AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009781.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009781.01.T01 MTR_2g070460 99.718 355 1 0 1 355 256 610 0.0 742
MsG0280009781.01.T01 MTR_5g025250 40.056 357 204 6 1 353 225 575 9.00e-94 291
MsG0280009781.01.T01 MTR_5g025230 40.056 357 204 6 1 353 224 574 9.15e-94 291
MsG0280009781.01.T01 MTR_5g025270 40.556 360 199 7 1 353 226 577 1.73e-93 290
MsG0280009781.01.T01 MTR_8g037315 36.772 378 205 11 2 354 169 537 8.82e-72 233
MsG0280009781.01.T01 MTR_8g037275 36.605 377 205 12 2 354 206 572 1.29e-68 225
MsG0280009781.01.T01 MTR_8g037290 36.772 378 203 13 2 354 206 572 1.59e-67 223
MsG0280009781.01.T01 MTR_8g037310 36.340 377 206 11 2 354 206 572 3.59e-66 219
MsG0280009781.01.T01 MTR_3g110195 27.467 375 230 15 3 346 215 578 3.66e-34 132
MsG0280009781.01.T01 MTR_3g109610 25.193 389 218 19 4 346 201 562 2.83e-17 83.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009781.01.T01 AT3G14440 79.096 354 72 2 2 354 245 597 0.0 585
MsG0280009781.01.T01 AT1G78390 75.424 354 84 2 1 354 304 654 0.0 575
MsG0280009781.01.T01 AT1G30100 73.729 354 92 1 2 354 235 588 0.0 567
MsG0280009781.01.T01 AT4G18350 70.868 357 100 2 1 354 227 582 0.0 544
MsG0280009781.01.T01 AT3G24220 57.703 357 144 4 1 354 223 575 2.67e-151 438
MsG0280009781.01.T01 AT4G19170 38.420 367 206 8 1 353 234 594 6.67e-86 271
MsG0280009781.01.T01 AT3G63520 36.800 375 206 11 2 354 170 535 4.11e-72 234
MsG0280009781.01.T01 AT4G32810 24.706 340 223 14 35 346 233 567 5.12e-20 91.7
MsG0280009781.01.T01 AT4G32810 23.224 366 222 15 35 346 233 593 1.11e-16 81.6

Find 67 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTCAGATTCTTTGATTAT+AGG 0.219067 2:+57868036 None:intergenic
AGAATCTGAACAAGTGAATT+TGG 0.223700 2:-57868025 MsG0280009781.01.T01:CDS
GAACCATGGCCTAAAGTTTC+CGG 0.233310 2:-57867937 MsG0280009781.01.T01:CDS
CAATGAATGTGAAGAGAATT+TGG 0.241160 2:-57868115 MsG0280009781.01.T01:CDS
AAACGAAAGTATTTCAAATA+AGG 0.245608 2:+57868477 None:intergenic
TCAACAAGTTGTGTTTAAAT+TGG 0.246843 2:-57868352 MsG0280009781.01.T01:CDS
AATGGTGAACAAGAACAAAT+TGG 0.255697 2:-57867995 MsG0280009781.01.T01:CDS
AGAAGAATCTTCCGCATTCT+TGG 0.261635 2:+57868260 None:intergenic
AAGATTCTTCTGAGATGATT+TGG 0.271949 2:-57868248 MsG0280009781.01.T01:CDS
AGGAGAAAGTTTCGAGGTTC+GGG 0.281078 2:-57868290 MsG0280009781.01.T01:CDS
