AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene024011

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024011.t1 MTR_8g102520 77.419 217 47 2 1 215 106 322 1.09e-115 333
MS.gene024011.t1 MTR_7g079400 64.253 221 73 3 1 215 117 337 6.47e-94 278
MS.gene024011.t1 MTR_8g098830 60.513 195 69 4 23 215 33 221 1.56e-77 233
MS.gene024011.t1 MTR_7g079370 58.411 214 85 4 2 211 139 352 3.85e-74 228
MS.gene024011.t1 MTR_7g079450 74.820 139 32 1 77 215 2 137 3.09e-70 211
MS.gene024011.t1 MTR_2g048580 50.926 216 83 8 10 215 140 342 3.46e-58 187
MS.gene024011.t1 MTR_7g079420 57.692 182 65 5 42 215 967 1144 3.66e-57 195
MS.gene024011.t1 MTR_4g117720 47.926 217 101 7 2 211 162 373 1.74e-54 178
MS.gene024011.t1 MTR_6g060650 45.872 218 104 7 2 214 164 372 1.24e-50 168
MS.gene024011.t1 MTR_1g055195 43.439 221 107 6 2 215 269 478 5.18e-46 159
MS.gene024011.t1 MTR_1g055175 43.939 198 107 4 21 215 5 201 1.40e-44 147
MS.gene024011.t1 MTR_5g097210 43.396 212 114 5 2 210 150 358 1.58e-44 152
MS.gene024011.t1 MTR_5g070130 43.304 224 115 7 2 215 156 377 1.90e-43 150
MS.gene024011.t1 MTR_4g109280 46.154 195 96 7 25 215 170 359 4.34e-43 148
MS.gene024011.t1 MTR_3g103020 43.836 219 112 7 3 215 165 378 5.75e-43 148
MS.gene024011.t1 MTR_5g070088 42.791 215 115 6 2 211 170 381 9.10e-43 148
MS.gene024011.t1 MTR_4g116320 41.706 211 115 5 3 209 46 252 3.04e-42 143
MS.gene024011.t1 MTR_5g070080 44.545 220 109 9 2 215 174 386 1.00e-41 145
MS.gene024011.t1 MTR_4g118380 44.670 197 93 6 2 187 166 357 7.39e-41 142
MS.gene024011.t1 MTR_4g118400 43.316 187 87 6 25 209 125 294 4.13e-40 139
MS.gene024011.t1 MTR_4g116330 43.836 219 105 8 5 215 172 380 1.03e-39 140
MS.gene024011.t1 MTR_4g094365 42.727 220 112 9 1 215 154 364 1.26e-39 139
MS.gene024011.t1 MTR_4g023130 40.553 217 110 7 2 214 111 312 1.24e-38 135
MS.gene024011.t1 MTR_3g034180 42.609 230 104 10 2 214 270 488 1.51e-38 139
MS.gene024011.t1 MTR_4g023080 41.935 217 107 8 2 214 152 353 1.66e-38 136
MS.gene024011.t1 MTR_1g055135 41.704 223 118 6 2 215 156 375 2.71e-38 136
MS.gene024011.t1 MTR_6g463430 41.791 201 107 7 18 215 9 202 3.42e-38 131
MS.gene024011.t1 MTR_4g117850 41.204 216 116 7 3 210 163 375 1.33e-37 134
MS.gene024011.t1 MTR_8g433030 43.396 212 108 9 5 211 134 338 1.34e-37 133
MS.gene024011.t1 MTR_8g032390 43.396 212 108 9 5 211 167 371 2.80e-37 133
MS.gene024011.t1 MTR_8g040935 40.909 198 107 7 25 215 14 208 2.99e-37 129
MS.gene024011.t1 MTR_4g117750 41.176 221 121 5 2 214 139 358 3.80e-37 135
MS.gene024011.t1 MTR_4g117750 39.552 134 67 5 88 209 346 477 6.17e-16 76.3
MS.gene024011.t1 MTR_4g109270 44.388 196 100 6 25 215 173 364 5.31e-37 132
MS.gene024011.t1 MTR_3g034130 40.394 203 97 7 2 188 156 350 1.04e-36 132
