AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33420

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33420.t1 MTR_4g013320 93.467 199 13 0 1 199 1 199 1.63e-130 365
MS.gene33420.t1 MTR_4g013350 77.889 199 42 1 1 199 1 197 6.70e-111 315
MS.gene33420.t1 MTR_4g013330 79.104 201 38 2 1 199 1 199 3.26e-108 308
MS.gene33420.t1 MTR_4g013345 76.884 199 43 1 1 199 1 196 5.36e-108 308
MS.gene33420.t1 MTR_4g013310 72.864 199 52 1 1 199 1 197 4.90e-98 283
MS.gene33420.t1 MTR_4g013335 71.196 184 49 2 16 199 17 196 6.72e-98 282
MS.gene33420.t1 MTR_4g013325 72.500 200 53 2 1 199 1 199 2.62e-92 268
MS.gene33420.t1 MTR_7g070390 71.345 171 47 2 30 199 23 192 1.97e-80 238
MS.gene33420.t1 MTR_4g013385 59.162 191 70 4 9 199 8 190 2.17e-73 220
MS.gene33420.t1 MTR_0433s0040 59.162 191 70 4 9 199 8 190 2.17e-73 220
MS.gene33420.t1 MTR_1g054525 56.571 175 74 1 25 199 20 192 9.21e-68 206
MS.gene33420.t1 MTR_4g013770 57.647 170 69 2 31 199 24 191 3.10e-65 199
MS.gene33420.t1 MTR_4g013355 52.880 191 73 4 9 199 6 179 1.70e-61 189
MS.gene33420.t1 MTR_4g073950 54.545 154 68 2 48 199 39 192 2.59e-57 179
MS.gene33420.t1 MTR_7g093820 48.404 188 92 4 13 199 11 194 3.55e-55 174
MS.gene33420.t1 MTR_7g093790 48.193 166 84 2 35 199 27 191 5.64e-55 173
MS.gene33420.t1 MTR_7g093850 47.872 188 93 4 13 199 11 194 5.98e-55 173
MS.gene33420.t1 MTR_7g093830 46.277 188 96 4 13 199 10 193 5.41e-54 171
MS.gene33420.t1 MTR_7g093870 53.846 156 67 2 49 199 38 193 5.70e-54 171
MS.gene33420.t1 MTR_1g056370 50.000 146 71 2 54 198 41 185 6.28e-47 152
MS.gene33420.t1 MTR_3g105640 46.584 161 84 2 41 199 28 188 5.08e-46 150
MS.gene33420.t1 MTR_3g105630 45.283 159 84 2 44 199 31 189 1.12e-42 142
MS.gene33420.t1 MTR_4g078885 45.270 148 79 1 52 199 40 185 1.48e-41 139
MS.gene33420.t1 MTR_3g034030 45.270 148 79 1 52 199 40 185 5.33e-41 137
MS.gene33420.t1 MTR_5g096120 41.667 156 79 3 52 199 38 189 5.79e-38 130
MS.gene33420.t1 MTR_4g122110 40.141 142 85 0 58 199 39 180 1.08e-29 108
MS.gene33420.t1 MTR_4g122130 38.621 145 83 2 58 199 39 180 7.03e-27 101
MS.gene33420.t1 MTR_4g049550 29.932 147 103 0 48 194 27 173 7.03e-19 80.5
MS.gene33420.t1 MTR_4g049570 30.612 147 94 2 52 194 31 173 9.15e-19 80.1
MS.gene33420.t1 MTR_4g013340 40.625 96 22 1 104 199 78 138 3.39e-17 74.7
MS.gene33420.t1 MTR_8g099115 34.586 133 78 3 58 182 41 172 3.67e-17 76.3
MS.gene33420.t1 MTR_8g099135 33.088 136 74 4 59 182 38 168 2.44e-14 68.6
MS.gene33420.t1 MTR_8g073770 34.459 148 82 7 55 195 42 181 4.91e-13 65.1
MS.gene33420.t1 MTR_8g073850 34.459 148 82 7 55 195 42 181 5.06e-13 65.1
MS.gene33420.t1 MTR_1g115510 35.246 122 66 5 87 198 235 353 4.76e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33420.t1 AT1G55210 62.424 165 59 1 35 199 26 187 5.43e-74 221