CGTGTTCCTTACGGATTTCA+TGG 0.325594 2:-57867694 MsG0280009781.01.T01:CDS
TTATCAACTGGATCAACCTT+TGG 0.356234 2:+57868537 None:intergenic
ATTTACGGTGAAAACAGATT+TGG 0.364976 2:-57867871 MsG0280009781.01.T01:CDS
AACCATGGCCTAAAGTTTCC+GGG 0.372487 2:-57867936 MsG0280009781.01.T01:CDS
CTTCCTTCTCGTGTTCCTTA+CGG 0.380184 2:-57867703 MsG0280009781.01.T01:CDS
TTAAACACAACTTGTTGATC+AGG 0.392404 2:+57868357 None:intergenic
TTCGCGAACCCGGAAACTTT+AGG 0.399833 2:+57867928 None:intergenic
GCATACATATTCTTATCAAC+TGG 0.401122 2:+57868525 None:intergenic
AAGGAGAAAGTTTCGAGGTT+CGG 0.408476 2:-57868291 MsG0280009781.01.T01:CDS
AATGATGAAGTTGTGGTGAT+TGG 0.432492 2:-57868168 MsG0280009781.01.T01:CDS
CAACAAGTTGTGTTTAAATT+GGG 0.437370 2:-57868351 MsG0280009781.01.T01:CDS
TCGTTCTCAGAATCAGAATT+CGG 0.444053 2:+57867829 None:intergenic
TTCTCCTTATCGTAAACAAC+AGG 0.447398 2:+57868306 None:intergenic
ATTCGGTTGAATTTGAAGAC+AGG 0.450399 2:-57868075 MsG0280009781.01.T01:CDS
AAGATCAACTTTCGCGAACC+CGG 0.452153 2:+57867918 None:intergenic
TTGTTCATGACGAGAAAGAA+TGG 0.452961 2:-57867783 MsG0280009781.01.T01:CDS
GGGTGTTGCTAACGCTGGTT+TGG 0.470526 2:-57868697 MsG0280009781.01.T01:CDS
GTCGCCTGTTGTTTACGATA+AGG 0.471457 2:-57868310 MsG0280009781.01.T01:CDS
TCCAATGGAATCTCAACGTC+CGG 0.472840 2:+57868432 None:intergenic
ATGGTGAACAAGAACAAATT+GGG 0.477632 2:-57867994 MsG0280009781.01.T01:CDS
GAAGTTAAGAAATATATTTA+CGG 0.482519 2:-57867886 MsG0280009781.01.T01:CDS
GCGAAGTCATGCATCATAGT+AGG 0.487927 2:+57868405 None:intergenic
TACGGTGAAAACAGATTTGG+TGG 0.500309 2:-57867868 MsG0280009781.01.T01:CDS
ATCTTGCTCTTGCTGAACCA+TGG 0.506511 2:-57867951 MsG0280009781.01.T01:CDS
GAACAAGTGAATTTGGAAGC+TGG 0.515051 2:-57868018 MsG0280009781.01.T01:CDS
ATCGAAATCATAACGGCAAA+CGG 0.521670 2:+57868590 None:intergenic
GATTCTGAGAACGAAGATGA+TGG 0.531146 2:-57867820 MsG0280009781.01.T01:CDS
GTTGATTATCGAAATCATAA+CGG 0.531621 2:+57868583 None:intergenic
AACCCGGAAACTTTAGGCCA+TGG 0.540881 2:+57867934 None:intergenic
GGTGTGACACGAATATGATA+AGG 0.541835 2:+57868630 None:intergenic
TTCGGTTGAATTTGAAGACA+GGG 0.552057 2:-57868074 MsG0280009781.01.T01:CDS
TCCGGACGTTGAGATTCCAT+TGG 0.552425 2:-57868433 MsG0280009781.01.T01:CDS
AGTGAATTTGGAAGCTGGAA+TGG 0.554489 2:-57868013 MsG0280009781.01.T01:CDS
CTTCAGACATAGCTAACAAA+CGG 0.561119 2:+57868661 None:intergenic
CATATTCGTGTCACACCTAA+CGG 0.571565 2:-57868624 MsG0280009781.01.T01:CDS