MS.gene024011.t1 MTR_3g034160 41.778 225 107 8 5 214 159 374 1.18e-36 132
MS.gene024011.t1 MTR_1g055250 40.909 198 111 5 2 196 56 250 1.49e-36 130
MS.gene024011.t1 MTR_4g122850 39.726 219 123 9 2 215 150 364 1.63e-36 131
MS.gene024011.t1 MTR_1g055165 44.785 163 87 3 55 215 157 318 3.03e-35 127
MS.gene024011.t1 MTR_4g118370 40.654 214 104 7 2 212 64 257 3.78e-35 125
MS.gene024011.t1 MTR_4g117770 41.818 220 112 8 3 215 157 367 6.82e-35 127
MS.gene024011.t1 MTR_4g117810 41.818 220 112 8 3 215 157 367 6.82e-35 127
MS.gene024011.t1 MTR_4g021785 38.532 218 116 7 2 215 152 355 4.00e-34 125
MS.gene024011.t1 MTR_4g117530 38.974 195 81 6 23 215 95 253 1.73e-33 120
MS.gene024011.t1 MTR_4g117780 39.726 219 118 7 3 215 157 367 1.69e-32 120
MS.gene024011.t1 MTR_4g023070 37.069 232 121 7 1 214 145 369 3.70e-32 120
MS.gene024011.t1 MTR_8g433040 39.171 217 114 6 2 215 163 364 8.25e-32 119
MS.gene024011.t1 MTR_8g032380 39.171 217 114 6 2 215 163 364 8.25e-32 119
MS.gene024011.t1 MTR_4g023120 37.069 232 121 8 2 215 146 370 2.11e-30 115
MS.gene024011.t1 MTR_4g118360 47.619 126 64 2 92 215 1 126 8.32e-29 105
MS.gene024011.t1 MTR_4g023090 36.036 222 115 9 5 209 167 378 6.71e-28 108
MS.gene024011.t1 MTR_4g023190 36.735 196 109 6 25 213 170 357 8.64e-27 105
MS.gene024011.t1 MTR_4g023380 35.714 210 103 6 25 209 169 371 3.30e-26 104
MS.gene024011.t1 MTR_4g023200 36.923 195 109 8 26 213 171 358 6.63e-26 103
MS.gene024011.t1 MTR_4g023440 33.641 217 96 7 1 215 162 332 1.46e-25 101
MS.gene024011.t1 MTR_4g023150 36.735 196 110 8 25 213 170 358 2.49e-25 101
MS.gene024011.t1 MTR_4g116330 37.727 220 78 9 5 215 172 341 4.61e-25 100
MS.gene024011.t1 MTR_4g117870 35.321 218 95 9 2 215 92 267 2.65e-24 97.1
MS.gene024011.t1 MTR_5g023000 48.936 94 45 2 124 215 7 99 3.24e-22 87.4
MS.gene024011.t1 MTR_4g114700 33.981 206 84 5 5 206 61 218 6.77e-21 87.4
MS.gene024011.t1 MTR_4g122860 35.385 195 88 8 29 215 156 320 2.52e-20 87.8
MS.gene024011.t1 MTR_7g117720 45.217 115 53 5 104 210 160 272 2.47e-18 81.3
MS.gene024011.t1 MTR_4g117430 40.816 98 47 3 2 99 49 135 9.31e-17 74.7
MS.gene024011.t1 MTR_8g013010 43.103 116 57 5 2 117 203 309 1.87e-16 76.6
MS.gene024011.t1 MTR_4g133170 28.472 144 91 6 2 141 150 285 4.61e-12 64.7
MS.gene024011.t1 MTR_0267s0050 30.075 133 74 4 57 170 214 346 2.07e-11 62.8
MS.gene024011.t1 MTR_7g056503 27.815 151 102 4 3 147 179 328 3.58e-11 62.0
MS.gene024011.t1 MTR_6g034720 40.777 103 57 3 1 102 79 178 3.67e-11 60.8
MS.gene024011.t1 MTR_5g097220 28.877 187 124 6 26 208 223 404 5.72e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 47 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTCTCATTTGCCTTAT+AGG 0.107867 7.1:-24500862 MS.gene024011:CDS
