AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene021870

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene021870.t1 MTR_7g089080 96.000 150 4 1 13 162 153 300 7.20e-93 294
MS.gene021870.t1 MTR_5g088980 64.286 154 50 3 10 162 117 266 9.02e-64 202
MS.gene021870.t1 MTR_8g074000 54.167 120 54 1 42 161 159 277 4.92e-39 138
MS.gene021870.t1 MTR_5g023790 52.500 120 56 1 42 161 155 273 2.45e-37 132
MS.gene021870.t1 MTR_5g023790 52.500 120 56 1 42 161 155 273 4.15e-37 132
MS.gene021870.t1 MTR_5g023790 52.500 120 56 1 42 161 155 273 4.83e-37 132
MS.gene021870.t1 MTR_1g018680 48.077 104 52 2 59 160 91 194 4.40e-29 110
MS.gene021870.t1 MTR_1g011470 48.760 121 57 4 42 160 145 262 2.00e-28 109
MS.gene021870.t1 MTR_3g088415 45.600 125 63 4 38 160 220 341 5.53e-28 108
MS.gene021870.t1 MTR_3g102520 46.429 112 58 2 51 160 83 194 5.93e-28 107
MS.gene021870.t1 MTR_3g107970 45.455 121 61 4 42 160 197 314 7.46e-28 108
MS.gene021870.t1 MTR_3g088415 45.600 125 63 4 38 160 220 341 7.59e-28 108
MS.gene021870.t1 MTR_3g088415 45.238 126 64 4 38 161 220 342 1.21e-27 108
MS.gene021870.t1 MTR_5g044040 93.878 49 3 0 114 162 7 55 1.21e-26 98.6
MS.gene021870.t1 MTR_2g102520 41.129 124 72 1 37 160 194 316 1.02e-25 102
MS.gene021870.t1 MTR_3g102530 47.115 104 53 2 59 160 84 187 1.67e-25 100
MS.gene021870.t1 MTR_3g088405 38.760 129 74 4 35 161 220 345 1.10e-23 97.1
MS.gene021870.t1 MTR_2g102550 40.136 147 81 5 18 160 125 268 1.23e-23 96.7
MS.gene021870.t1 MTR_3g102510 46.154 104 52 3 59 160 74 175 6.54e-23 93.6
MS.gene021870.t1 MTR_3g102560 45.455 99 52 2 64 160 69 167 3.31e-22 91.7
MS.gene021870.t1 MTR_5g011900 38.889 126 75 1 37 162 49 172 6.60e-22 89.4
MS.gene021870.t1 MTR_3g102540 41.414 99 56 2 63 159 13 111 6.88e-19 81.6
MS.gene021870.t1 MTR_3g060770 42.268 97 48 2 58 151 31 122 2.61e-18 80.5
MS.gene021870.t1 MTR_2g005960 34.351 131 68 4 38 152 100 228 2.61e-17 77.0
MS.gene021870.t1 MTR_3g061680 37.864 103 56 2 52 151 15 112 5.38e-16 73.9
MS.gene021870.t1 MTR_3g060820 37.113 97 53 2 58 151 21 112 2.31e-15 72.4
MS.gene021870.t1 MTR_3g060400 36.082 97 54 2 58 151 27 118 2.50e-15 72.4
MS.gene021870.t1 MTR_3g460990 36.082 97 54 2 58 151 27 118 2.50e-15 72.4
MS.gene021870.t1 MTR_3g060410 41.176 68 37 1 87 151 130 197 6.30e-12 63.2
MS.gene021870.t1 MTR_6g045270 37.383 107 59 3 58 161 45 146 1.79e-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
MS.gene021870.t1 AT2G26760 63.158 152 51 2 11 162 85 231 6.04e-64 201
MS.gene021870.t1 AT5G06150 60.625 160 60 2 2 161 126 282 3.06e-63 198
MS.gene021870.t1 AT4G37490 67.857 140 42 2 23 161 128 265 4.51e-62 198
