AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012917.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012917.01.T01 MTR_3g034640 77.104 297 42 1 30 300 169 465 4.01e-152 435
MsG0380012917.01.T01 MTR_3g034640 80.822 292 56 0 10 301 45 336 5.44e-141 407
MsG0380012917.01.T01 MTR_3g034640 61.290 279 82 1 22 274 213 491 2.61e-105 316
MsG0380012917.01.T01 MTR_3g034640 66.228 228 77 0 22 249 265 492 1.06e-94 289
MsG0380012917.01.T01 MTR_3g034610 75.261 287 71 0 15 301 41 327 2.43e-145 415
MsG0380012917.01.T01 MTR_3g034610 75.000 280 70 0 21 300 99 378 1.07e-140 403
MsG0380012917.01.T01 MTR_3g034610 69.928 276 83 0 22 297 126 401 5.69e-129 373
MsG0380012917.01.T01 MTR_3g116430 65.938 320 72 5 10 301 45 355 1.82e-129 375
MsG0380012917.01.T01 MTR_3g116440 58.528 299 117 3 10 301 45 343 8.49e-105 310
MsG0380012917.01.T01 MTR_3g116440 58.065 279 106 2 22 299 89 357 2.41e-100 298
MsG0380012917.01.T01 MTR_3g116440 54.667 300 126 5 10 299 16 315 2.98e-93 281
MsG0380012917.01.T01 MTR_3g116440 47.283 184 88 4 127 301 29 212 8.25e-38 137
MsG0380012917.01.T01 MTR_3g116440 52.846 123 48 1 21 143 245 357 3.07e-31 120
MsG0380012917.01.T01 MTR_3g107810 52.015 273 131 0 29 301 106 378 2.68e-94 287
MsG0380012917.01.T01 MTR_3g107810 50.365 274 136 0 29 302 80 353 6.37e-90 276
MsG0380012917.01.T01 MTR_3g107810 48.718 273 140 0 29 301 132 404 2.34e-86 267
MsG0380012917.01.T01 MTR_3g107810 48.708 271 139 0 29 299 158 428 9.02e-85 263
MsG0380012917.01.T01 MTR_3g107810 47.985 273 142 0 29 301 184 456 3.62e-81 253
MsG0380012917.01.T01 MTR_3g107810 45.263 285 151 2 16 299 196 476 2.67e-75 238
MsG0380012917.01.T01 MTR_4g069810 34.386 285 166 12 22 299 83 353 2.08e-34 129
MsG0380012917.01.T01 MTR_4g069810 35.593 236 141 9 68 300 77 304 2.40e-31 120
MsG0380012917.01.T01 MTR_4g069810 35.220 159 85 9 14 169 235 378 5.05e-13 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 61 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGCCCAACATTTCGGCTTA+TGG 0.203861 3:+26937437 MsG0380012917.01.T01:CDS
TTGCCATAAGCTGAAATATT+TGG 0.225249 3:-26937674 None:intergenic
TTCTCCATAAGCTGAAATAT+TGG 0.263465 3:-26937285 None:intergenic
CGACCCAACATTTCAGCTTA+TGG 0.265141 3:+26937125 MsG0380012917.01.T01:CDS
AGACCCAATATTTCAGCTTA+TGG 0.267378 3:+26937281 MsG0380012917.01.T01:CDS
CGGCCTTGGTTCAAAATCTT+TGG 0.278983 3:-26937732 None:intergenic
AGACCAAATATTTCAGCTTA+TGG 0.280649 3:+26937671 MsG0380012917.01.T01:CDS
AGACCCAACATTTCAGCTTA+TGG 0.288132 3:+26937047 MsG0380012917.01.T01:CDS