TATTATTGCCTTTGATTTAA+AGG 0.116438 7.1:-24500747 MS.gene024011:CDS
ACTCTGTATACACTGCTATT+TGG 0.172257 7.1:+24500393 None:intergenic
CAGTGATTACATGGTAGTTT+TGG 0.247840 7.1:-24500972 MS.gene024011:CDS
GGCAATAATAACATCCCTTT+TGG 0.284778 7.1:+24500760 None:intergenic
CTCTGTATACACTGCTATTT+GGG 0.303953 7.1:+24500394 None:intergenic
TCAGAGTTTGCAGTCCTATA+AGG 0.307398 7.1:+24500848 None:intergenic
TCTTGAATGGTTCTATTCAT+TGG 0.308230 7.1:-24500802 MS.gene024011:CDS
CCACCATTTGTAAAGCATAC+TGG 0.341955 7.1:+24500518 None:intergenic
AGATGTCTACACTTAAGATA+TGG 0.398795 7.1:-24500619 MS.gene024011:CDS
AATGTCGGGTCGTTCTTGAA+TGG 0.418865 7.1:-24500815 MS.gene024011:CDS
TTTATAATTATGAGACCAAA+AGG 0.423323 7.1:-24500775 MS.gene024011:CDS
TTCGCGGACTTATCAGTGTA+TGG 0.439782 7.1:-24500649 MS.gene024011:CDS
ATTACTGTAATTGTATTTGA+AGG 0.443950 7.1:+24500946 None:intergenic
AATACAAAGTGCATTCATCT+TGG 0.445198 7.1:-24500586 MS.gene024011:CDS
ACTGATAAGTCCGCGAAATA+CGG 0.447963 7.1:+24500655 None:intergenic
TTCAAGAACGACCCGACATT+GGG 0.457176 7.1:+24500818 None:intergenic
TAAGCTTGTTCAGAGCCATC+AGG 0.458435 7.1:+24500356 None:intergenic
TGTCATTTCCTTTAAATCAA+AGG 0.465778 7.1:+24500739 None:intergenic
ACAAATGGTGGTGATATTGT+TGG 0.467745 7.1:-24500506 MS.gene024011:CDS
ATCCCAGTATGCTTTACAAA+TGG 0.468448 7.1:-24500521 MS.gene024011:CDS
CATGTCAAGCAGTGATTACA+TGG 0.474278 7.1:-24500981 MS.gene024011:CDS
CACCATTTGTAAAGCATACT+GGG 0.484537 7.1:+24500519 None:intergenic
GCTAATCCACCATCAGCAAC+TGG 0.487853 7.1:+24500482 None:intergenic
GATGTCTACACTTAAGATAT+GGG 0.507715 7.1:-24500618 MS.gene024011:CDS
TCTTTGCTTTCACTCCCTGA+TGG 0.510437 7.1:-24500371 MS.gene024011:CDS
TATGATTTGTCCGTATTTCG+CGG 0.518178 7.1:-24500665 MS.gene024011:CDS
CATAGGAGTGATACTCCAAC+AGG 0.518861 7.1:+24500438 None:intergenic
TAATACTAGCTTGATTGACT+TGG 0.526898 7.1:-24500927 MS.gene024011:CDS
CTGAAGATGATCCCAATGTC+GGG 0.530692 7.1:-24500829 MS.gene024011:CDS
AAGCATACTGGGATAAAATC+CGG 0.535099 7.1:+24500530 None:intergenic
TGATGACAGAGGAGACCTGT+TGG 0.537373 7.1:-24500453 MS.gene024011:CDS
ATTCAAGAACGACCCGACAT+TGG 0.540647 7.1:+24500817 None:intergenic
CTGTTGGAGTATCACTCCTA+TGG 0.542565 7.1:-24500437 MS.gene024011:CDS
CCAGTATGCTTTACAAATGG+TGG 0.556297 7.1:-24500518 MS.gene024011:CDS
CTCATTGAGAGCTAATGAGT+GGG 0.557112 7.1:-24500897 MS.gene024011:CDS
GTTGGACCAGTTGCTGATGG+TGG 0.559934 7.1:-24500488 MS.gene024011:CDS
ATTGTTGGACCAGTTGCTGA+TGG 0.574060 7.1:-24500491 MS.gene024011:CDS
TCTGAAGATGATCCCAATGT+CGG 0.583096 7.1:-24500830 MS.gene024011:CDS
ACTGGGATAAAATCCGGAGC+GGG 0.593830 7.1:+24500536 None:intergenic
TCTCATTGAGAGCTAATGAG+TGG 0.598081 7.1:-24500898 MS.gene024011:CDS
TTATAATTATGAGACCAAAA+GGG 0.608278 7.1:-24500774 MS.gene024011:CDS