MS.gene021870.t1 AT5G06150 60.625 160 60 2 2 161 126 282 6.73e-62 198
MS.gene021870.t1 AT3G11520 63.399 153 45 3 9 161 118 259 2.47e-58 187
MS.gene021870.t1 AT3G11520 63.399 153 45 3 9 161 118 259 3.22e-58 187
MS.gene021870.t1 AT1G20610 57.500 120 50 1 42 161 160 278 2.96e-43 149
MS.gene021870.t1 AT1G76310 57.258 124 45 3 42 161 160 279 1.20e-41 143
MS.gene021870.t1 AT1G76310 57.258 124 45 3 42 161 160 279 4.54e-41 142
MS.gene021870.t1 AT1G76310 57.258 124 45 3 42 161 160 279 5.90e-41 143
MS.gene021870.t1 AT1G76310 57.258 124 45 3 42 161 160 279 7.74e-41 143
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 220 348 2.98e-40 142
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 220 348 3.26e-40 142
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 220 348 3.26e-40 142
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 220 348 3.26e-40 142
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 220 348 3.26e-40 142
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 206 334 3.38e-40 142
MS.gene021870.t1 AT1G34460 52.941 136 57 3 2 137 220 348 3.96e-40 142
MS.gene021870.t1 AT1G34460 54.472 123 53 2 15 137 226 345 3.48e-39 139
MS.gene021870.t1 AT1G34460 54.472 123 53 2 15 137 226 345 3.48e-39 139
MS.gene021870.t1 AT1G16330 40.127 157 89 3 12 166 348 501 3.13e-33 124
MS.gene021870.t1 AT1G47210 39.264 163 86 4 5 160 49 205 1.66e-32 119
MS.gene021870.t1 AT1G44110 45.902 122 61 4 41 160 177 295 2.79e-31 117
MS.gene021870.t1 AT1G80370 42.384 151 78 5 11 160 156 298 7.82e-31 116
MS.gene021870.t1 AT4G35620 53.333 120 55 1 42 161 155 273 3.12e-30 114
MS.gene021870.t1 AT4G35620 53.333 120 55 1 42 161 155 273 3.45e-30 114
MS.gene021870.t1 AT2G17620 54.167 120 54 1 42 161 154 272 7.75e-30 113
MS.gene021870.t1 AT1G77390 45.902 122 63 3 41 161 161 280 1.59e-29 112
MS.gene021870.t1 AT1G47220 46.218 119 61 3 44 160 42 159 3.78e-28 107
MS.gene021870.t1 AT5G25380 45.902 122 61 4 41 160 156 274 6.07e-28 108
MS.gene021870.t1 AT5G25380 45.902 122 61 4 41 160 156 274 6.80e-28 108
MS.gene021870.t1 AT5G25380 45.902 122 61 4 41 160 156 274 6.80e-28 108
MS.gene021870.t1 AT5G25380 45.902 122 61 4 41 160 162 280 7.18e-28 108
MS.gene021870.t1 AT1G47230 50.000 104 50 2 59 160 95 198 3.75e-27 105
MS.gene021870.t1 AT5G11300 45.902 122 61 4 41 160 155 273 8.25e-27 105
MS.gene021870.t1 AT5G11300 45.902 122 61 4 41 160 155 273 9.12e-27 105
MS.gene021870.t1 AT5G43080 36.538 156 80 5 7 160 50 188 2.73e-26 102
MS.gene021870.t1 AT5G43080 36.538 156 80 5 7 160 50 188 2.89e-26 102
MS.gene021870.t1 AT1G15570 39.865 148 83 5 17 160 144 289 3.89e-26 103