AGACCAAACATTTCAGCTTA+TGG 0.288132 3:+26937515 MsG0380012917.01.T01:CDS
TCTCCATATGCTGAAATATT+CGG 0.293638 3:-26937752 None:intergenic
GCACTAACACCAAGGAAAAT+AGG 0.310048 3:+26937000 MsG0380012917.01.T01:CDS
TCTCCATAAGCTGAAATATT+GGG 0.337654 3:-26937284 None:intergenic
TAAACCACGGCCCAACATTT+CGG 0.351056 3:+26937430 MsG0380012917.01.T01:CDS
TCTCCGTAAGCTGAAATATT+AGG 0.367030 3:-26937206 None:intergenic
TCTCCATAAGCTGAAATGTT+TGG 0.381277 3:-26937518 None:intergenic
CTTGGTTCAAAATCTTTGAC+TGG 0.399359 3:-26937572 None:intergenic
AGACAATGACATTGAAGTTA+AGG 0.407426 3:+26937070 MsG0380012917.01.T01:CDS
TCTTGGTTCAAAATCCTTAG+TGG 0.409004 3:-26937495 None:intergenic
TATACTGAAATATTAGGTCT+TGG 0.411757 3:-26936966 None:intergenic
TAAGCTGAAATATTTGGTCT+TGG 0.412506 3:-26937668 None:intergenic
AGGCCGAATATTTCAGCATA+TGG 0.414557 3:+26937749 MsG0380012917.01.T01:CDS
CTCTCTAAACGCCTTCTCTT+GGG 0.415136 3:-26936934 None:intergenic
AGACAATGTCATAGATGTTA+AGG 0.416032 3:+26937148 MsG0380012917.01.T01:CDS
TAAGCTGAAATGTTTGGTCT+TGG 0.428249 3:-26937512 None:intergenic
CCTCTCTAAACGCCTTCTCT+TGG 0.447209 3:-26936935 None:intergenic
TAAGCTGAAATGTTGGGTCT+TGG 0.452926 3:-26937356 None:intergenic
TAAGCTGAAATGTTGGGTCT+TGG 0.452926 3:-26937590 None:intergenic
TAAGCTGAAATATTGGGTCT+TGG 0.456037 3:-26937278 None:intergenic
TAAGCTGAAATATTAGGTCT+TGG 0.457286 3:-26937200 None:intergenic
TAAGCTGAAATGTTGGGTCT+TGG 0.464437 3:-26937044 None:intergenic
GGAAAAGAGCGGAGCCACTA+AGG 0.466210 3:+26937481 MsG0380012917.01.T01:CDS
TCGTGGTTCAAAATCTTTAA+CGG 0.469737 3:-26937105 None:intergenic
AGACCTAATATTTCAGCTTA+CGG 0.471619 3:+26937203 MsG0380012917.01.T01:CDS
TATGCTGAAATATTCGGCCT+TGG 0.481023 3:-26937746 None:intergenic
AGACCCAACATTTCAGCTTA+CGG 0.484733 3:+26937359 MsG0380012917.01.T01:CDS
AGACCCAACATTTCAGCTTA+CGG 0.484733 3:+26937593 MsG0380012917.01.T01:CDS
TCTTGGTTCGAAATCATTAG+TGG 0.489747 3:-26937339 None:intergenic
TGACATTGACACCAAGGAAA+AGG 0.493430 3:+26937700 MsG0380012917.01.T01:CDS
TCTCCATAAGCTGAAATGTT+GGG 0.499953 3:-26937050 None:intergenic
TCTCCATAAGCCGAAATGTT+GGG 0.501285 3:-26937440 None:intergenic
CTCTCCGTAAGCTGAAATGT+TGG 0.503472 3:-26937363 None:intergenic
CATCGATGTTAATGAAAAGA+AGG 0.503693 3:+26937391 MsG0380012917.01.T01:CDS
GTCTCCGTAAGCTGAAATGT+TGG 0.512820 3:-26937597 None:intergenic
TCTCCGTAAGCTGAAATGTT+GGG 0.513710 3:-26937362 None:intergenic
TCTCCATAAGCTGAAATGTT+GGG 0.525189 3:-26937128 None:intergenic
GTCTCCATAAGCTGAAATGT+TGG 0.536347 3:-26937051 None:intergenic