ACGGTGGTTAAATCACCGTT+AGG 0.575703 2:+57868609 None:intergenic
ACGATAAGGAGAAAGTTTCG+AGG 0.596248 2:-57868296 MsG0280009781.01.T01:CDS
CGGTGAAAACAGATTTGGTG+GGG 0.599995 2:-57867866 MsG0280009781.01.T01:CDS
TGCGTCCGGAGTTAAGTCTC+CGG 0.603867 2:-57868451 MsG0280009781.01.T01:CDS
AATCCGTAAGGAACACGAGA+AGG 0.606314 2:+57867700 None:intergenic
TCATCTATGGAATGCGTGGG+AGG 0.606454 2:-57868199 MsG0280009781.01.T01:CDS
ATCATAGTAGGCTGCTCCAA+TGG 0.608653 2:+57868417 None:intergenic
AAAGTTCCATGAAATCCGTA+AGG 0.611029 2:+57867688 None:intergenic
GCCTGAAAATGATGAAGTTG+TGG 0.613361 2:-57868175 MsG0280009781.01.T01:CDS
AGATGAAAACAGAAACACTC+TGG 0.615877 2:+57868216 None:intergenic
GGAATGGGTGTTGCTAACGC+TGG 0.620966 2:-57868702 MsG0280009781.01.T01:CDS
AAACAACAGGCGACCCACCA+CGG 0.621367 2:+57868319 None:intergenic
ACGGTGAAAACAGATTTGGT+GGG 0.623063 2:-57867867 MsG0280009781.01.T01:CDS
GACAATGATAGCTCATCCAA+AGG 0.634150 2:-57868553 MsG0280009781.01.T01:CDS
TCATTGAATATCGAATCAGC+CGG 0.654229 2:+57868132 None:intergenic
GATTGGATCGTGTATGACAC+CGG 0.658142 2:-57868151 MsG0280009781.01.T01:CDS
GGAGAAAGTTTCGAGGTTCG+GGG 0.659218 2:-57868289 MsG0280009781.01.T01:CDS
GAAATCATAACGGCAAACGG+TGG 0.670596 2:+57868593 None:intergenic
TGGGTGAGATGATCCGTGGT+GGG 0.681416 2:-57868332 MsG0280009781.01.T01:CDS
AACGTCCGGAGACTTAACTC+CGG 0.690939 2:+57868446 None:intergenic
AAATTGGGTGAGATGATCCG+TGG 0.691929 2:-57868336 MsG0280009781.01.T01:CDS
TTGGGTGAGATGATCCGTGG+TGG 0.700831 2:-57868333 MsG0280009781.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAGTTAAGAAATATATTTA+CGG - Chr2:57868467-57868486 MsG0280009781.01.T01:CDS 15.0%
!!! AAACGAAAGTATTTCAAATA+AGG + Chr2:57867879-57867898 None:intergenic 20.0%
! CAACAAGTTGTGTTTAAATT+GGG - Chr2:57868002-57868021 MsG0280009781.01.T01:CDS 25.0%
! GTTGATTATCGAAATCATAA+CGG + Chr2:57867773-57867792 None:intergenic 25.0%
! TCAACAAGTTGTGTTTAAAT+TGG - Chr2:57868001-57868020 MsG0280009781.01.T01:CDS 25.0%
! TGTTCAGATTCTTTGATTAT+AGG + Chr2:57868320-57868339 None:intergenic 25.0%
AATGGTGAACAAGAACAAAT+TGG - Chr2:57868358-57868377 MsG0280009781.01.T01:CDS 30.0%
AGAATCTGAACAAGTGAATT+TGG - Chr2:57868328-57868347 MsG0280009781.01.T01:CDS 30.0%
ATGGTGAACAAGAACAAATT+GGG - Chr2:57868359-57868378 MsG0280009781.01.T01:CDS 30.0%
ATTTACGGTGAAAACAGATT+TGG - Chr2:57868482-57868501 MsG0280009781.01.T01:CDS 30.0%
