AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025147

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025147 MtrunA17_Chr5g0398181 97.705 305 3 2 1 301 1 305 0.0 610
MsaG025147 MtrunA17_Chr1g0149651 70.036 277 79 2 15 288 161 436 3.26e-137 395
MsaG025147 MtrunA17_Chr3g0137241 69.057 265 81 1 25 288 107 371 3.13e-133 382
MsaG025147 MtrunA17_Chr2g0305101 68.679 265 80 2 23 287 93 354 3.12e-130 375
MsaG025147 MtrunA17_Chr4g0065241 69.141 256 76 1 20 275 66 318 2.75e-129 371
MsaG025147 MtrunA17_Chr1g0192791 34.375 256 138 5 21 272 16 245 1.49e-32 121
MsaG025147 MtrunA17_Chr1g0151961 32.806 253 145 6 20 272 115 342 8.28e-30 116
MsaG025147 MtrunA17_Chr5g0413201 34.387 253 132 6 24 272 72 294 1.02e-28 112
MsaG025147 MtrunA17_Chr5g0439391 30.364 247 139 4 27 272 49 263 9.24e-24 98.6
MsaG025147 MtrunA17_Chr2g0289201 29.317 249 148 4 24 272 117 337 1.28e-23 99.4
MsaG025147 MtrunA17_Chr7g0240371 37.349 83 50 1 204 286 298 378 4.58e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025147 AT1G62990.1 79.181 293 52 4 1 287 1 290 7.86e-169 470
MsaG025147 AT5G25220.2 66.330 297 79 5 7 288 129 419 2.50e-135 390
MsaG025147 AT5G25220.1 66.216 296 79 5 7 287 129 418 1.47e-134 388
MsaG025147 AT5G11060.1 68.401 269 79 2 20 287 119 382 3.90e-132 381
MsaG025147 AT4G32040.1 61.379 290 95 6 12 289 96 380 4.13e-117 342
MsaG025147 AT4G32040.2 61.592 289 94 6 12 288 96 379 4.70e-117 342
MsaG025147 AT1G70510.1 33.597 253 132 5 24 272 69 289 4.44e-33 124
MsaG025147 AT1G23380.1 34.800 250 133 6 24 272 85 305 4.84e-32 121
MsaG025147 AT1G70510.2 32.411 253 139 4 24 272 69 293 5.12e-32 121
MsaG025147 AT1G23380.2 34.524 252 133 7 24 272 85 307 3.92e-30 116
MsaG025147 AT4G08150.1 30.588 255 143 7 24 272 134 360 2.98e-27 110
MsaG025147 AT1G62360.1 29.317 249 150 4 24 272 121 343 2.26e-22 96.3

