AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073407

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073407.t1 MTR_2g437170 79.293 198 39 1 1 196 207 404 1.33e-108 317
MS.gene073407.t1 MTR_2g438020 78.894 199 39 2 1 197 254 451 5.69e-107 316
MS.gene073407.t1 MTR_2g437150 76.884 199 44 1 1 197 207 405 8.82e-107 312
MS.gene073407.t1 MTR_2g437180 77.157 197 45 0 1 197 199 395 2.18e-105 308
MS.gene073407.t1 MTR_2g437240 79.592 196 38 1 1 194 215 410 5.93e-105 308
MS.gene073407.t1 MTR_2g437940 77.889 199 42 1 1 197 171 369 1.56e-104 305
MS.gene073407.t1 MTR_2g437960 76.382 199 45 1 1 197 203 401 4.11e-104 305
MS.gene073407.t1 MTR_2g437960 76.382 199 45 1 1 197 203 401 6.41e-104 306
MS.gene073407.t1 MTR_2g437120 79.082 196 38 2 1 194 201 395 1.11e-100 297
MS.gene073407.t1 MTR_2g437200 79.348 184 36 1 1 182 215 398 2.24e-99 293
MS.gene073407.t1 MTR_2g076320 73.869 199 50 1 1 197 200 398 1.02e-98 291
MS.gene073407.t1 MTR_2g437990 73.367 199 51 1 1 197 199 397 2.88e-98 291
MS.gene073407.t1 MTR_2g438010 71.859 199 54 1 1 197 220 418 2.37e-97 289
MS.gene073407.t1 MTR_2g437100 79.348 184 36 1 1 182 212 395 4.71e-97 288
MS.gene073407.t1 MTR_2g437160 71.066 197 55 1 1 195 212 408 8.93e-97 287
MS.gene073407.t1 MTR_2g437130 68.342 199 61 1 1 197 188 386 9.82e-93 276
MS.gene073407.t1 MTR_2g437160 72.283 184 49 1 14 195 134 317 1.91e-91 270
MS.gene073407.t1 MTR_2g437060 60.106 188 73 1 5 190 206 393 8.15e-76 233
MS.gene073407.t1 MTR_2g436440 58.333 192 78 1 5 194 197 388 5.92e-73 225
MS.gene073407.t1 MTR_2g437020 61.497 187 69 2 5 188 190 376 7.51e-72 222
MS.gene073407.t1 MTR_2g437080 56.250 192 82 1 5 194 191 382 2.30e-71 221
MS.gene073407.t1 MTR_2g436400 58.152 184 75 1 5 186 198 381 8.67e-70 217
MS.gene073407.t1 MTR_2g437040 56.701 194 78 2 5 194 191 382 5.39e-68 213
MS.gene073407.t1 MTR_2g437030 53.571 196 89 1 1 194 273 468 1.94e-66 211
MS.gene073407.t1 MTR_2g437090 55.556 171 74 1 27 195 1 171 1.69e-64 196
MS.gene073407.t1 MTR_4g119550 51.579 190 90 1 3 190 199 388 9.38e-64 202
MS.gene073407.t1 MTR_2g437260 50.526 190 90 3 1 186 181 370 1.58e-59 191
MS.gene073407.t1 MTR_2g436460 53.763 186 83 2 1 183 192 377 8.06e-57 184
MS.gene073407.t1 MTR_4g120380 48.901 182 91 1 1 180 189 370 4.72e-54 176
MS.gene073407.t1 MTR_4g120380 48.571 175 89 1 1 174 189 363 4.07e-50 167
MS.gene073407.t1 MTR_4g120380 39.231 130 60 3 34 149 292 416 6.18e-17 78.2
MS.gene073407.t1 MTR_4g119580 47.253 182 94 1 1 180 189 370 8.91e-49 163
MS.gene073407.t1 MTR_2g019810 52.047 171 73 4 14 182 196 359 8.87e-44 149
MS.gene073407.t1 MTR_2g019840 47.253 182 90 4 5 182 192 371 3.73e-41 143
MS.gene073407.t1 MTR_4g119570 41.111 180 71 2 3 180 83 229 1.25e-37 130
MS.gene073407.t1 MTR_3g085240 56.667 90 20 2 86 173 176 248 1.54e-22 91.7