MS.gene33420.t1 AT1G55210 62.424 165 59 1 35 199 26 187 5.43e-74 221
MS.gene33420.t1 AT5G49040 54.497 189 85 1 11 199 4 191 5.27e-73 219
MS.gene33420.t1 AT1G58170 63.816 152 55 0 48 199 34 185 1.16e-72 218
MS.gene33420.t1 AT3G13650 51.852 189 85 3 11 199 4 186 1.96e-64 197
MS.gene33420.t1 AT5G49030 53.672 177 79 1 9 185 4 177 3.36e-57 194
MS.gene33420.t1 AT3G13662 56.376 149 62 2 38 186 27 172 4.05e-55 173
MS.gene33420.t1 AT2G21100 54.362 149 68 0 50 198 39 187 6.56e-55 173
MS.gene33420.t1 AT2G21100 54.362 149 68 0 50 198 39 187 6.56e-55 173
MS.gene33420.t1 AT1G65870 50.331 151 75 0 48 198 39 189 5.80e-53 168
MS.gene33420.t1 AT3G13660 65.254 118 41 0 82 199 8 125 3.06e-52 164
MS.gene33420.t1 AT1G22900 50.331 151 73 1 48 198 45 193 1.95e-48 157
MS.gene33420.t1 AT5G42500 48.000 150 76 1 49 198 38 185 9.14e-47 152
MS.gene33420.t1 AT5G42510 48.684 152 72 3 49 198 35 182 1.26e-45 149
MS.gene33420.t1 AT2G21110 41.860 172 90 2 32 199 21 186 1.31e-41 139
MS.gene33420.t1 AT4G38700 44.231 156 81 3 50 199 35 190 4.10e-41 138
MS.gene33420.t1 AT3G58090 54.128 109 50 0 90 198 163 271 4.81e-39 135
MS.gene33420.t1 AT4G11210 29.714 175 111 4 8 182 4 166 1.72e-15 71.6
MS.gene33420.t1 AT4G23690 33.813 139 85 3 47 181 34 169 3.72e-14 68.2
MS.gene33420.t1 AT1G64160 29.851 134 87 3 53 182 35 165 1.67e-12 63.5
MS.gene33420.t1 AT4G11190 29.927 137 87 5 42 174 27 158 8.00e-11 58.9

Find 37 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGATGACCCTTTGACTTT+AGG 0.248779 4.2:+87187338 MS.gene33420:CDS
ACTATCTTGGGGAGGAATTC+TGG 0.259975 4.2:+87187491 MS.gene33420:CDS
CTAAACACAACCACTTCTTT+TGG 0.324796 4.2:+87187302 MS.gene33420:CDS
CATTGGTTTGATCTCAAAAC+TGG 0.336336 4.2:+87187596 MS.gene33420:CDS
GGTAGTACTATTACTATCTT+GGG 0.346488 4.2:+87187479 MS.gene33420:CDS
CCTAACAACTTGCGGTCTAT+TGG 0.349675 4.2:-87187176 None:intergenic
TCTGCATCACAAGATGCTTT+TGG 0.353686 4.2:+87187410 MS.gene33420:CDS
GAGGAATTCTGGTATTAATA+AGG 0.355147 4.2:+87187502 MS.gene33420:CDS
TTCATTGAAGGAAAGTATAA+TGG 0.359474 4.2:+87187458 MS.gene33420:CDS
CCAATAGACCGCAAGTTGTT+AGG 0.362080 4.2:+87187176 MS.gene33420:CDS
TGGTAGTACTATTACTATCT+TGG 0.363892 4.2:+87187478 MS.gene33420:CDS
TAAGTCACTTCAGATTCTAT+TGG 0.373289 4.2:+87187219 MS.gene33420:CDS
ATGCCTATTGTTGGTGGTAG+TGG 0.375988 4.2:+87187533 MS.gene33420:CDS
AAGTGAGAGTGTTGCAAGAG+AGG 0.407219 4.2:-87187103 None:intergenic
CAATTGAGTTCAAAGCTTGT+TGG 0.414835 4.2:+87187365 MS.gene33420:CDS
GAGTGTTGCAAGAGAGGAGA+AGG 0.459092 4.2:-87187097 None:intergenic
AGTCCACTACCACCAACAAT+AGG 0.461846 4.2:-87187536 None:intergenic
AGAACAAATTGAGAAAATGA+TGG 0.464684 4.2:-87187070 None:intergenic
ATGCTCAAGCTAGTACTCAT+TGG 0.468719 4.2:+87187579 MS.gene33420:CDS
TAGAACAATTGTAATTGCAG+TGG 0.501899 4.2:-87187267 None:intergenic