Find 65 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTATTTCAGGAGTGAGTT+TGG 0.300536 5:-4557330 MsaT025147.1:intron
AGTCAAGAATTGAAGATGTA+AGG 0.320951 5:-4557011 MsaT025147.1:CDS
TCATGCTGTTGAAGCTGTTA+TGG 0.321045 5:-4559712 MsaT025147.1:CDS
GAACAATTGCAGATGGATTA+TGG 0.322505 5:-4557269 MsaT025147.1:CDS
AGCTGAAGCAAATCAATAAT+TGG 0.323659 5:-4556590 MsaT025147.1:CDS
ATGTAAGGGAGGAAATATTA+AGG 0.375793 5:-4556996 MsaT025147.1:CDS
TTTATTTCAGGAGTGAGTTT+GGG 0.389051 5:-4557329 MsaT025147.1:intron
TCTACTATTATTATATCTCT+TGG 0.413043 5:+4556349 None:intergenic
AAGAAGAGCTGGAAAATTAC+CGG 0.413561 5:-4556971 MsaT025147.1:CDS
TTAATCAAAGGAAAAGAAAC+TGG 0.420427 5:-4556563 MsaT025147.1:CDS
ATCAATGGTAACTGATCTAT+AGG 0.425631 5:+4560254 None:intergenic
GGGATGATGCACGGTGGTTA+CGG 0.430293 5:-4560383 MsaT025147.1:CDS
TATACCTGTGAGGGCTTGTA+AGG 0.438851 5:+4559668 None:intergenic
CAACTTCAGTCTTAAAGAAC+TGG 0.439479 5:-4556942 MsaT025147.1:CDS
ACTCAAAATTGAGCTCAAAC+AGG 0.454282 5:-4557141 MsaT025147.1:intron
TATCTCTTGGTGCATCTCAC+TGG 0.459765 5:+4556362 None:intergenic
GTCAAGAATTGAAGATGTAA+GGG 0.466928 5:-4557010 MsaT025147.1:CDS
GTGAGTTTGGGAGAAGGAAG+TGG 0.468312 5:-4557317 MsaT025147.1:CDS
TCAGGAGTGAGTTTGGGAGA+AGG 0.470466 5:-4557323 MsaT025147.1:intron
GAAATGCAAGAACCAAGCTT+AGG 0.481189 5:-4560404 MsaT025147.1:CDS
CTCTTGGTGCATCTCACTGG+TGG 0.481516 5:+4556365 None:intergenic
CACGGTGGTTACGGTGGAGA+TGG 0.501187 5:-4560374 MsaT025147.1:CDS
GCAAAACTTGTGGAGGAGAC+AGG 0.501622 5:-4556618 MsaT025147.1:CDS
GATAACTGAGCATCAATCAA+TGG 0.510534 5:+4560239 None:intergenic
AAATGCAAGAACCAAGCTTA+GGG 0.512228 5:-4560403 MsaT025147.1:CDS
TCTTGGTGCATCTCACTGGT+GGG 0.521682 5:+4556366 None:intergenic
TCAGATTCCGTAGGAAGTAA+TGG 0.522855 5:+4557194 None:intergenic
CTTGCGTTTCGACTTCAAAG+AGG 0.527244 5:+4556518 None:intergenic
AATTAACATACAGTTGGGTA+AGG 0.529902 5:+4556898 None:intergenic
CTGGCACAGTAATTCTCAAT+CGG 0.541137 5:-4556544 MsaT025147.1:CDS
GATAATCAGTCAAGTGGTGG+TGG 0.544388 5:-4557242 MsaT025147.1:CDS
GATCATGACATGATGGGACT+TGG 0.548603 5:-4557218 MsaT025147.1:CDS
ATATTAAGGAAAAGAAGAGC+TGG 0.550111 5:-4556982 MsaT025147.1:CDS
ATAATTGGTTCATTAATCAA+AGG 0.552236 5:-4556575 MsaT025147.1:CDS
ACTTGGTCCATTACTTCCTA+CGG 0.552428 5:-4557201 MsaT025147.1:CDS
GGTGGTTACGGTGGAGATGG+TGG 0.568036 5:-4560371 MsaT025147.1:CDS
TGGTGGTGATCATGACATGA+TGG 0.573965 5:-4557225 MsaT025147.1:CDS
GGAATCTGAGAGGTCACTCA+TGG 0.575291 5:-4557180 MsaT025147.1:CDS
AAGAATTGAAGATGTAAGGG+AGG 0.579355 5:-4557007 MsaT025147.1:CDS
AGGAAGTGGTGCGACAATGT+CGG 0.581478 5:-4557303 MsaT025147.1:CDS
CGGTGAGAACAGACAACTGA+AGG 0.590615 5:-4560348 MsaT025147.1:CDS
AAGACTGAAGTTGTGTCACC+CGG 0.596174 5:+4556952 None:intergenic
CCGTGCATCATCCCTAAGCT+TGG 0.606516 5:+4560392 None:intergenic
TGAAGATGAACAATTGCAGA+TGG 0.612178 5:-4557276 MsaT025147.1:CDS
TCGAGTTGTTGACGATCATG+AGG 0.612238 5:+4560161 None:intergenic
AATACCTTACAAGCCCTCAC+AGG 0.617490 5:-4559672 MsaT025147.1:intron
GGTTACGGTGGAGATGGTGG+CGG 0.617848 5:-4560368 MsaT025147.1:CDS
CAGTGTACATATACCTGTGA+GGG 0.621411 5:+4559659 None:intergenic
CTTTGAAGTCGAAACGCAAG+AGG 0.621918 5:-4556515 MsaT025147.1:intron
AGAAGAGCTGGAAAATTACC+GGG 0.627133 5:-4556970 MsaT025147.1:CDS
TGACAAAGCAAAACTTGTGG+AGG 0.628394 5:-4556625 MsaT025147.1:CDS
CTTCAGTCTTAAAGAACTGG+TGG 0.629856 5:-4556939 MsaT025147.1:CDS
GACAGAAGCTGTTCATACAA+AGG 0.633295 5:+4560308 None:intergenic
GGTCTAGATAATCAGTCAAG+TGG 0.641451 5:-4557248 MsaT025147.1:CDS
GGTGGTGATCATGACATGAT+GGG 0.646696 5:-4557224 MsaT025147.1:CDS
ATGATGCACGGTGGTTACGG+TGG 0.647600 5:-4560380 MsaT025147.1:CDS
CTAGATAATCAGTCAAGTGG+TGG 0.656919 5:-4557245 MsaT025147.1:CDS
AGTGACCTCTCAGATTCCGT+AGG 0.660085 5:+4557185 None:intergenic
TGAGAACAGACAACTGAAGG+CGG 0.661001 5:-4560345 MsaT025147.1:CDS
AGATGACAAAGCAAAACTTG+TGG 0.663448 5:-4556628 MsaT025147.1:CDS
GGTGGCAGCAACATGCAAAG+TGG 0.673948 5:-4556921 MsaT025147.1:CDS
TACTTCCTACGGAATCTGAG+AGG 0.681932 5:-4557190 MsaT025147.1:CDS
GCAGTGTACATATACCTGTG+AGG 0.695254 5:+4559658 None:intergenic
CCAAGCTTAGGGATGATGCA+CGG 0.704488 5:-4560392 MsaT025147.1:CDS
AGCTTAGGGATGATGCACGG+TGG 0.759363 5:-4560389 MsaT025147.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 4556359 4560423 4556359 ID=MsaG025147
Chr5 mRNA 4556359 4560423 4556359 ID=MsaT025147.1;Parent=MsaG025147
Chr5 exon 4556359 4556401 4556359 ID=MsaT025147.1.exon6;Parent=MsaT025147.1
Chr5 CDS 4556359 4556401 4556359 ID=cds.MsaT025147.1;Parent=MsaT025147.1
Chr5 exon 4556516 4556652 4556516 ID=MsaT025147.1.exon5;Parent=MsaT025147.1
Chr5 CDS 4556516 4556652 4556516 ID=cds.MsaT025147.1;Parent=MsaT025147.1
Chr5 exon 4556909 4557040 4556909 ID=MsaT025147.1.exon4;Parent=MsaT025147.1
Chr5 CDS 4556909 4557040 4556909 ID=cds.MsaT025147.1;Parent=MsaT025147.1
Chr5 exon 4557142 4557341 4557142 ID=MsaT025147.1.exon3;Parent=MsaT025147.1
Chr5 CDS 4557142 4557341 4557142 ID=cds.MsaT025147.1;Parent=MsaT025147.1
Chr5 exon 4559673 4559793 4559673 ID=MsaT025147.1.exon2;Parent=MsaT025147.1
Chr5 CDS 4559673 4559793 4559673 ID=cds.MsaT025147.1;Parent=MsaT025147.1
Chr5 exon 4560151 4560423 4560151 ID=MsaT025147.1.exon1;Parent=MsaT025147.1
Chr5 CDS 4560151 4560423 4560151 ID=cds.MsaT025147.1;Parent=MsaT025147.1
Gene Sequence

