AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene070121


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070121.t1 MTR_5g073900 66.255 243 66 3 1 243 119 345 4.99e-105 310
MS.gene070121.t1 MTR_5g074190 56.522 276 65 5 1 275 192 413 5.90e-93 284
MS.gene070121.t1 MTR_5g073920 42.662 293 151 6 3 286 387 671 2.19e-64 214
MS.gene070121.t1 MTR_5g073450 43.945 289 137 6 3 269 346 631 2.23e-63 211
MS.gene070121.t1 MTR_3g464010 43.262 282 144 6 6 275 395 672 3.88e-61 205
MS.gene070121.t1 MTR_3g031130 42.955 291 134 8 1 269 337 617 6.05e-57 193
MS.gene070121.t1 MTR_5g074130 40.214 281 156 5 4 273 398 677 4.62e-55 190
MS.gene070121.t1 MTR_5g073460 40.411 292 149 7 1 269 401 690 2.68e-54 187
MS.gene070121.t1 MTR_5g073780 41.880 234 114 5 46 270 2 222 3.21e-48 160
MS.gene070121.t1 MTR_5g093530 36.918 279 145 4 4 273 318 574 6.08e-47 165
MS.gene070121.t1 MTR_5g073620 41.935 248 121 6 32 270 834 1067 1.42e-44 161
MS.gene070121.t1 MTR_5g073620 35.461 141 73 3 3 139 434 560 3.00e-15 76.3
MS.gene070121.t1 MTR_7g026630 28.523 298 176 9 3 269 357 648 5.08e-29 116
MS.gene070121.t1 MTR_6g033310 27.303 304 177 7 3 269 427 723 5.83e-27 110
MS.gene070121.t1 MTR_4g103540 29.412 289 179 8 3 269 393 678 4.78e-26 107
MS.gene070121.t1 MTR_1g057560 28.621 290 178 8 1 269 342 623 5.64e-26 107
MS.gene070121.t1 MTR_5g073490 38.182 165 76 4 116 269 3 152 1.97e-25 99.4
MS.gene070121.t1 MTR_5g073480 30.824 279 124 7 1 265 402 625 2.28e-25 105
MS.gene070121.t1 MTR_1g090620 27.090 299 181 9 1 269 348 639 8.68e-25 104
MS.gene070121.t1 MTR_8g021330 26.490 302 186 8 1 269 305 603 8.07e-24 101
MS.gene070121.t1 MTR_7g013770 27.451 306 175 13 1 269 369 664 5.69e-23 99.0
MS.gene070121.t1 MTR_1g117090 30.270 185 117 3 98 270 483 667 2.83e-21 94.0
MS.gene070121.t1 MTR_3g025900 25.806 279 155 9 22 269 349 606 1.51e-16 80.1
MS.gene070121.t1 MTR_4g024790 50.000 84 23 2 36 119 1 65 7.84e-15 68.2
MS.gene070121.t1 MTR_2g096230 24.172 302 180 10 7 280 308 588 1.10e-13 71.2
MS.gene070121.t1 MTR_7g017290 70.455 44 13 0 185 228 46 89 2.15e-13 65.1
MS.gene070121.t1 MTR_7g017290 65.217 46 15 1 62 107 1 45 4.24e-12 61.6
MS.gene070121.t1 MTR_1g067480 25.753 299 179 11 4 269 312 600 5.56e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070121.t1 AT5G58430 40.845 284 147 6 1 269 339 616 3.88e-59 199
MS.gene070121.t1 AT1G07000 35.439 285 155 8 1 269 323 594 1.02e-42 154
MS.gene070121.t1 AT5G13150 30.693 303 163 9 3 269 351 642 1.07e-31 124
MS.gene070121.t1 AT5G13990 30.272 294 168 9 3 269 396 679 1.93e-31 123