MS.gene021870.t1 AT1G47210 36.000 150 83 4 5 147 49 192 9.91e-26 98.2
MS.gene021870.t1 AT1G47230 49.524 105 50 3 59 160 95 199 1.93e-25 100

Find 39 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGTGAGATAAAGGGTTTC+AGG 0.206490 7.1:+82617647 None:intergenic
CTATGTTGATTGTGAGATAA+AGG 0.290156 7.1:+82617639 None:intergenic
GAAATCTGTGCACAAGAAAA+AGG 0.325466 7.1:-82618313 MS.gene021870:CDS
AGTGCGTGATGGTTTCTTCT+TGG 0.358075 7.1:+82618283 None:intergenic
CTCATCCTCTCATTTATCTC+AGG 0.404632 7.1:+82617722 None:intergenic
TCAATGTCAACAATCTCCTT+TGG 0.409201 7.1:+82618090 None:intergenic
TATGTTGATTGTGAGATAAA+GGG 0.409760 7.1:+82617640 None:intergenic
TGGAATCAGTGCCATGCTTA+TGG 0.410047 7.1:-82617564 MS.gene021870:CDS
CATCAAAGTATGAAGAAATC+TGG 0.422694 7.1:-82617541 MS.gene021870:CDS
GTCAAGAAGGGAACTTCAAT+TGG 0.435390 7.1:-82617588 MS.gene021870:CDS
TCACAATCAACATAGTTGAT+AGG 0.445143 7.1:-82617631 MS.gene021870:CDS
AGAAGGGAACTTCAATTGGT+TGG 0.459265 7.1:-82617584 MS.gene021870:CDS
AGGAATACTCATTGATTGGC+TGG 0.482890 7.1:-82617699 MS.gene021870:CDS
CTGTCAACCTTGTGTCAAGA+AGG 0.491215 7.1:-82617601 MS.gene021870:CDS
TGAGAGGAATACTCATTGAT+TGG 0.498998 7.1:-82617703 MS.gene021870:CDS
ATCATGGAGAAAACCATCCT+AGG 0.509664 7.1:-82617456 None:intergenic
CCACTCAAGCTTCCCTAGGA+TGG 0.512212 7.1:+82617443 None:intergenic
TCATGAACAGATTCTCATCA+TGG 0.547054 7.1:-82617472 MS.gene021870:CDS
TTGACACAAGGTTGACAGCA+AGG 0.554809 7.1:+82617606 None:intergenic
TCATGGAGAAAACCATCCTA+GGG 0.567407 7.1:-82617455 None:intergenic
GAGATTGTTGACATTGATGC+TGG 0.574052 7.1:-82618084 MS.gene021870:CDS
CACACAAAGTCATTGACCTC+AGG 0.575877 7.1:+82617515 None:intergenic
AAGCCGTCCACATGATTACA+TGG 0.589639 7.1:-82617753 MS.gene021870:CDS
TGTCCTCACTGCTAGAAGCA+AGG 0.595514 7.1:-82618252 MS.gene021870:intron
GAAGTTCCCTTCTTGACACA+AGG 0.595803 7.1:+82617594 None:intergenic
ATACTTTGATGCCATAAGCA+TGG 0.602617 7.1:+82617553 None:intergenic
GAGATAAATGAGAGGATGAG+AGG 0.614173 7.1:-82617719 MS.gene021870:CDS
ACAAAGTCATTGACCTCAGG+TGG 0.615435 7.1:+82617518 None:intergenic
ATGACTGTAAGCTCTATCTG+AGG 0.617761 7.1:+82617491 None:intergenic
ACAGAAGAAAGAGTGCGTGA+TGG 0.629367 7.1:+82618272 None:intergenic
TGTCAACCTTGTGTCAAGAA+GGG 0.639776 7.1:-82617600 MS.gene021870:CDS
TGACTGTAAGCTCTATCTGA+GGG 0.647144 7.1:+82617492 None:intergenic
CACAACCTGAGATAAATGAG+AGG 0.662919 7.1:-82617727 MS.gene021870:CDS
TGAAGAAATCTGGCCACCTG+AGG 0.663492 7.1:-82617531 MS.gene021870:CDS
TGGTTTGACTAACAAACCAA+AGG 0.666669 7.1:-82618106 MS.gene021870:CDS
AGTCCATGTAATCATGTGGA+CGG 0.674217 7.1:+82617750 None:intergenic
TGTGAGTCCATGTAATCATG+TGG 0.686546 7.1:+82617746 None:intergenic