AATTGTGGTCCTAAAGTCAA+AGG 0.518289 4.2:-87187347 None:intergenic
AGGGAGATGCCTATTGTTGG+TGG 0.523499 4.2:+87187527 MS.gene33420:CDS
GAACAAATTGAGAAAATGAT+GGG 0.523672 4.2:-87187069 None:intergenic
AAGCTTGTTGGAAAAGCTCA+AGG 0.537211 4.2:+87187377 MS.gene33420:CDS
GCTAGGGAGATGCCTATTGT+TGG 0.537497 4.2:+87187524 MS.gene33420:CDS
TGTTTAGGCCTAACAACTTG+CGG 0.544500 4.2:-87187184 None:intergenic
AGAACAATTGTAATTGCAGT+GGG 0.544725 4.2:-87187266 None:intergenic
TATTGGCATGATATCTTGAG+TGG 0.547416 4.2:+87187236 MS.gene33420:CDS
TTCTGGTATTAATAAGGCTA+GGG 0.556111 4.2:+87187508 MS.gene33420:CDS
ATTCTGGTATTAATAAGGCT+AGG 0.573511 4.2:+87187507 MS.gene33420:CDS
GTTGTGTTTAGCTTCAATGT+TGG 0.584439 4.2:-87187290 None:intergenic
ATTGTGGTCCTAAAGTCAAA+GGG 0.585066 4.2:-87187346 None:intergenic
ACAAGCTTTGAACTCAATTG+TGG 0.587677 4.2:-87187362 None:intergenic
ATTGGCATGATATCTTGAGT+GGG 0.617876 4.2:+87187237 MS.gene33420:CDS
GTTGACTGAACCAAAAGAAG+TGG 0.640485 4.2:-87187312 None:intergenic
GTACTATTACTATCTTGGGG+AGG 0.673978 4.2:+87187483 MS.gene33420:CDS
GTAGTACTATTACTATCTTG+GGG 0.684734 4.2:+87187480 MS.gene33420:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAACAAATTGAGAAAATGA+TGG - chr4.2:87187073-87187092 None:intergenic 25.0%
! GAACAAATTGAGAAAATGAT+GGG - chr4.2:87187072-87187091 None:intergenic 25.0%
!! ATGAATTTTGCTTTCATTGA+AGG + chr4.2:87187446-87187465 MS.gene33420:CDS 25.0%
!! TTCATTGAAGGAAAGTATAA+TGG + chr4.2:87187458-87187477 MS.gene33420:CDS 25.0%
!!! TTAGTTTTGCTTTCTTGTTT+AGG - chr4.2:87187202-87187221 None:intergenic 25.0%
AGAACAATTGTAATTGCAGT+GGG - chr4.2:87187269-87187288 None:intergenic 30.0%
ATTCTGGTATTAATAAGGCT+AGG + chr4.2:87187507-87187526 MS.gene33420:CDS 30.0%
GAGGAATTCTGGTATTAATA+AGG + chr4.2:87187502-87187521 MS.gene33420:CDS 30.0%
GGTAGTACTATTACTATCTT+GGG + chr4.2:87187479-87187498 MS.gene33420:CDS 30.0%
GTAGTACTATTACTATCTTG+GGG + chr4.2:87187480-87187499 MS.gene33420:CDS 30.0%
TAAGTCACTTCAGATTCTAT+TGG + chr4.2:87187219-87187238 MS.gene33420:CDS 30.0%
TAGAACAATTGTAATTGCAG+TGG - chr4.2:87187270-87187289 None:intergenic 30.0%
TGGTAGTACTATTACTATCT+TGG + chr4.2:87187478-87187497 MS.gene33420:CDS 30.0%
TTCTGGTATTAATAAGGCTA+GGG + chr4.2:87187508-87187527 MS.gene33420:CDS 30.0%
AATTGTGGTCCTAAAGTCAA+AGG - chr4.2:87187350-87187369 None:intergenic 35.0%
ATTGGCATGATATCTTGAGT+GGG + chr4.2:87187237-87187256 MS.gene33420:CDS 35.0%
ATTGTGGTCCTAAAGTCAAA+GGG - chr4.2:87187349-87187368 None:intergenic 35.0%
CAATTGAGTTCAAAGCTTGT+TGG + chr4.2:87187365-87187384 MS.gene33420:CDS 35.0%
TATTGGCATGATATCTTGAG+TGG + chr4.2:87187236-87187255 MS.gene33420:CDS 35.0%
! CTAAACACAACCACTTCTTT+TGG + chr4.2:87187302-87187321 MS.gene33420:CDS 35.0%
! GTTGTGTTTAGCTTCAATGT+TGG - chr4.2:87187293-87187312 None:intergenic 35.0%
! TTTGATGACCCTTTGACTTT+AGG + chr4.2:87187338-87187357 MS.gene33420:CDS 35.0%
