AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene98692

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98692.t1 MTR_7g070390 95.312 192 9 0 1 192 1 192 1.21e-127 357
MS.gene98692.t1 MTR_4g013320 69.945 183 51 3 11 192 20 199 1.68e-88 258
MS.gene98692.t1 MTR_4g013350 67.778 180 56 2 14 192 19 197 2.84e-88 258
MS.gene98692.t1 MTR_4g013345 69.101 178 53 2 16 192 20 196 2.51e-87 255
MS.gene98692.t1 MTR_4g013330 67.403 181 54 3 16 192 20 199 9.22e-86 251
MS.gene98692.t1 MTR_4g013335 68.235 170 52 2 23 192 29 196 1.45e-84 248
MS.gene98692.t1 MTR_4g013325 70.303 165 46 2 29 192 37 199 4.57e-81 239
MS.gene98692.t1 MTR_4g013310 66.667 171 53 3 23 192 30 197 6.89e-80 236
MS.gene98692.t1 MTR_4g013385 56.383 188 79 1 5 192 6 190 1.19e-75 225
MS.gene98692.t1 MTR_0433s0040 56.383 188 79 1 5 192 6 190 1.19e-75 225
MS.gene98692.t1 MTR_4g013770 57.895 171 67 2 24 192 24 191 4.11e-68 206
MS.gene98692.t1 MTR_1g054525 47.872 188 89 4 6 192 13 192 2.85e-59 184
MS.gene98692.t1 MTR_4g013355 47.090 189 86 3 5 192 4 179 2.30e-57 179
MS.gene98692.t1 MTR_4g073950 48.235 170 81 2 30 192 23 192 4.13e-54 171
MS.gene98692.t1 MTR_7g093870 50.641 156 71 2 43 192 38 193 1.32e-52 168
MS.gene98692.t1 MTR_7g093790 44.920 187 96 4 11 192 7 191 1.90e-51 164
MS.gene98692.t1 MTR_7g093850 50.000 168 78 4 28 192 30 194 1.08e-50 162
MS.gene98692.t1 MTR_7g093820 51.634 153 70 3 43 192 43 194 1.28e-50 162
MS.gene98692.t1 MTR_7g093830 48.810 168 80 4 28 192 29 193 7.01e-50 160
MS.gene98692.t1 MTR_1g056370 46.061 165 85 2 31 191 21 185 1.80e-49 159
MS.gene98692.t1 MTR_3g105640 41.622 185 97 3 11 192 12 188 3.86e-47 153
MS.gene98692.t1 MTR_5g096120 41.538 195 97 5 5 192 5 189 2.75e-45 148
MS.gene98692.t1 MTR_3g105630 39.474 190 103 3 7 192 8 189 5.34e-45 147
MS.gene98692.t1 MTR_4g078885 45.223 157 85 1 36 192 30 185 1.18e-44 146
MS.gene98692.t1 MTR_3g034030 45.223 157 85 1 36 192 30 185 2.96e-44 145
MS.gene98692.t1 MTR_4g122110 33.562 146 96 1 48 192 35 180 1.43e-23 92.4
MS.gene98692.t1 MTR_4g122130 32.192 146 98 1 48 192 35 180 8.38e-21 85.1
MS.gene98692.t1 MTR_4g049550 28.000 150 107 1 39 187 24 173 8.43e-19 80.1
MS.gene98692.t1 MTR_4g049570 27.972 143 102 1 46 187 31 173 1.09e-16 74.3
MS.gene98692.t1 MTR_8g099115 30.769 143 89 3 44 177 33 174 1.91e-15 71.2
MS.gene98692.t1 MTR_8g099135 30.000 140 88 3 47 177 32 170 1.84e-14 68.6
MS.gene98692.t1 MTR_1g115510 34.454 119 71 3 80 191 235 353 6.78e-13 66.2
