATTACATGGTAGTTTTGGGGTCCTTCAAATACAATTACAGTAATACTAGCTCGATTGACTTGGAGATTTTCTCATTTAGAGCTAATGAGTGGGAAAAAATTAAGTTTGATTCTCATTTCCCTTATAGGACTTCAAGCTCTGAAGATGATCCCAATGTCGGGTCGTTCTTGAATGGTTCTATTCATTGGCTGCTTTATAATTATGAGACCAAAAGGGATGTTATTATTGCCTTTGATTTAAAGGAAATGACAATGTCTGAGATTGCTCTTCCACATGATTTTAATATCAATTTTTCTAACGTTTATGATTTGTCCGTATTTCGCGGACTTATCAGTGTATGGAATGTGGAGATGTCTACACTTAAGATATGGGTAATGCAAGAATACAAAGTGCATTCATCTTGGACTAAGACTCTTGATTTTTCTTTTCATCCCGCTCCGGATTTTATCCCAGTATGCTTTACAAATGGTGGTGATATTGTTGGACCAGTTGCTGATGGTGGATTAGCAAAGCTTGATGACAGAGGAGACCTGTTAGAGTATCACTCCTATGGTGACTGTTACTCTGCAATATCCCAAATAGCAGTGTATACAGAGTCTTTGCTTTCACTCCCTGATGGCACTGAACAAGCTTAA
Protein sequence

>MS.gene058703.t1

MSSDDYMVVLGSFKYNYSNTSSIDLEIFSFRANEWEKIKFDSHFPYRTSSSEDDPNVGSFLNGSIHWLLYNYETKRDVIIAFDLKEMTMSEIALPHDFNINFSNVYDLSVFRGLISVWNVEMSTLKIWVMQEYKVHSSWTKTLDFSFHPAPDFIPVCFTNGGDIVGPVADGGLAKLDDRGDLLEYHSYGDCYSAISQIAVYTESLLSLPDGTEQA