CAATGAATGTGAAGAGAATT+TGG - Chr2:57868238-57868257 MsG0280009781.01.T01:CDS 30.0%
GCATACATATTCTTATCAAC+TGG + Chr2:57867831-57867850 None:intergenic 30.0%
!! AAGATTCTTCTGAGATGATT+TGG - Chr2:57868105-57868124 MsG0280009781.01.T01:CDS 30.0%
!! AGAGTGTTTTGTCTGAAATT+CGG - Chr2:57868261-57868280 MsG0280009781.01.T01:CDS 30.0%
!! AGTGTTTCTGTTTTCATCTA+TGG - Chr2:57868141-57868160 MsG0280009781.01.T01:CDS 30.0%
!! TTAAACACAACTTGTTGATC+AGG + Chr2:57867999-57868018 None:intergenic 30.0%
AAAGTTCCATGAAATCCGTA+AGG + Chr2:57868668-57868687 None:intergenic 35.0%
AATGATGAAGTTGTGGTGAT+TGG - Chr2:57868185-57868204 MsG0280009781.01.T01:CDS 35.0%
AGATGAAAACAGAAACACTC+TGG + Chr2:57868140-57868159 None:intergenic 35.0%
ATCGAAATCATAACGGCAAA+CGG + Chr2:57867766-57867785 None:intergenic 35.0%
ATTCGGTTGAATTTGAAGAC+AGG - Chr2:57868278-57868297 MsG0280009781.01.T01:CDS 35.0%
CTTCAGACATAGCTAACAAA+CGG + Chr2:57867695-57867714 None:intergenic 35.0%
TCAGAATTCGGTAAAAACAG+AGG + Chr2:57868515-57868534 None:intergenic 35.0%
TCATTGAATATCGAATCAGC+CGG + Chr2:57868224-57868243 None:intergenic 35.0%
TCGTTCTCAGAATCAGAATT+CGG + Chr2:57868527-57868546 None:intergenic 35.0%
TTATCAACTGGATCAACCTT+TGG + Chr2:57867819-57867838 None:intergenic 35.0%
TTCGGTTGAATTTGAAGACA+GGG - Chr2:57868279-57868298 MsG0280009781.01.T01:CDS 35.0%
TTCTCCTTATCGTAAACAAC+AGG + Chr2:57868050-57868069 None:intergenic 35.0%
TTGTTCATGACGAGAAAGAA+TGG - Chr2:57868570-57868589 MsG0280009781.01.T01:CDS 35.0%
! ACCACAACTTCATCATTTTC+AGG + Chr2:57868182-57868201 None:intergenic 35.0%
! TTTTCATCTATGGAATGCGT+GGG - Chr2:57868151-57868170 MsG0280009781.01.T01:CDS 35.0%
AAGGAGAAAGTTTCGAGGTT+CGG - Chr2:57868062-57868081 MsG0280009781.01.T01:CDS 40.0%
ACGATAAGGAGAAAGTTTCG+AGG - Chr2:57868057-57868076 MsG0280009781.01.T01:CDS 40.0%
AGAAGAATCTTCCGCATTCT+TGG + Chr2:57868096-57868115 None:intergenic 40.0%
AGTGAATTTGGAAGCTGGAA+TGG - Chr2:57868340-57868359 MsG0280009781.01.T01:CDS 40.0%
CATATTCGTGTCACACCTAA+CGG - Chr2:57867729-57867748 MsG0280009781.01.T01:CDS 40.0%
GAACAAGTGAATTTGGAAGC+TGG - Chr2:57868335-57868354 MsG0280009781.01.T01:CDS 40.0%
GACAATGATAGCTCATCCAA+AGG - Chr2:57867800-57867819 MsG0280009781.01.T01:CDS 40.0%
GCCTGAAAATGATGAAGTTG+TGG - Chr2:57868178-57868197 MsG0280009781.01.T01:CDS 40.0%
GGTGTGACACGAATATGATA+AGG + Chr2:57867726-57867745 None:intergenic 40.0%
TACGGTGAAAACAGATTTGG+TGG - Chr2:57868485-57868504 MsG0280009781.01.T01:CDS 40.0%