MS.gene98692.t1 MTR_1g046800 36.957 92 57 1 79 170 135 225 9.47e-12 62.4
MS.gene98692.t1 MTR_1g046500 36.957 92 57 1 79 170 135 225 1.23e-11 62.0
MS.gene98692.t1 MTR_1g046490 33.696 92 60 1 79 170 121 211 1.94e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98692.t1 AT1G58170 67.532 154 49 1 40 192 32 185 1.05e-76 228
MS.gene98692.t1 AT5G49040 53.646 192 84 3 5 192 1 191 2.17e-67 204
MS.gene98692.t1 AT1G55210 51.832 191 82 4 2 192 7 187 1.01e-66 202
MS.gene98692.t1 AT1G55210 51.832 191 82 4 2 192 7 187 1.01e-66 202
MS.gene98692.t1 AT3G13650 51.075 186 87 3 7 192 5 186 6.71e-66 201
MS.gene98692.t1 AT1G65870 51.656 151 72 1 42 191 39 189 3.55e-55 173
MS.gene98692.t1 AT5G49030 52.809 178 79 3 5 178 1 177 5.23e-52 179
MS.gene98692.t1 AT3G13660 56.800 125 54 0 68 192 1 125 6.31e-51 160
MS.gene98692.t1 AT1G22900 51.656 151 70 2 42 191 45 193 4.31e-50 160
MS.gene98692.t1 AT2G21100 46.711 152 80 1 41 191 36 187 1.18e-49 159
MS.gene98692.t1 AT2G21100 46.711 152 80 1 41 191 36 187 1.18e-49 159
MS.gene98692.t1 AT5G42500 48.000 150 75 2 43 191 38 185 2.73e-49 158
MS.gene98692.t1 AT3G13662 46.471 170 88 2 8 177 4 170 8.07e-49 157
MS.gene98692.t1 AT5G42510 47.333 150 76 2 43 191 35 182 6.12e-48 155
MS.gene98692.t1 AT4G38700 36.598 194 110 5 6 192 3 190 1.09e-39 134
MS.gene98692.t1 AT3G58090 50.909 110 54 0 82 191 162 271 4.15e-39 135
MS.gene98692.t1 AT2G21110 38.710 155 90 1 43 192 32 186 1.04e-35 124
MS.gene98692.t1 AT4G11210 28.659 164 111 3 8 171 5 162 4.48e-14 67.8

Find 43 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTAGCACCATCACTATTT+TGG 0.149780 7.1:-31476123 MS.gene98692:CDS
AATTCAGGTCCTAAGGTTAA+AGG 0.192169 7.1:+31476254 None:intergenic
AGACCTCAAAGAATTAAATT+TGG 0.222841 7.1:-31476420 MS.gene98692:CDS
GTCTAATGAACGTACGAAAT+TGG 0.292324 7.1:+31476439 None:intergenic
ACCAATTTGGAACTCAATTC+AGG 0.296828 7.1:+31476239 None:intergenic
GGAGAAAGAGGACGGAGAAT+TGG 0.307916 7.1:+31476510 None:intergenic
GTTAGGGAAATGCCTATAAT+TGG 0.317348 7.1:-31476077 MS.gene98692:CDS
ACCTGAATTGAGTTCCAAAT+TGG 0.324732 7.1:-31476240 MS.gene98692:CDS
TGCTTTGATTAAAGATGTTA+AGG 0.334271 7.1:+31476475 None:intergenic
TAAGCCATTTAAAATTCTAT+TGG 0.343050 7.1:-31476379 MS.gene98692:CDS
AGACCACTACCACCAATTAT+AGG 0.344419 7.1:+31476065 None:intergenic
TCTCCAAATTTAATTCTTTG+AGG 0.362138 7.1:+31476417 None:intergenic
TCCCTAACCTTATCATAAAC+AGG 0.368028 7.1:+31476092 None:intergenic
TTCAAAGGTGGTGGAACAAT+TGG 0.377643 7.1:+31476320 None:intergenic