MS.gene070121.t1 AT3G14090 25.510 294 181 8 1 262 317 604 2.88e-28 114
MS.gene070121.t1 AT1G54090 26.510 298 177 8 1 262 311 602 6.49e-27 110
MS.gene070121.t1 AT1G72470 28.333 300 181 8 1 269 323 619 9.72e-27 109
MS.gene070121.t1 AT5G52340 29.268 287 178 7 1 269 342 621 2.42e-25 105
MS.gene070121.t1 AT5G03540 26.756 299 177 10 1 269 342 628 1.91e-23 100
MS.gene070121.t1 AT5G03540 26.756 299 177 10 1 269 227 513 2.09e-23 100
MS.gene070121.t1 AT5G03540 26.756 299 177 10 1 269 368 654 2.55e-23 100
MS.gene070121.t1 AT5G50380 26.441 295 188 7 1 269 378 669 8.99e-23 98.6
MS.gene070121.t1 AT5G52350 26.871 294 190 8 1 276 296 582 2.04e-22 97.4
MS.gene070121.t1 AT3G29400 25.633 316 176 11 2 269 341 645 3.33e-18 85.1
MS.gene070121.t1 AT1G07725 26.616 263 158 9 1 238 310 562 6.95e-15 75.1
MS.gene070121.t1 AT5G61010 25.431 232 145 7 56 269 403 624 2.30e-13 70.5
MS.gene070121.t1 AT5G61010 25.431 232 145 7 56 269 403 624 2.30e-13 70.5

Find 40 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGAATCTGCTTTAGAATT+TGG 0.139042 5.4:-18172073 None:intergenic
AGTACCAACTTGAAACCTTT+TGG 0.261690 5.4:+18171942 MS.gene070121:CDS
AGTAAACAAGGATTCAAATT+CGG 0.329353 5.4:-18171540 None:intergenic
TTGGATGAGTATATAGAGTA+TGG 0.350795 5.4:+18172271 MS.gene070121:CDS
AGCCACCGGCTACATCGTTT+TGG 0.351952 5.4:+18171718 MS.gene070121:CDS
GTAAACAAGGATTCAAATTC+GGG 0.365812 5.4:-18171539 None:intergenic
GATTGTTGGGCTGATGGTGG+TGG 0.374574 5.4:+18171674 MS.gene070121:CDS
TTCACAGATAGAGCTTATAA+TGG 0.404307 5.4:+18171826 MS.gene070121:CDS
GAGGATGTTGATTGTGTAAG+AGG 0.430127 5.4:+18172337 MS.gene070121:CDS
CGATGCAGAGTTGGATTGTT+GGG 0.442610 5.4:+18171661 MS.gene070121:CDS
AAGCACTGAAATTCAAGAAT+AGG 0.445504 5.4:+18171579 MS.gene070121:CDS
TACCCTTTGGTTGTTGCTGA+TGG 0.458174 5.4:+18171782 MS.gene070121:CDS
CATATGAAAACTTCATTGCT+AGG 0.458950 5.4:+18172224 MS.gene070121:CDS
AATCTTACAAGAATACCCTT+TGG 0.462105 5.4:+18171769 MS.gene070121:CDS
CTGAAATTCAAGAATAGGTT+GGG 0.462376 5.4:+18171584 MS.gene070121:CDS
ACAAAATCCATCATCCCAAA+AGG 0.477678 5.4:-18171957 None:intergenic
CCGATGCAGAGTTGGATTGT+TGG 0.483382 5.4:+18171660 MS.gene070121:CDS
ATTGTGTAAGAGGATCAATT+AGG 0.486326 5.4:+18172347 MS.gene070121:CDS
ATCCTTGTTTACTGATTCGT+TGG 0.486501 5.4:+18171550 MS.gene070121:CDS
CAACAATCCAACTCTGCATC+GGG 0.493910 5.4:-18171659 None:intergenic
TTGGATTGTTGGGCTGATGG+TGG 0.496160 5.4:+18171671 MS.gene070121:CDS
GAGTTGGATTGTTGGGCTGA+TGG 0.509673 5.4:+18171668 MS.gene070121:CDS
TTGGTTGTTGCTGATGGAGT+AGG 0.521302 5.4:+18171788 MS.gene070121:CDS