>MsaT025147.1

ATGCAAGAACCAAGCTTAGGGATGATGCACGGTGGTTACGGTGGAGATGGTGGCGGTGAGAACAGACAACTGAAGGCGGAGATAGCAACACATCCTTTGTATGAACAGCTTCTGTCTGCACATGTAGCATGTCTTCGTGTTGCTACTCCTATAGATCAGTTACCATTGATTGATGCTCAGTTATCTCAATCTCATCATCTTCTACGATCTTATATCTCTCAACAAACTCATTCTCTTTCTCCTCATGATCGTCAACAACTCGATAACTTCCTCGCACAATATTTGATAGTTTTGTGTACATTCAAAGAACAACTTCAGCAACATGTCAGAGTTCATGCTGTTGAAGCTGTTATGGCTTGCCGTGATATTGAAAATACCTTACAAGCCCTCACAGGAGTGAGTTTGGGAGAAGGAAGTGGTGCGACAATGTCGGATGATGAAGATGAACAATTGCAGATGGATTATGGTCTAGATAATCAGTCAAGTGGTGGTGGTGATCATGACATGATGGGACTTGGTCCATTACTTCCTACGGAATCTGAGAGGTCACTCATGGAAAGAGTTCGTCAAGAACTCAAAATTGAGCTCAAACAGGGTTTTAAGTCAAGAATTGAAGATGTAAGGGAGGAAATATTAAGGAAAAGAAGAGCTGGAAAATTACCGGGTGACACAACTTCAGTCTTAAAGAACTGGTGGCAGCAACATGCAAAGTGGCCTTACCCAACTGAAGATGACAAAGCAAAACTTGTGGAGGAGACAGGACTGCAGCTGAAGCAAATCAATAATTGGTTCATTAATCAAAGGAAAAGAAACTGGCACAGTAATTCTCAATCGGTCACCTCTTTGAAGTCGAAACGCAAGAGAGTGTACTGTAGACCCACCAGTGAGATGCACCAAGAGATATAA
Protein sequence

>MsaT025147.1

MQEPSLGMMHGGYGGDGGGENRQLKAEIATHPLYEQLLSAHVACLRVATPIDQLPLIDAQLSQSHHLLRSYISQQTHSLSPHDRQQLDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMACRDIENTLQALTGVSLGEGSGATMSDDEDEQLQMDYGLDNQSSGGGDHDMMGLGPLLPTESERSLMERVRQELKIELKQGFKSRIEDVREEILRKRRAGKLPGDTTSVLKNWWQQHAKWPYPTEDDKAKLVEETGLQLKQINNWFINQRKRNWHSNSQSVTSLKSKRKRVYCRPTSEMHQEI*