ATTCAGGTCCTAAGGTTAAA+GGG 0.391274 7.1:+31476255 None:intergenic
ATCCTGTTTATGATAAGGTT+AGG 0.398598 7.1:-31476094 MS.gene98692:CDS
ATGCTCAACTTAGAACTCAT+TGG 0.409836 7.1:-31476022 MS.gene98692:CDS
AACTATAGCATCATTTGTCT+TGG 0.421397 7.1:+31475992 None:intergenic
GAGGAATCCTGTTTATGATA+AGG 0.426161 7.1:-31476099 MS.gene98692:CDS
TATTGGCATGACATAGTTAG+TGG 0.428044 7.1:-31476362 MS.gene98692:CDS
ATTGAGAACCCTTTAACCTT+AGG 0.428940 7.1:-31476263 MS.gene98692:CDS
GGAACAATTGGTATTGAAGA+AGG 0.439349 7.1:+31476332 None:intergenic
GCTTTGATTAAAGATGTTAA+GGG 0.471385 7.1:+31476476 None:intergenic
TCCTGTTTATGATAAGGTTA+GGG 0.471393 7.1:-31476093 MS.gene98692:CDS
GAATTGAGTTCCAAATTGGT+TGG 0.472993 7.1:-31476236 MS.gene98692:CDS
GAGTTGTGAAGAGGAGAAAG+AGG 0.482840 7.1:+31476498 None:intergenic
CAAAATTCATAGCCATGATA+AGG 0.483642 7.1:+31476168 None:intergenic
GGAACTCAATTCAGGTCCTA+AGG 0.484438 7.1:+31476247 None:intergenic
GAGCATATCCTCTAGCAAAT+CGG 0.492927 7.1:+31476039 None:intergenic
ATGCCTATAATTGGTGGTAG+TGG 0.495021 7.1:-31476068 MS.gene98692:CDS
GAACAATTGGTATTGAAGAA+GGG 0.509427 7.1:+31476333 None:intergenic
TGTGAAGAGGAGAAAGAGGA+CGG 0.523907 7.1:+31476502 None:intergenic
TATCTCACTTTGTGATGTTG+AGG 0.532804 7.1:+31476193 None:intergenic
AGGGAAATGCCTATAATTGG+TGG 0.578046 7.1:-31476074 MS.gene98692:CDS
ATGTTAAGGGAGTTGTGAAG+AGG 0.579294 7.1:+31476489 None:intergenic
AAATTGGTTGGAAAAGCACA+AGG 0.580992 7.1:-31476224 MS.gene98692:CDS
GTTAACTAAACCAAAGGCAG+TGG 0.584234 7.1:+31476289 None:intergenic
AAGTGAGATAGACCTTATCA+TGG 0.591488 7.1:-31476180 MS.gene98692:CDS
TTTAATCAAAGCAAAACAAG+AGG 0.597496 7.1:-31476465 MS.gene98692:CDS
AATCATGTTAACTAAACCAA+AGG 0.600759 7.1:+31476283 None:intergenic
ATTCCTCCCCAAAATAGTGA+TGG 0.635430 7.1:+31476115 None:intergenic
ATCATTGAAGGGGAGTACAA+TGG 0.652787 7.1:-31476143 MS.gene98692:CDS
AATTGGTTGGAAAAGCACAA+GGG 0.705686 7.1:-31476223 MS.gene98692:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAAGCCATTTAAAATTCTAT+TGG - chr7.1:31476101-31476120 MS.gene98692:CDS 20.0%
! AATCATGTTAACTAAACCAA+AGG + chr7.1:31476200-31476219 None:intergenic 25.0%
! AGACCTCAAAGAATTAAATT+TGG - chr7.1:31476060-31476079 MS.gene98692:CDS 25.0%
! GCTTTGATTAAAGATGTTAA+GGG + chr7.1:31476007-31476026 None:intergenic 25.0%
! TCTCCAAATTTAATTCTTTG+AGG + chr7.1:31476066-31476085 None:intergenic 25.0%
! TGCTTTGATTAAAGATGTTA+AGG + chr7.1:31476008-31476027 None:intergenic 25.0%
! TTTAATCAAAGCAAAACAAG+AGG - chr7.1:31476015-31476034 MS.gene98692:CDS 25.0%