MS.gene073407.t1 MTR_3g450500 29.586 169 117 1 1 167 187 355 1.58e-20 88.2
MS.gene073407.t1 MTR_2g436380 44.444 99 52 1 27 125 1 96 7.75e-20 85.1
MS.gene073407.t1 MTR_4g007490 31.928 166 109 3 5 167 189 353 2.79e-19 84.7
MS.gene073407.t1 MTR_8g081000 29.605 152 105 1 31 180 234 385 1.08e-15 74.7
MS.gene073407.t1 MTR_8g081000 29.605 152 105 1 31 180 234 385 1.20e-15 74.3
MS.gene073407.t1 MTR_8g081000 29.605 152 105 1 31 180 234 385 1.34e-15 74.3
MS.gene073407.t1 MTR_8g080990 32.394 142 94 1 37 176 227 368 2.83e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073407.t1 AT5G07900 34.783 184 115 3 1 179 216 399 9.73e-28 108
MS.gene073407.t1 AT5G64950 32.955 176 102 3 5 169 192 362 3.45e-19 84.7
MS.gene073407.t1 AT1G21150 32.353 170 112 2 3 169 169 338 1.97e-17 79.3
MS.gene073407.t1 AT1G21150 32.353 170 112 2 3 169 205 374 2.83e-17 79.3
MS.gene073407.t1 AT1G21150 32.353 170 112 2 3 169 269 438 2.92e-17 79.3
MS.gene073407.t1 AT1G61990 29.187 209 109 5 1 170 189 397 2.97e-17 79.3
MS.gene073407.t1 AT1G61990 29.187 209 109 5 1 170 189 397 2.97e-17 79.3
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7
MS.gene073407.t1 AT1G61970 25.366 205 114 5 1 167 196 399 3.48e-12 64.7

Find 36 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATTTGATGGCTGATTT+TGG 0.115073 2.4:+54169835 None:intergenic
GCCATCTATATTTGGTTTAA+AGG 0.141804 2.4:+54169897 MS.gene073407:CDS
CAGTCAAGGCCATCTATATT+TGG 0.179813 2.4:+54169889 MS.gene073407:CDS
GATCCTTCGTTGACTACTTT+TGG 0.192467 2.4:+54169961 MS.gene073407:CDS
TTGGAGGAAGTTAAGGGTTT+AGG 0.192505 2.4:+54169934 MS.gene073407:CDS
TGGAGGAAGTTAAGGGTTTA+GGG 0.236533 2.4:+54169935 MS.gene073407:CDS
AAACTATAACAAAACATATT+TGG 0.239296 2.4:-54170195 None:intergenic
AGACCAACCCCATTTCTTAA+AGG 0.307244 2.4:-54170043 None:intergenic
TTTGTTATAGTTTACATAAA+AGG 0.315414 2.4:+54170205 MS.gene073407:CDS
CTTGAGCAAGTTTGTCTTGA+AGG 0.325723 2.4:+54170329 MS.gene073407:CDS
AAAGGATTTGATTAAGTCAT+TGG 0.335353 2.4:+54169915 MS.gene073407:CDS
AAGTTGATACCTTTAAGAAA+TGG 0.365182 2.4:+54170034 MS.gene073407:CDS
AGTTGATACCTTTAAGAAAT+GGG 0.365271 2.4:+54170035 MS.gene073407:CDS
ATATCTTCAGAATAAGTAAA+TGG 0.375368 2.4:-54170303 None:intergenic
TAAGTCATTGGAGGAAGTTA+AGG 0.377755 2.4:+54169927 MS.gene073407:CDS
TCCTTTAAACCAAATATAGA+TGG 0.404648 2.4:-54169898 None:intergenic
TCAATTAGGTTGGGATTCCT+TGG 0.416390 2.4:+54170158 MS.gene073407:CDS
AATTGCAAAACTGAGGCTCT+TGG 0.425012 2.4:-54170234 None:intergenic
TTGGGTCAATCAATTAGGTT+GGG 0.436055 2.4:+54170149 MS.gene073407:CDS
AAGTCATTGGAGGAAGTTAA+GGG 0.441441 2.4:+54169928 MS.gene073407:CDS
TTTGGGTCAATCAATTAGGT+TGG 0.473936 2.4:+54170148 MS.gene073407:CDS
GTTGCTTTGGTAGCCAAGAA+AGG 0.483813 2.4:+54169985 MS.gene073407:CDS
ATATCAGCCTAGTTTGATGT+TGG 0.513053 2.4:+54170092 MS.gene073407:CDS