CAAGTTCTACAAGATAGTTG+AGG 0.706527 7.1:-82618013 MS.gene021870:intron
AAACCTTGCTTCTAGCAGTG+AGG 0.715110 7.1:+82618249 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGTTCTTTTATGTTCTTTT+AGG - chr7.1:82617641-82617660 MS.gene021870:CDS 20.0%
!!! TTGTGTATGTGTTTTTTTTT+TGG - chr7.1:82617867-82617886 MS.gene021870:intron 20.0%
!! TATGTTGATTGTGAGATAAA+GGG + chr7.1:82618140-82618159 None:intergenic 25.0%
CATCAAAGTATGAAGAAATC+TGG - chr7.1:82618236-82618255 MS.gene021870:intron 30.0%
TCACAATCAACATAGTTGAT+AGG - chr7.1:82618146-82618165 MS.gene021870:intron 30.0%
! AAAGAAGCATGTTATGTTGT+TGG - chr7.1:82617581-82617600 MS.gene021870:CDS 30.0%
! CTATGTTGATTGTGAGATAA+AGG + chr7.1:82618141-82618160 None:intergenic 30.0%
ATACTTTGATGCCATAAGCA+TGG + chr7.1:82618227-82618246 None:intergenic 35.0%
ATTGTGAGATAAAGGGTTTC+AGG + chr7.1:82618133-82618152 None:intergenic 35.0%
CAAGTTCTACAAGATAGTTG+AGG - chr7.1:82617764-82617783 MS.gene021870:CDS 35.0%
GAAATCTGTGCACAAGAAAA+AGG - chr7.1:82617464-82617483 MS.gene021870:CDS 35.0%
TCAATGTCAACAATCTCCTT+TGG + chr7.1:82617690-82617709 None:intergenic 35.0%
TCATGAACAGATTCTCATCA+TGG - chr7.1:82618305-82618324 MS.gene021870:CDS 35.0%
TGAGAGGAATACTCATTGAT+TGG - chr7.1:82618074-82618093 MS.gene021870:CDS 35.0%
TGGTTTGACTAACAAACCAA+AGG - chr7.1:82617671-82617690 MS.gene021870:CDS 35.0%
!!! ATGTTCTTTTAGGTTGCATG+TGG - chr7.1:82617651-82617670 MS.gene021870:CDS 35.0%
ACATGCTTGTGTATGTGTTG+AGG - chr7.1:82617892-82617911 MS.gene021870:intron 40.0%
AGAAGGGAACTTCAATTGGT+TGG - chr7.1:82618193-82618212 MS.gene021870:intron 40.0%
AGTCCATGTAATCATGTGGA+CGG + chr7.1:82618030-82618049 None:intergenic 40.0%
ATGACTGTAAGCTCTATCTG+AGG + chr7.1:82618289-82618308 None:intergenic 40.0%
CACAACCTGAGATAAATGAG+AGG - chr7.1:82618050-82618069 MS.gene021870:CDS 40.0%
CTCATCCTCTCATTTATCTC+AGG + chr7.1:82618058-82618077 None:intergenic 40.0%
GAGATAAATGAGAGGATGAG+AGG - chr7.1:82618058-82618077 MS.gene021870:CDS 40.0%
GAGATTGTTGACATTGATGC+TGG - chr7.1:82617693-82617712 MS.gene021870:CDS 40.0%
GTCAAGAAGGGAACTTCAAT+TGG - chr7.1:82618189-82618208 MS.gene021870:intron 40.0%
TGACTGTAAGCTCTATCTGA+GGG + chr7.1:82618288-82618307 None:intergenic 40.0%
TGTCAACCTTGTGTCAAGAA+GGG - chr7.1:82618177-82618196 MS.gene021870:intron 40.0%
TGTGAGTCCATGTAATCATG+TGG + chr7.1:82618034-82618053 None:intergenic 40.0%
! AGGAATACTCATTGATTGGC+TGG - chr7.1:82618078-82618097 MS.gene021870:CDS 40.0%
AAACCTTGCTTCTAGCAGTG+AGG + chr7.1:82617531-82617550 None:intergenic 45.0%
AAGCCGTCCACATGATTACA+TGG - chr7.1:82618024-82618043 MS.gene021870:CDS 45.0%