ACTGAAATTCAAGAATAGGT+TGG 0.527255 5.4:+18171583 MS.gene070121:CDS
AGGATCAATTAGGATTCAGT+TGG 0.532656 5.4:+18172357 MS.gene070121:CDS
CAGAAGTTTCGGGAGATATG+TGG 0.544254 5.4:+18172121 MS.gene070121:CDS
CTCCATCAGCAACAACCAAA+GGG 0.550645 5.4:-18171784 None:intergenic
TCTTACACCCGATGCAGAGT+TGG 0.555038 5.4:+18171652 MS.gene070121:CDS
CCAACAATCCAACTCTGCAT+CGG 0.555872 5.4:-18171660 None:intergenic
TTTCTGGTCAAGGAAGAACT+TGG 0.559149 5.4:+18171742 MS.gene070121:CDS
TTCTAAAGCAGATTCAATGA+AGG 0.559551 5.4:+18172078 MS.gene070121:CDS
CCGGTGGCTTCACATGTCAT+AGG 0.574627 5.4:-18171704 None:intergenic
ACTCCATCAGCAACAACCAA+AGG 0.577154 5.4:-18171785 None:intergenic
GAAAGCCAAAACGATGTAGC+CGG 0.589042 5.4:-18171723 None:intergenic
CATCCCAAAAGGTTTCAAGT+TGG 0.593566 5.4:-18171946 None:intergenic
AACCAACGAATCAGTAAACA+AGG 0.627549 5.4:-18171552 None:intergenic
CCTATGACATGTGAAGCCAC+CGG 0.631734 5.4:+18171704 MS.gene070121:CDS
AGCCAAAACGATGTAGCCGG+TGG 0.678386 5.4:-18171720 None:intergenic
TATGTGGAATTCAGTCAACA+TGG 0.701076 5.4:+18172137 MS.gene070121:CDS
AGCTAAGTCACAAATATACG+AGG 0.707978 5.4:+18171871 MS.gene070121:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGTAAACAAGGATTCAAATT+CGG - chr5.4:18171543-18171562 None:intergenic 25.0%
!! AGAAACATTTTCATGGAATT+TGG + chr5.4:18171617-18171636 MS.gene070121:CDS 25.0%
!! AGTATGTAGAAACATTTTCA+TGG + chr5.4:18171610-18171629 MS.gene070121:CDS 25.0%
!! GAAACATTTTCATGGAATTT+GGG + chr5.4:18171618-18171637 MS.gene070121:CDS 25.0%
!! TGATTTTCACGGTAAAAATT+TGG + chr5.4:18172252-18172271 MS.gene070121:CDS 25.0%
!!! ATTGAATCTGCTTTAGAATT+TGG - chr5.4:18172076-18172095 None:intergenic 25.0%
!!! GGAATTTTTTCAGACAAATT+TGG + chr5.4:18171847-18171866 MS.gene070121:CDS 25.0%
!!! TGATGGATTTTGTAAAAACA+AGG + chr5.4:18171967-18171986 MS.gene070121:CDS 25.0%
AATCTTACAAGAATACCCTT+TGG + chr5.4:18171769-18171788 MS.gene070121:CDS 30.0%
ACTGAAATTCAAGAATAGGT+TGG + chr5.4:18171583-18171602 MS.gene070121:CDS 30.0%
ATGAAAAAATAACGCAAAGC+AGG - chr5.4:18171899-18171918 None:intergenic 30.0%
ATTGTGTAAGAGGATCAATT+AGG + chr5.4:18172347-18172366 MS.gene070121:CDS 30.0%
CATATGAAAACTTCATTGCT+AGG + chr5.4:18172224-18172243 MS.gene070121:CDS 30.0%
CTGAAATTCAAGAATAGGTT+GGG + chr5.4:18171584-18171603 MS.gene070121:CDS 30.0%
GTAAACAAGGATTCAAATTC+GGG - chr5.4:18171542-18171561 None:intergenic 30.0%
TGAAAAAATAACGCAAAGCA+GGG - chr5.4:18171898-18171917 None:intergenic 30.0%
TTCACAGATAGAGCTTATAA+TGG + chr5.4:18171826-18171845 MS.gene070121:CDS 30.0%