!! CATGCCAATAGAATTTTAAA+TGG + chr7.1:31476108-31476127 None:intergenic 25.0%
!!! ATGAATTTTGCTATCATTGA+AGG - chr7.1:31476325-31476344 MS.gene98692:CDS 25.0%
!!! TGAATTTTGCTATCATTGAA+GGG - chr7.1:31476326-31476345 MS.gene98692:CDS 25.0%
AACTATAGCATCATTTGTCT+TGG + chr7.1:31476491-31476510 None:intergenic 30.0%
ATCCTGTTTATGATAAGGTT+AGG - chr7.1:31476386-31476405 MS.gene98692:CDS 30.0%
CAAAATTCATAGCCATGATA+AGG + chr7.1:31476315-31476334 None:intergenic 30.0%
TCCTGTTTATGATAAGGTTA+GGG - chr7.1:31476387-31476406 MS.gene98692:CDS 30.0%
! GAACAATTGGTATTGAAGAA+GGG + chr7.1:31476150-31476169 None:intergenic 30.0%
!! GAATTTTGCTATCATTGAAG+GGG - chr7.1:31476327-31476346 MS.gene98692:CDS 30.0%
AAGTGAGATAGACCTTATCA+TGG - chr7.1:31476300-31476319 MS.gene98692:CDS 35.0%
AATTCAGGTCCTAAGGTTAA+AGG + chr7.1:31476229-31476248 None:intergenic 35.0%
ACCTGAATTGAGTTCCAAAT+TGG - chr7.1:31476240-31476259 MS.gene98692:CDS 35.0%
ATGCTCAACTTAGAACTCAT+TGG - chr7.1:31476458-31476477 MS.gene98692:CDS 35.0%
ATTCAGGTCCTAAGGTTAAA+GGG + chr7.1:31476228-31476247 None:intergenic 35.0%
ATTGAGAACCCTTTAACCTT+AGG - chr7.1:31476217-31476236 MS.gene98692:CDS 35.0%
GAATTGAGTTCCAAATTGGT+TGG - chr7.1:31476244-31476263 MS.gene98692:CDS 35.0%
GAGGAATCCTGTTTATGATA+AGG - chr7.1:31476381-31476400 MS.gene98692:CDS 35.0%
GTCTAATGAACGTACGAAAT+TGG + chr7.1:31476044-31476063 None:intergenic 35.0%
GTTAGGGAAATGCCTATAAT+TGG - chr7.1:31476403-31476422 MS.gene98692:CDS 35.0%
TATCTCACTTTGTGATGTTG+AGG + chr7.1:31476290-31476309 None:intergenic 35.0%
TATTGGCATGACATAGTTAG+TGG - chr7.1:31476118-31476137 MS.gene98692:CDS 35.0%
TCCCTAACCTTATCATAAAC+AGG + chr7.1:31476391-31476410 None:intergenic 35.0%
! AAATTGGTTGGAAAAGCACA+AGG - chr7.1:31476256-31476275 MS.gene98692:CDS 35.0%
! AATTGGTTGGAAAAGCACAA+GGG - chr7.1:31476257-31476276 MS.gene98692:CDS 35.0%
! ACCAATTTGGAACTCAATTC+AGG + chr7.1:31476244-31476263 None:intergenic 35.0%
! GGAACAATTGGTATTGAAGA+AGG + chr7.1:31476151-31476170 None:intergenic 35.0%
! TTGTGCTTTTCCAACCAATT+TGG + chr7.1:31476257-31476276 None:intergenic 35.0%
AAAAACTCAACCACTGCCTT+TGG - chr7.1:31476181-31476200 MS.gene98692:CDS 40.0%
AGACCACTACCACCAATTAT+AGG + chr7.1:31476418-31476437 None:intergenic 40.0%
AGGGAAATGCCTATAATTGG+TGG - chr7.1:31476406-31476425 MS.gene98692:CDS 40.0%
ATGTTAAGGGAGTTGTGAAG+AGG + chr7.1:31475994-31476013 None:intergenic 40.0%
ATTCCTCCCCAAAATAGTGA+TGG + chr7.1:31476368-31476387 None:intergenic 40.0%