! ACGGTGAAAACAGATTTGGT+GGG - Chr2:57868486-57868505 MsG0280009781.01.T01:CDS 40.0%
! GATTCTGAGAACGAAGATGA+TGG - Chr2:57868533-57868552 MsG0280009781.01.T01:CDS 40.0%
! GTTTTCATCTATGGAATGCG+TGG - Chr2:57868150-57868169 MsG0280009781.01.T01:CDS 40.0%
!! GCGAAAGTTGATCTTTTCAG+TGG - Chr2:57868443-57868462 MsG0280009781.01.T01:CDS 40.0%
!! TACTTTCGTTTTGATGCGTC+CGG - Chr2:57867888-57867907 MsG0280009781.01.T01:CDS 40.0%
AAATTGGGTGAGATGATCCG+TGG - Chr2:57868017-57868036 MsG0280009781.01.T01:CDS 45.0%
AACCATGGCCTAAAGTTTCC+GGG - Chr2:57868417-57868436 MsG0280009781.01.T01:CDS 45.0%
AAGATCAACTTTCGCGAACC+CGG + Chr2:57868438-57868457 None:intergenic 45.0%
AATCCGTAAGGAACACGAGA+AGG + Chr2:57868656-57868675 None:intergenic 45.0%
ACGGTGGTTAAATCACCGTT+AGG + Chr2:57867747-57867766 None:intergenic 45.0%
AGGAGAAAGTTTCGAGGTTC+GGG - Chr2:57868063-57868082 MsG0280009781.01.T01:CDS 45.0%
ATCATAGTAGGCTGCTCCAA+TGG + Chr2:57867939-57867958 None:intergenic 45.0%
ATCTTGCTCTTGCTGAACCA+TGG - Chr2:57868402-57868421 MsG0280009781.01.T01:CDS 45.0%
CGTGTTCCTTACGGATTTCA+TGG - Chr2:57868659-57868678 MsG0280009781.01.T01:CDS 45.0%
CTTCCTTCTCGTGTTCCTTA+CGG - Chr2:57868650-57868669 MsG0280009781.01.T01:CDS 45.0%
GAAATCATAACGGCAAACGG+TGG + Chr2:57867763-57867782 None:intergenic 45.0%
GAACCATGGCCTAAAGTTTC+CGG - Chr2:57868416-57868435 MsG0280009781.01.T01:CDS 45.0%
GATTGGATCGTGTATGACAC+CGG - Chr2:57868202-57868221 MsG0280009781.01.T01:CDS 45.0%
GCGAAGTCATGCATCATAGT+AGG + Chr2:57867951-57867970 None:intergenic 45.0%
TCCAATGGAATCTCAACGTC+CGG + Chr2:57867924-57867943 None:intergenic 45.0%
! GTCGCCTGTTGTTTACGATA+AGG - Chr2:57868043-57868062 MsG0280009781.01.T01:CDS 45.0%
!! CGGGGTTTTATCCAAGAATG+CGG - Chr2:57868082-57868101 MsG0280009781.01.T01:CDS 45.0%
!! CGGTGAAAACAGATTTGGTG+GGG - Chr2:57868487-57868506 MsG0280009781.01.T01:CDS 45.0%
AACCCGGAAACTTTAGGCCA+TGG + Chr2:57868422-57868441 None:intergenic 50.0%
AACGTCCGGAGACTTAACTC+CGG + Chr2:57867910-57867929 None:intergenic 50.0%
GGAGAAAGTTTCGAGGTTCG+GGG - Chr2:57868064-57868083 MsG0280009781.01.T01:CDS 50.0%
TCATCTATGGAATGCGTGGG+AGG - Chr2:57868154-57868173 MsG0280009781.01.T01:CDS 50.0%
TCCGGACGTTGAGATTCCAT+TGG - Chr2:57867920-57867939 MsG0280009781.01.T01:CDS 50.0%
TTCGCGAACCCGGAAACTTT+AGG + Chr2:57868428-57868447 None:intergenic 50.0%