TTGGATGAGTATATAGAGTA+TGG + chr5.4:18172271-18172290 MS.gene070121:CDS 30.0%
!! AACTCTATTTTAGAAGCTCA+TGG + chr5.4:18172002-18172021 MS.gene070121:CDS 30.0%
!! AAGCACTGAAATTCAAGAAT+AGG + chr5.4:18171579-18171598 MS.gene070121:CDS 30.0%
!! TTCTAAAGCAGATTCAATGA+AGG + chr5.4:18172078-18172097 MS.gene070121:CDS 30.0%
!! TTTTAGAAGCTCATGGAATA+AGG + chr5.4:18172009-18172028 MS.gene070121:CDS 30.0%
!!! CTTTTTCAATCAGAAGTTTC+GGG + chr5.4:18172111-18172130 MS.gene070121:CDS 30.0%
!!! GCTTTTTCAATCAGAAGTTT+CGG + chr5.4:18172110-18172129 MS.gene070121:CDS 30.0%
!!! TAACCAGTTGTTTTTGTTAG+AGG + chr5.4:18172318-18172337 MS.gene070121:CDS 30.0%
AACCAACGAATCAGTAAACA+AGG - chr5.4:18171555-18171574 None:intergenic 35.0%
ACAAAATCCATCATCCCAAA+AGG - chr5.4:18171960-18171979 None:intergenic 35.0%
AGCTAAGTCACAAATATACG+AGG + chr5.4:18171871-18171890 MS.gene070121:CDS 35.0%
AGGATCAATTAGGATTCAGT+TGG + chr5.4:18172357-18172376 MS.gene070121:CDS 35.0%
CATCCTCTAACAAAAACAAC+TGG - chr5.4:18172324-18172343 None:intergenic 35.0%
TATGTGGAATTCAGTCAACA+TGG + chr5.4:18172137-18172156 MS.gene070121:CDS 35.0%
! AGTACCAACTTGAAACCTTT+TGG + chr5.4:18171942-18171961 MS.gene070121:CDS 35.0%
! GCAATGAAGTTTTCATATGC+TGG - chr5.4:18172223-18172242 None:intergenic 35.0%
! GTACCAACTTGAAACCTTTT+GGG + chr5.4:18171943-18171962 MS.gene070121:CDS 35.0%
!! ATCCTTGTTTACTGATTCGT+TGG + chr5.4:18171550-18171569 MS.gene070121:CDS 35.0%
! CATCCCAAAAGGTTTCAAGT+TGG - chr5.4:18171949-18171968 None:intergenic 40.0%
! GAGGATGTTGATTGTGTAAG+AGG + chr5.4:18172337-18172356 MS.gene070121:CDS 40.0%
! GCTAGGTTGCATGATTTTCA+CGG + chr5.4:18172241-18172260 MS.gene070121:CDS 40.0%
! TGGCAGCAACATGTTTTCTA+AGG - chr5.4:18172203-18172222 None:intergenic 40.0%
! TTTCTGGTCAAGGAAGAACT+TGG + chr5.4:18171742-18171761 MS.gene070121:CDS 40.0%
!! GTGTTTTTGACGAGCAACTA+AGG + chr5.4:18172161-18172180 MS.gene070121:CDS 40.0%
!!! CTTGAAACCTTTTGGGATGA+TGG + chr5.4:18171950-18171969 MS.gene070121:CDS 40.0%
ACTCCATCAGCAACAACCAA+AGG - chr5.4:18171788-18171807 None:intergenic 45.0%
CAACAATCCAACTCTGCATC+GGG - chr5.4:18171662-18171681 None:intergenic 45.0%
CAGAAGTTTCGGGAGATATG+TGG + chr5.4:18172121-18172140 MS.gene070121:CDS 45.0%
CCAACAATCCAACTCTGCAT+CGG - chr5.4:18171663-18171682 None:intergenic 45.0%
CGATGCAGAGTTGGATTGTT+GGG + chr5.4:18171661-18171680 MS.gene070121:CDS 45.0%
CTCCATCAGCAACAACCAAA+GGG - chr5.4:18171787-18171806 None:intergenic 45.0%
GAAAGCCAAAACGATGTAGC+CGG - chr5.4:18171726-18171745 None:intergenic 45.0%
TACCCTTTGGTTGTTGCTGA+TGG + chr5.4:18171782-18171801 MS.gene070121:CDS 45.0%