GAAATCACATATTAAGTGAC+TGG 0.527815 2.4:-54170426 None:intergenic
TTGCTAGTTTGCTTCAGTCA+AGG 0.547608 2.4:+54169875 MS.gene073407:CDS
TGGAAATTTAGCAAGTGCCA+AGG 0.550727 2.4:-54170175 None:intergenic
GTTGATACCTTTAAGAAATG+GGG 0.553181 2.4:+54170036 MS.gene073407:CDS
ATTGAAGCCAACATCAAACT+AGG 0.556093 2.4:-54170099 None:intergenic
GGATTTGATTAAGTCATTGG+AGG 0.561173 2.4:+54169918 MS.gene073407:CDS
ATACCTTTAAGAAATGGGGT+TGG 0.587688 2.4:+54170040 MS.gene073407:CDS
GAGCAAGTTTGTCTTGAAGG+AGG 0.590871 2.4:+54170332 MS.gene073407:CDS
CAAAAGAAATTGCAAAACTG+AGG 0.625549 2.4:-54170241 None:intergenic
AATGAAACTTGCATACACAA+AGG 0.663379 2.4:+54170389 MS.gene073407:CDS
CTATCTATTAAAGTTATACG+AGG 0.674399 2.4:+54170362 MS.gene073407:CDS
ACCCCAAAAGTAGTCAACGA+AGG 0.684823 2.4:-54169964 None:intergenic
GCATACACAAAGGAGAACAA+TGG 0.692068 2.4:+54170399 MS.gene073407:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTATAACAAAACATATT+TGG - chr2.4:54170198-54170217 None:intergenic 15.0%
!!! TTTGTTATAGTTTACATAAA+AGG + chr2.4:54170205-54170224 MS.gene073407:CDS 15.0%
!! AAGGTTTAAGTAAAAAACTT+TGG + chr2.4:54170004-54170023 MS.gene073407:CDS 20.0%
!! AGGTTTAAGTAAAAAACTTT+GGG + chr2.4:54170005-54170024 MS.gene073407:CDS 20.0%
!! ATATCTTCAGAATAAGTAAA+TGG - chr2.4:54170306-54170325 None:intergenic 20.0%
!!! TTTTTTACTTAAACCTTTCT+TGG - chr2.4:54170001-54170020 None:intergenic 20.0%
! AAAGGATTTGATTAAGTCAT+TGG + chr2.4:54169915-54169934 MS.gene073407:CDS 25.0%
! CTATCTATTAAAGTTATACG+AGG + chr2.4:54170362-54170381 MS.gene073407:CDS 25.0%
! TCCTTTAAACCAAATATAGA+TGG - chr2.4:54169901-54169920 None:intergenic 25.0%
!! AGTTGATACCTTTAAGAAAT+GGG + chr2.4:54170035-54170054 MS.gene073407:CDS 25.0%
!! TTGCAATTTCTTTTGATGAA+AGG + chr2.4:54170249-54170268 MS.gene073407:CDS 25.0%
!!! AAGTTGATACCTTTAAGAAA+TGG + chr2.4:54170034-54170053 MS.gene073407:CDS 25.0%
AATGAAACTTGCATACACAA+AGG + chr2.4:54170389-54170408 MS.gene073407:CDS 30.0%
CAAAAGAAATTGCAAAACTG+AGG - chr2.4:54170244-54170263 None:intergenic 30.0%
! GCCATCTATATTTGGTTTAA+AGG + chr2.4:54169897-54169916 MS.gene073407:CDS 30.0%
! GTTGATACCTTTAAGAAATG+GGG + chr2.4:54170036-54170055 MS.gene073407:CDS 30.0%
!!! TAGTTTGCTGATGTGTTTTT+GGG + chr2.4:54170131-54170150 MS.gene073407:CDS 30.0%
!!! TGTTTTTGGGTCAATCAATT+AGG + chr2.4:54170144-54170163 MS.gene073407:CDS 30.0%
!!! TTAGTTTGCTGATGTGTTTT+TGG + chr2.4:54170130-54170149 MS.gene073407:CDS 30.0%
AAGTCATTGGAGGAAGTTAA+GGG + chr2.4:54169928-54169947 MS.gene073407:CDS 35.0%
ATATCAGCCTAGTTTGATGT+TGG + chr2.4:54170092-54170111 MS.gene073407:CDS 35.0%
ATTGAAGCCAACATCAAACT+AGG - chr2.4:54170102-54170121 None:intergenic 35.0%
GGATTTGATTAAGTCATTGG+AGG + chr2.4:54169918-54169937 MS.gene073407:CDS 35.0%
TAAGTCATTGGAGGAAGTTA+AGG + chr2.4:54169927-54169946 MS.gene073407:CDS 35.0%