AAGCTTGTTCAGAGCCATCA+GGG 0.627527 7.1:+24500357 None:intergenic
AAATTGATATTAAAATCATG+TGG 0.650461 7.1:+24500698 None:intergenic
TTAGCAAAGCTTGATGACAG+AGG 0.669327 7.1:-24500464 MS.gene024011:CDS
TACTGGGATAAAATCCGGAG+CGG 0.669643 7.1:+24500535 None:intergenic
TGCAGAGTAACAGTCACCAT+AGG 0.670737 7.1:+24500421 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTGATATTAAAATCATG+TGG + chr7.1:24500640-24500659 None:intergenic 15.0%
!! ATTACTGTAATTGTATTTGA+AGG + chr7.1:24500392-24500411 None:intergenic 20.0%
!! TTATAATTATGAGACCAAAA+GGG - chr7.1:24500561-24500580 MS.gene024011:CDS 20.0%
!! TTTATAATTATGAGACCAAA+AGG - chr7.1:24500560-24500579 MS.gene024011:CDS 20.0%
!!! TATTATTGCCTTTGATTTAA+AGG - chr7.1:24500588-24500607 MS.gene024011:CDS 20.0%
!! TGTCATTTCCTTTAAATCAA+AGG + chr7.1:24500599-24500618 None:intergenic 25.0%
AATACAAAGTGCATTCATCT+TGG - chr7.1:24500749-24500768 MS.gene024011:CDS 30.0%
AGATGTCTACACTTAAGATA+TGG - chr7.1:24500716-24500735 MS.gene024011:CDS 30.0%
GATGTCTACACTTAAGATAT+GGG - chr7.1:24500717-24500736 MS.gene024011:CDS 30.0%
TTGATTCTCATTTGCCTTAT+AGG - chr7.1:24500473-24500492 MS.gene024011:CDS 30.0%
! AGTGATTACATGGTAGTTTT+GGG - chr7.1:24500364-24500383 MS.gene024011:CDS 30.0%
! TAATACTAGCTTGATTGACT+TGG - chr7.1:24500408-24500427 MS.gene024011:CDS 30.0%
! TCTTGAATGGTTCTATTCAT+TGG - chr7.1:24500533-24500552 MS.gene024011:CDS 30.0%
AAGCATACTGGGATAAAATC+CGG + chr7.1:24500808-24500827 None:intergenic 35.0%
ACTCTGTATACACTGCTATT+TGG + chr7.1:24500945-24500964 None:intergenic 35.0%
ATCCCAGTATGCTTTACAAA+TGG - chr7.1:24500814-24500833 MS.gene024011:CDS 35.0%
CACCATTTGTAAAGCATACT+GGG + chr7.1:24500819-24500838 None:intergenic 35.0%
! ACAAATGGTGGTGATATTGT+TGG - chr7.1:24500829-24500848 MS.gene024011:CDS 35.0%
! CAGTGATTACATGGTAGTTT+TGG - chr7.1:24500363-24500382 MS.gene024011:CDS 35.0%
! CTCTGTATACACTGCTATTT+GGG + chr7.1:24500944-24500963 None:intergenic 35.0%
! GGCAATAATAACATCCCTTT+TGG + chr7.1:24500578-24500597 None:intergenic 35.0%
! TATGATTTGTCCGTATTTCG+CGG - chr7.1:24500670-24500689 MS.gene024011:CDS 35.0%
!! GTGATTACATGGTAGTTTTG+GGG - chr7.1:24500365-24500384 MS.gene024011:CDS 35.0%
ACTGATAAGTCCGCGAAATA+CGG + chr7.1:24500683-24500702 None:intergenic 40.0%
CCACCATTTGTAAAGCATAC+TGG + chr7.1:24500820-24500839 None:intergenic 40.0%
CCAGTATGCTTTACAAATGG+TGG - chr7.1:24500817-24500836 MS.gene024011:CDS 40.0%
CTCATTGAGAGCTAATGAGT+GGG - chr7.1:24500438-24500457 MS.gene024011:CDS 40.0%
TCAGAGTTTGCAGTCCTATA+AGG + chr7.1:24500490-24500509 None:intergenic 40.0%
TCTCATTGAGAGCTAATGAG+TGG - chr7.1:24500437-24500456 MS.gene024011:CDS 40.0%
TCTGAAGATGATCCCAATGT+CGG - chr7.1:24500505-24500524 MS.gene024011:CDS 40.0%