TTGGTTGTTGCTGATGGAGT+AGG + chr5.4:18171788-18171807 MS.gene070121:CDS 45.0%
!!! GCTACATCGTTTTGGCTTTC+TGG + chr5.4:18171726-18171745 MS.gene070121:CDS 45.0%
!!! TCGTTTTGGCTTTCTGGTCA+AGG + chr5.4:18171732-18171751 MS.gene070121:CDS 45.0%
CCGATGCAGAGTTGGATTGT+TGG + chr5.4:18171660-18171679 MS.gene070121:CDS 50.0%
CCTATGACATGTGAAGCCAC+CGG + chr5.4:18171704-18171723 MS.gene070121:CDS 50.0%
GAGTTGGATTGTTGGGCTGA+TGG + chr5.4:18171668-18171687 MS.gene070121:CDS 50.0%
TCTTACACCCGATGCAGAGT+TGG + chr5.4:18171652-18171671 MS.gene070121:CDS 50.0%
TTGGATTGTTGGGCTGATGG+TGG + chr5.4:18171671-18171690 MS.gene070121:CDS 50.0%
AGCCAAAACGATGTAGCCGG+TGG - chr5.4:18171723-18171742 None:intergenic 55.0%
CCGGTGGCTTCACATGTCAT+AGG - chr5.4:18171707-18171726 None:intergenic 55.0%
!! AGCCACCGGCTACATCGTTT+TGG + chr5.4:18171718-18171737 MS.gene070121:CDS 55.0%
!! GATTGTTGGGCTGATGGTGG+TGG + chr5.4:18171674-18171693 MS.gene070121:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 18171524 18172387 18171524 ID=MS.gene070121
chr5.4 mRNA 18171524 18172387 18171524 ID=MS.gene070121.t1;Parent=MS.gene070121
chr5.4 exon 18171524 18172387 18171524 ID=MS.gene070121.t1.exon1;Parent=MS.gene070121.t1
chr5.4 CDS 18171524 18172387 18171524 ID=cds.MS.gene070121.t1;Parent=MS.gene070121.t1
Gene Sequence

>MS.gene070121

ATGTGTGATCTCATTCCCGAATTTGAATCCTTGTTTACTGATTCGTTGGTTAACAAAGCACTGAAATTCAAGAATAGGTTGGGTGAAGTATGTAGAAACATTTTCATGGAATTTGGGAAATTGATATTTCTTACACCCGATGCAGAGTTGGATTGTTGGGCTGATGGTGGTGGAGTTCATCCTATGACATGTGAAGCCACCGGCTACATCGTTTTGGCTTTCTGGTCAAGGAAGAACTTGGAGAAAATCTTACAAGAATACCCTTTGGTTGTTGCTGATGGAGTAGGAACATCTTTATTCTATTCACAGATAGAGCTTATAATGGAATTTTTTCAGACAAATTTGGAAGCTAAGTCACAAATATACGAGGACCCTGCTTTGCGTTATTTTTTCATGATGAATAATCTAAGTCACATTAAGTACCAACTTGAAACCTTTTGGGATGATGGATTTTGTAAAAACAAGGAGCAATATTGTGAACTCTATTTTAGAAGCTCATGGAATAAGGTGATAGATTTTTTGAAGATTGATATCGACGAGTCAATGACGCCAAATTCTAAAGCAGATTCAATGAAGGACAATCTCAGCTTTTTCAATCAGAAGTTTCGGGAGATATGTGGAATTCAGTCAACATGGCGTGTTTTTGACGAGCAACTAAGGAAACAAATAATAATTTCCTTAGAAAACATGTTGCTGCCAGCATATGAAAACTTCATTGCTAGGTTGCATGATTTTCACGGTAAAAATTTGGATGAGTATATAGAGTATGGAATGTCTGATATTCAAGATCGACTTAACCAGTTGTTTTTGTTAGAGGATGTTGATTGTGTAAGAGGATCAATTAGGATTCAGTTGGTTAGTTAG

Protein sequence

>MS.gene070121.t1

MCDLIPEFESLFTDSLVNKALKFKNRLGEVCRNIFMEFGKLIFLTPDAELDCWADGGGVHPMTCEATGYIVLAFWSRKNLEKILQEYPLVVADGVGTSLFYSQIELIMEFFQTNLEAKSQIYEDPALRYFFMMNNLSHIKYQLETFWDDGFCKNKEQYCELYFRSSWNKVIDFLKIDIDESMTPNSKADSMKDNLSFFNQKFREICGIQSTWRVFDEQLRKQIIISLENMLLPAYENFIARLHDFHGKNLDEYIEYGMSDIQDRLNQLFLLEDVDCVRGSIRIQLVS