!! ACAAGCTTTGAACTCAATTG+TGG - chr4.2:87187365-87187384 None:intergenic 35.0%
!! CATTGGTTTGATCTCAAAAC+TGG + chr4.2:87187596-87187615 MS.gene33420:CDS 35.0%
!!! AGATGCTTTTGGTTTTCTCA+TGG + chr4.2:87187421-87187440 MS.gene33420:CDS 35.0%
!!! GACTTTTCAGATTTGCTAGA+GGG + chr4.2:87187555-87187574 MS.gene33420:CDS 35.0%
ATGCTCAAGCTAGTACTCAT+TGG + chr4.2:87187579-87187598 MS.gene33420:CDS 40.0%
GTACTATTACTATCTTGGGG+AGG + chr4.2:87187483-87187502 MS.gene33420:CDS 40.0%
GTTGACTGAACCAAAAGAAG+TGG - chr4.2:87187315-87187334 None:intergenic 40.0%
TGTTTAGGCCTAACAACTTG+CGG - chr4.2:87187187-87187206 None:intergenic 40.0%
! TCTGCATCACAAGATGCTTT+TGG + chr4.2:87187410-87187429 MS.gene33420:CDS 40.0%
!! AAGCTTGTTGGAAAAGCTCA+AGG + chr4.2:87187377-87187396 MS.gene33420:CDS 40.0%
!!! GGACTTTTCAGATTTGCTAG+AGG + chr4.2:87187554-87187573 MS.gene33420:CDS 40.0%
ACTATCTTGGGGAGGAATTC+TGG + chr4.2:87187491-87187510 MS.gene33420:CDS 45.0%
AGTCCACTACCACCAACAAT+AGG - chr4.2:87187539-87187558 None:intergenic 45.0%
CCAATAGACCGCAAGTTGTT+AGG + chr4.2:87187176-87187195 MS.gene33420:CDS 45.0%
CCTAACAACTTGCGGTCTAT+TGG - chr4.2:87187179-87187198 None:intergenic 45.0%
!! AAGTGAGAGTGTTGCAAGAG+AGG - chr4.2:87187106-87187125 None:intergenic 45.0%
!! ATGCCTATTGTTGGTGGTAG+TGG + chr4.2:87187533-87187552 MS.gene33420:CDS 45.0%
AGGGAGATGCCTATTGTTGG+TGG + chr4.2:87187527-87187546 MS.gene33420:CDS 50.0%
GCTAGGGAGATGCCTATTGT+TGG + chr4.2:87187524-87187543 MS.gene33420:CDS 50.0%
! GAGTGTTGCAAGAGAGGAGA+AGG - chr4.2:87187100-87187119 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 87187062 87187661 87187062 ID=MS.gene33420
chr4.2 mRNA 87187062 87187661 87187062 ID=MS.gene33420.t1;Parent=MS.gene33420
chr4.2 exon 87187062 87187661 87187062 ID=MS.gene33420.t1.exon1;Parent=MS.gene33420.t1
chr4.2 CDS 87187062 87187661 87187062 ID=cds.MS.gene33420.t1;Parent=MS.gene33420.t1
Gene Sequence

>MS.gene33420

ATGCTTTCCCATCATTTTCTCAATTTGTTCTTCTTCCTTCTCCTCTCTTGCAACACTCTCACTTCAACTTCATTACAATCTTTAGAAAAACAAGAAACTTTTGATTTTGTTCGTCCAATAGACCGCAAGTTGTTAGGCCTAAACAAGAAAGCAAAACTAAGTCACTTCAGATTCTATTGGCATGATATCTTGAGTGGGAAAAATCCCACTGCAATTACAATTGTTCTACCAACATTGAAGCTAAACACAACCACTTCTTTTGGTTCAGTCAACATGTTTGATGACCCTTTGACTTTAGGACCACAATTGAGTTCAAAGCTTGTTGGAAAAGCTCAAGGTTTCTATGCATCTGCATCACAAGATGCTTTTGGTTTTCTCATGGCTATGAATTTTGCTTTCATTGAAGGAAAGTATAATGGTAGTACTATTACTATCTTGGGGAGGAATTCTGGTATTAATAAGGCTAGGGAGATGCCTATTGTTGGTGGTAGTGGACTTTTCAGATTTGCTAGAGGGTATGCTCAAGCTAGTACTCATTGGTTTGATCTCAAAACTGGAGATGCTATTGTTGAGTACAATGTTTATGTTTTTCACTATTGA
Protein sequence

>MS.gene33420.t1

MLSHHFLNLFFFLLLSCNTLTSTSLQSLEKQETFDFVRPIDRKLLGLNKKAKLSHFRFYWHDILSGKNPTAITIVLPTLKLNTTTSFGSVNMFDDPLTLGPQLSSKLVGKAQGFYASASQDAFGFLMAMNFAFIEGKYNGSTITILGRNSGINKAREMPIVGGSGLFRFARGYAQASTHWFDLKTGDAIVEYNVYVFHY