TTGGGTCAATCAATTAGGTT+GGG + chr2.4:54170149-54170168 MS.gene073407:CDS 35.0%
TTTGGGTCAATCAATTAGGT+TGG + chr2.4:54170148-54170167 MS.gene073407:CDS 35.0%
! ATACCTTTAAGAAATGGGGT+TGG + chr2.4:54170040-54170059 MS.gene073407:CDS 35.0%
!! ATCCTTCGTTGACTACTTTT+GGG + chr2.4:54169962-54169981 MS.gene073407:CDS 35.0%
AATTGCAAAACTGAGGCTCT+TGG - chr2.4:54170237-54170256 None:intergenic 40.0%
AGACCAACCCCATTTCTTAA+AGG - chr2.4:54170046-54170065 None:intergenic 40.0%
CAGTCAAGGCCATCTATATT+TGG + chr2.4:54169889-54169908 MS.gene073407:CDS 40.0%
CTTGAGCAAGTTTGTCTTGA+AGG + chr2.4:54170329-54170348 MS.gene073407:CDS 40.0%
GCATACACAAAGGAGAACAA+TGG + chr2.4:54170399-54170418 MS.gene073407:CDS 40.0%
TGGAAATTTAGCAAGTGCCA+AGG - chr2.4:54170178-54170197 None:intergenic 40.0%
TGGAGGAAGTTAAGGGTTTA+GGG + chr2.4:54169935-54169954 MS.gene073407:CDS 40.0%
TTGGAGGAAGTTAAGGGTTT+AGG + chr2.4:54169934-54169953 MS.gene073407:CDS 40.0%
!! GATCCTTCGTTGACTACTTT+TGG + chr2.4:54169961-54169980 MS.gene073407:CDS 40.0%
!! TCAATTAGGTTGGGATTCCT+TGG + chr2.4:54170158-54170177 MS.gene073407:CDS 40.0%
!! TCCTTCGTTGACTACTTTTG+GGG + chr2.4:54169963-54169982 MS.gene073407:CDS 40.0%
!! TTGCTAGTTTGCTTCAGTCA+AGG + chr2.4:54169875-54169894 MS.gene073407:CDS 40.0%
ACCCCAAAAGTAGTCAACGA+AGG - chr2.4:54169967-54169986 None:intergenic 45.0%
GAGCAAGTTTGTCTTGAAGG+AGG + chr2.4:54170332-54170351 MS.gene073407:CDS 45.0%
! GTTGCTTTGGTAGCCAAGAA+AGG + chr2.4:54169985-54170004 MS.gene073407:CDS 45.0%
!!! GACTACTTTTGGGGTTGCTT+TGG + chr2.4:54169972-54169991 MS.gene073407:CDS 45.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 54169844 54170437 54169844 ID=MS.gene073407
chr2.4 mRNA 54169844 54170437 54169844 ID=MS.gene073407.t1;Parent=MS.gene073407
chr2.4 exon 54169844 54170437 54169844 ID=MS.gene073407.t1.exon1;Parent=MS.gene073407.t1
chr2.4 CDS 54169844 54170437 54169844 ID=cds.MS.gene073407.t1;Parent=MS.gene073407.t1
Gene Sequence

>MS.gene073407

ATGGCTGATTTTGGAGTTTCTGATAATGTCATTGCTAGTTTGCTTCAGTCAAGGCCATCTATATTTGGTTTAAAGGATTTGATTAAGTCATTGGAGGAAGTTAAGGGTTTAGGGTTTGATCCTTCGTTGACTACTTTTGGGGTTGCTTTGGTAGCCAAGAAAGGTTTAAGTAAAAAACTTTGGGATGAGAAAGTTGATACCTTTAAGAAATGGGGTTGGTCTGATGAAGATGTAATTCGAGCATTTAGATATCAGCCTAGTTTGATGTTGGCTTCAATTGATAAGATTAGTTTGCTGATGTGTTTTTGGGTCAATCAATTAGGTTGGGATTCCTTGGCACTTGCTAAATTTCCAAATATGTTTTGTTATAGTTTACATAAAAGGATCATTCCAAGAGCCTCAGTTTTGCAATTTCTTTTGATGAAAGGTTTGCGAAAAAAGAATGCAAGCTTAGTCACACCATTTACTTATTCTGAAGATATGTTCTTGAGCAAGTTTGTCTTGAAGGAGGAGTCTAACTATCTATTAAAGTTATACGAGGAAAAAATGAAACTTGCATACACAAAGGAGAACAATGGCATGCCAGTCACTTAA
Protein sequence

>MS.gene073407.t1

MADFGVSDNVIASLLQSRPSIFGLKDLIKSLEEVKGLGFDPSLTTFGVALVAKKGLSKKLWDEKVDTFKKWGWSDEDVIRAFRYQPSLMLASIDKISLLMCFWVNQLGWDSLALAKFPNMFCYSLHKRIIPRASVLQFLLMKGLRKKNASLVTPFTYSEDMFLSKFVLKEESNYLLKLYEEKMKLAYTKENNGMPVT