! TTAGCAAAGCTTGATGACAG+AGG - chr7.1:24500871-24500890 MS.gene024011:CDS 40.0%
! TTTTTCTTTTCATCCCGCTC+CGG - chr7.1:24500786-24500805 MS.gene024011:CDS 40.0%
AATGTCGGGTCGTTCTTGAA+TGG - chr7.1:24500520-24500539 MS.gene024011:CDS 45.0%
ATTCAAGAACGACCCGACAT+TGG + chr7.1:24500521-24500540 None:intergenic 45.0%
ATTGTTGGACCAGTTGCTGA+TGG - chr7.1:24500844-24500863 MS.gene024011:CDS 45.0%
CATAGGAGTGATACTCCAAC+AGG + chr7.1:24500900-24500919 None:intergenic 45.0%
CTGAAGATGATCCCAATGTC+GGG - chr7.1:24500506-24500525 MS.gene024011:CDS 45.0%
TACTGGGATAAAATCCGGAG+CGG + chr7.1:24500803-24500822 None:intergenic 45.0%
TCTTTGCTTTCACTCCCTGA+TGG - chr7.1:24500964-24500983 MS.gene024011:CDS 45.0%
TGCAGAGTAACAGTCACCAT+AGG + chr7.1:24500917-24500936 None:intergenic 45.0%
TTCAAGAACGACCCGACATT+GGG + chr7.1:24500520-24500539 None:intergenic 45.0%
TTCGCGGACTTATCAGTGTA+TGG - chr7.1:24500686-24500705 MS.gene024011:CDS 45.0%
! AAGCTTGTTCAGAGCCATCA+GGG + chr7.1:24500981-24501000 None:intergenic 45.0%
! CTGTTGGAGTATCACTCCTA+TGG - chr7.1:24500898-24500917 MS.gene024011:CDS 45.0%
! TAAGCTTGTTCAGAGCCATC+AGG + chr7.1:24500982-24501001 None:intergenic 45.0%
ACTGGGATAAAATCCGGAGC+GGG + chr7.1:24500802-24500821 None:intergenic 50.0%
GCTAATCCACCATCAGCAAC+TGG + chr7.1:24500856-24500875 None:intergenic 50.0%
TGATGACAGAGGAGACCTGT+TGG - chr7.1:24500882-24500901 MS.gene024011:CDS 50.0%
GTTGGACCAGTTGCTGATGG+TGG - chr7.1:24500847-24500866 MS.gene024011:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 24500355 24501002 24500355 ID=MS.gene024011
chr7.1 mRNA 24500355 24501002 24500355 ID=MS.gene024011.t1;Parent=MS.gene024011
chr7.1 exon 24500355 24501002 24500355 ID=MS.gene024011.t1.exon1;Parent=MS.gene024011.t1
chr7.1 CDS 24500355 24501002 24500355 ID=cds.MS.gene024011.t1;Parent=MS.gene024011.t1
Gene Sequence

>MS.gene024011

ATGTCAAGCAGTGATTACATGGTAGTTTTGGGGTCCTTCAAATACAATTACAGTAATACTAGCTTGATTGACTTGGAGATTTTCTCATTGAGAGCTAATGAGTGGGAAAAAGTTAAGTTTGATTCTCATTTGCCTTATAGGACTGCAAACTCTGAAGATGATCCCAATGTCGGGTCGTTCTTGAATGGTTCTATTCATTGGCTGCTTTATAATTATGAGACCAAAAGGGATGTTATTATTGCCTTTGATTTAAAGGAAATGACAATGTCTGAGATTGCTCTTCCACATGATTTTAATATCAATTTTTCTAACGTTTATGATTTGTCCGTATTTCGCGGACTTATCAGTGTATGGAATGTCGAGATGTCTACACTTAAGATATGGGTAATGCAAGAATACAAAGTGCATTCATCTTGGACTAAGACTCTTGATTTTTCTTTTCATCCCGCTCCGGATTTTATCCCAGTATGCTTTACAAATGGTGGTGATATTGTTGGACCAGTTGCTGATGGTGGATTAGCAAAGCTTGATGACAGAGGAGACCTGTTGGAGTATCACTCCTATGGTGACTGTTACTCTGCAATATCCCAAATAGCAGTGTATACAGAGTCTTTGCTTTCACTCCCTGATGGCTCTGAACAAGCTTAA
Protein sequence

>MS.gene024011.t1

MSSSDYMVVLGSFKYNYSNTSLIDLEIFSLRANEWEKVKFDSHLPYRTANSEDDPNVGSFLNGSIHWLLYNYETKRDVIIAFDLKEMTMSEIALPHDFNINFSNVYDLSVFRGLISVWNVEMSTLKIWVMQEYKVHSSWTKTLDFSFHPAPDFIPVCFTNGGDIVGPVADGGLAKLDDRGDLLEYHSYGDCYSAISQIAVYTESLLSLPDGSEQA