AAACAACAGGCGACCCACCA+CGG + Chr2:57868037-57868056 None:intergenic 55.0%
TGCGTCCGGAGTTAAGTCTC+CGG - Chr2:57867902-57867921 MsG0280009781.01.T01:CDS 55.0%
TGGGTGAGATGATCCGTGGT+GGG - Chr2:57868021-57868040 MsG0280009781.01.T01:CDS 55.0%
TTGGGTGAGATGATCCGTGG+TGG - Chr2:57868020-57868039 MsG0280009781.01.T01:CDS 55.0%
!! GGGTGTTGCTAACGCTGGTT+TGG - Chr2:57867656-57867675 MsG0280009781.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 57867654 57868721 57867654 ID=MsG0280009781.01;Name=MsG0280009781.01
Chr2 mRNA 57867654 57868721 57867654 ID=MsG0280009781.01.T01;Parent=MsG0280009781.01;Name=MsG0280009781.01.T01;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|355
Chr2 exon 57867654 57868721 57867654 ID=MsG0280009781.01.T01:exon:38390;Parent=MsG0280009781.01.T01
Chr2 CDS 57867654 57868721 57867654 ID=MsG0280009781.01.T01:cds;Parent=MsG0280009781.01.T01
Gene Sequence

>MsG0280009781.01.T01

ATGGGTGTTGCTAACGCTGGTTTGGTTTATTTCAATAACCGTTTGTTAGCTATGTCTGAAGATGATATTCCTTATCATATTCGTGTCACACCTAACGGTGATTTAACCACCGTTTGCCGTTATGATTTCGATAATCAACTTAAATCGACAATGATAGCTCATCCAAAGGTTGATCCAGTTGATAAGAATATGTATGCTTTGAGCTATGACGTAGTTCAAAAGCCTTATTTGAAATACTTTCGTTTTGATGCGTCCGGAGTTAAGTCTCCGGACGTTGAGATTCCATTGGAGCAGCCTACTATGATGCATGACTTCGCGATCACTGAGAATTTCGTTGTTGTGCCTGATCAACAAGTTGTGTTTAAATTGGGTGAGATGATCCGTGGTGGGTCGCCTGTTGTTTACGATAAGGAGAAAGTTTCGAGGTTCGGGGTTTTATCCAAGAATGCGGAAGATTCTTCTGAGATGATTTGGATTGATGCACCAGAGTGTTTCTGTTTTCATCTATGGAATGCGTGGGAGGAGCCTGAAAATGATGAAGTTGTGGTGATTGGATCGTGTATGACACCGGCTGATTCGATATTCAATGAATGTGAAGAGAATTTGGAGAGTGTTTTGTCTGAAATTCGGTTGAATTTGAAGACAGGGAAATCGACTAGAAGACCTATAATCAAAGAATCTGAACAAGTGAATTTGGAAGCTGGAATGGTGAACAAGAACAAATTGGGAAGAAAGACACAATTTGCTTATCTTGCTCTTGCTGAACCATGGCCTAAAGTTTCCGGGTTCGCGAAAGTTGATCTTTTCAGTGGCGAAGTTAAGAAATATATTTACGGTGAAAACAGATTTGGTGGGGAGCCTCTGTTTTTACCGAATTCTGATTCTGAGAACGAAGATGATGGTTATATTTTGACATTTGTTCATGACGAGAAAGAATGGAAATCAGAATTGCAGATTGTGAATGCTGCTACTTTGAAGCTTGAAGCTTCTATTCAGCTTCCTTCTCGTGTTCCTTACGGATTTCATGGAACTTTCATTAATGCAAATGATTTGAAGAAACAAGAGTGA
Protein sequence

>MsG0280009781.01.T01

MGVANAGLVYFNNRLLAMSEDDIPYHIRVTPNGDLTTVCRYDFDNQLKSTMIAHPKVDPVDKNMYALSYDVVQKPYLKYFRFDASGVKSPDVEIPLEQPTMMHDFAITENFVVVPDQQVVFKLGEMIRGGSPVVYDKEKVSRFGVLSKNAEDSSEMIWIDAPECFCFHLWNAWEEPENDEVVVIGSCMTPADSIFNECEENLESVLSEIRLNLKTGKSTRRPIIKESEQVNLEAGMVNKNKLGRKTQFAYLALAEPWPKVSGFAKVDLFSGEVKKYIYGENRFGGEPLFLPNSDSENEDDGYILTFVHDEKEWKSELQIVNAATLKLEASIQLPSRVPYGFHGTFINANDLKKQE*