GAGCATATCCTCTAGCAAAT+CGG + chr7.1:31476444-31476463 None:intergenic 40.0%
GTTAACTAAACCAAAGGCAG+TGG + chr7.1:31476194-31476213 None:intergenic 40.0%
! ATCATTGAAGGGGAGTACAA+TGG - chr7.1:31476337-31476356 MS.gene98692:CDS 40.0%
! ATGCCTATAATTGGTGGTAG+TGG - chr7.1:31476412-31476431 MS.gene98692:CDS 40.0%
! GGTAGCACCATCACTATTTT+GGG - chr7.1:31476358-31476377 MS.gene98692:CDS 40.0%
! GTAGCACCATCACTATTTTG+GGG - chr7.1:31476359-31476378 MS.gene98692:CDS 40.0%
! TGGTAGCACCATCACTATTT+TGG - chr7.1:31476357-31476376 MS.gene98692:CDS 40.0%
!! GCAGTGGTTGAGTTTTTCAA+AGG + chr7.1:31476178-31476197 None:intergenic 40.0%
!! GTGGTTGAGTTTTTCAAAGG+TGG + chr7.1:31476175-31476194 None:intergenic 40.0%
!! GTTGAGTTTTTCAAAGGTGG+TGG + chr7.1:31476172-31476191 None:intergenic 40.0%
!! TTCAAAGGTGGTGGAACAAT+TGG + chr7.1:31476163-31476182 None:intergenic 40.0%
GAGTTGTGAAGAGGAGAAAG+AGG + chr7.1:31475985-31476004 None:intergenic 45.0%
GGAACTCAATTCAGGTCCTA+AGG + chr7.1:31476236-31476255 None:intergenic 45.0%
TGTGAAGAGGAGAAAGAGGA+CGG + chr7.1:31475981-31476000 None:intergenic 45.0%
!!! GGTCTTTTCCGATTTGCTAG+AGG - chr7.1:31476433-31476452 MS.gene98692:CDS 45.0%
GGAGAAAGAGGACGGAGAAT+TGG + chr7.1:31475973-31475992 None:intergenic 50.0%
!! GCACCATCACTATTTTGGGG+AGG - chr7.1:31476362-31476381 MS.gene98692:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 31475962 31476540 31475962 ID=MS.gene98692
chr7.1 mRNA 31475962 31476540 31475962 ID=MS.gene98692.t1;Parent=MS.gene98692
chr7.1 exon 31475962 31476540 31475962 ID=MS.gene98692.t1.exon1;Parent=MS.gene98692.t1
chr7.1 CDS 31475962 31476540 31475962 ID=cds.MS.gene98692.t1;Parent=MS.gene98692.t1
Gene Sequence

>MS.gene98692

ATGTTCATCCAATTCTCCGTCCTCTTTCTCCTCTTCACAACTCCCTTAACATCTTTAATCAAAGCAAAACAAGAGGATGCCAATTTCGTACGTTCATTAGACCTCAAAGAATTAAATTTGGAGAATAAACAAGAGAAGCTAAGCCATTTAAAATTCTATTGGCATGACATAGTTAGTGGAAACAACCCTTCTTCAATACCAATTGTTCCACCACCTTTGAAAAACTCAACCACTGCCTTTGGTTTAGTTAACATGATTGAGAACCCTTTAACCTTAGGACCTGAATTGAGTTCCAAATTGGTTGGAAAAGCACAAGGGTTCTATGCCTCAACATCACAAAGTGAGATAGACCTTATCATGGCTATGAATTTTGCTATCATTGAAGGGGAGTACAATGGTAGCACCATCACTATTTTGGGGAGGAATCCTGTTTATGATAAGGTTAGGGAAATGCCTATAATTGGTGGTAGTGGTCTTTTCCGATTTGCTAGAGGATATGCTCAACTTAGAACTCATTGGTTTTCATCCAAGACAAATGATGCTATAGTTGAGTATAATATTTATGTGTTACATTATTAA
Protein sequence

>MS.gene98692.t1

MFIQFSVLFLLFTTPLTSLIKAKQEDANFVRSLDLKELNLENKQEKLSHLKFYWHDIVSGNNPSSIPIVPPPLKNSTTAFGLVNMIENPLTLGPELSSKLVGKAQGFYASTSQSEIDLIMAMNFAIIEGEYNGSTITILGRNPVYDKVREMPIIGGSGLFRFARGYAQLRTHWFSSKTNDAIVEYNIYVLHY