ACAAAGTCATTGACCTCAGG+TGG + chr7.1:82618262-82618281 None:intergenic 45.0%
AGTGCGTGATGGTTTCTTCT+TGG + chr7.1:82617497-82617516 None:intergenic 45.0%
CACACAAAGTCATTGACCTC+AGG + chr7.1:82618265-82618284 None:intergenic 45.0%
CTGTCAACCTTGTGTCAAGA+AGG - chr7.1:82618176-82618195 MS.gene021870:intron 45.0%
GAAGTTCCCTTCTTGACACA+AGG + chr7.1:82618186-82618205 None:intergenic 45.0%
TGGAATCAGTGCCATGCTTA+TGG - chr7.1:82618213-82618232 MS.gene021870:intron 45.0%
TTGACACAAGGTTGACAGCA+AGG + chr7.1:82618174-82618193 None:intergenic 45.0%
! ACAGAAGAAAGAGTGCGTGA+TGG + chr7.1:82617508-82617527 None:intergenic 45.0%
TGAAGAAATCTGGCCACCTG+AGG - chr7.1:82618246-82618265 MS.gene021870:intron 50.0%
TGTCCTCACTGCTAGAAGCA+AGG - chr7.1:82617525-82617544 MS.gene021870:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 82617457 82618342 82617457 ID=MS.gene021870
chr7.1 mRNA 82617457 82618342 82617457 ID=MS.gene021870.t1;Parent=MS.gene021870
chr7.1 exon 82618253 82618342 82618253 ID=MS.gene021870.t1.exon1;Parent=MS.gene021870.t1
chr7.1 CDS 82618253 82618342 82618253 ID=cds.MS.gene021870.t1;Parent=MS.gene021870.t1
chr7.1 exon 82618014 82618136 82618014 ID=MS.gene021870.t1.exon2;Parent=MS.gene021870.t1
chr7.1 CDS 82618014 82618136 82618014 ID=cds.MS.gene021870.t1;Parent=MS.gene021870.t1
chr7.1 exon 82617457 82617786 82617457 ID=MS.gene021870.t1.exon3;Parent=MS.gene021870.t1
chr7.1 CDS 82617457 82617786 82617457 ID=cds.MS.gene021870.t1;Parent=MS.gene021870.t1
Gene Sequence

>MS.gene021870

ATGAAGAGAAATCTGTGCACAAGAAAAAGGAAGAAGTCCAAGAAGAAACCATCACGCACTCTTTCTTCTGTCCTCACTGCTAGAAGCAAGGTTTGTTAGTTATGTTGTTAAGAATAAATTAAACAAAGAAGCATGTTATGTTGTTGGATTGAATTCTCTTTTACGTGTTCTTTTGTTTGTTTACATGTTCTTTTATGTTCTTTTAGGTTGCATGTGGTTTGACTAACAAACCAAAGGAGATTGTTGACATTGATGCTGGTGATGCTAACAATGAGTTAGTTGCTGTTGAATATCTTGAAGACATATACAAGTTCTACAAGATAGTTGAGGTAACAATAACAAACATGACTTTAATTTACTTTTCATTCTATATATTTTTGTTTTGTGTCTGATGTATTGTTCTTTATTGCTTGTGTATGTGTTTTTTTTTTGGTTACATGCTTGTGTATGTGTTGAGGCAACAATAACAAACATGACTTTAATTTACTTTTCATTCTATATGTTTTAGTTTTGTGTCTGATGTATTGTTCTTTATTGCTTGTGTATGTGTTGAAAGATTCAGAATGAAAGCCGTCCACATGATTACATGGACTCACAACCTGAGATAAATGAGAGGATGAGAGGAATACTCATTGATTGGCTGGTAGATGTTCACTCAAAATTTAAACTTTCACCTGAAACCCTTTATCTCACAATCAACATAGTTGATAGGTTCCTTGCTGTCAACCTTGTGTCAAGAAGGGAACTTCAATTGGTTGGAATCAGTGCCATGCTTATGGCATCAAAGTATGAAGAAATCTGGCCACCTGAGGTCAATGACTTTGTGTGCCCTCAGATAGAGCTTACAGTCATGAACAGATTCTCATCATGGAGAAAACCATCCTAG
Protein sequence

>MS.gene021870.t1

MKRNLCTRKRKKSKKKPSRTLSSVLTARSKVACGLTNKPKEIVDIDAGDANNELVAVEYLEDIYKFYKIVEIQNESRPHDYMDSQPEINERMRGILIDWLVDVHSKFKLSPETLYLTINIVDRFLAVNLVSRRELQLVGISAMLMASKYEEIWPPEVNDFVCPQIELTVMNRFSSWRKPS