GTCTCCATAAGCTGAAATGT+TGG 0.536347 3:-26937129 None:intergenic
TCTCCGTAAGCTGAAATGTT+GGG 0.536696 3:-26937596 None:intergenic
ATTTCAGTATATGAAAATGA+TGG 0.539974 3:+26936978 MsG0380012917.01.T01:CDS
ATTGAAGTTAAGGAAAAGAA+AGG 0.540680 3:+26937080 MsG0380012917.01.T01:CDS
ATCTCCATAAGCCGAAATGT+TGG 0.558155 3:-26937441 None:intergenic
TAAGCCGAAATGTTGGGCCG+TGG 0.565825 3:-26937434 None:intergenic
TAAGCTGAAATGTTGGGTCG+TGG 0.596199 3:-26937122 None:intergenic
AGATGATGCCATTGATGCTA+AGG 0.596256 3:+26937460 MsG0380012917.01.T01:CDS
CCAAGAGAAGGCGTTTAGAG+AGG 0.601749 3:+26936935 MsG0380012917.01.T01:CDS
TAAGCTCAATACCCAAGAGA+AGG 0.615378 3:+26936923 MsG0380012917.01.T01:CDS
CAACAATGACATTGACACCA+AGG 0.659301 3:+26937694 MsG0380012917.01.T01:CDS
TGAAAAGAAGGCAGCCACTG+AGG 0.664629 3:+26937403 MsG0380012917.01.T01:CDS
CCGTGGTTTAAAATCCTCAG+TGG 0.675588 3:-26937417 None:intergenic
ATTGATGCTAAGGAAAAGAG+CGG 0.694475 3:+26937470 MsG0380012917.01.T01:CDS
AAATGATGGCACTAACACCA+AGG 0.697304 3:+26936992 MsG0380012917.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCATATACTGAAATATT+AGG - Chr3:26936975-26936994 None:intergenic 15.0%
!! ATTTCAGTATATGAAAATGA+TGG + Chr3:26936978-26936997 MsG0380012917.01.T01:CDS 20.0%
! ATTGAAGTTAAGGAAAAGAA+AGG + Chr3:26937080-26937099 MsG0380012917.01.T01:CDS 25.0%
! GTTGATGTTAAGAAAAAGAA+GGG + Chr3:26937236-26937255 MsG0380012917.01.T01:CDS 25.0%
! TATACTGAAATATTAGGTCT+TGG - Chr3:26936969-26936988 None:intergenic 25.0%
AGACAATGACATTGAAGTTA+AGG + Chr3:26937070-26937089 MsG0380012917.01.T01:CDS 30.0%
AGACAATGTCATAGATGTTA+AGG + Chr3:26937148-26937167 MsG0380012917.01.T01:CDS 30.0%
AGACCAAATATTTCAGCTTA+TGG + Chr3:26937671-26937690 MsG0380012917.01.T01:CDS 30.0%
AGACCTAATATTTCAGCTTA+CGG + Chr3:26937203-26937222 MsG0380012917.01.T01:CDS 30.0%
CATCGATGTTAATGAAAAGA+AGG + Chr3:26937391-26937410 MsG0380012917.01.T01:CDS 30.0%
CGTTGATGTTAAGAAAAAGA+AGG + Chr3:26937235-26937254 MsG0380012917.01.T01:CDS 30.0%
TAAGCTGAAATATTAGGTCT+TGG - Chr3:26937203-26937222 None:intergenic 30.0%
TAAGCTGAAATATTTGGTCT+TGG - Chr3:26937671-26937690 None:intergenic 30.0%
TCGTGGTTCAAAATCTTTAA+CGG - Chr3:26937108-26937127 None:intergenic 30.0%
TCTCCATAAGCTGAAATATT+GGG - Chr3:26937287-26937306 None:intergenic 30.0%
TCTCCATATGCTGAAATATT+CGG - Chr3:26937755-26937774 None:intergenic 30.0%
TTCTCCATAAGCTGAAATAT+TGG - Chr3:26937288-26937307 None:intergenic 30.0%
TTGCCATAAGCTGAAATATT+TGG - Chr3:26937677-26937696 None:intergenic 30.0%
!! ATTGAGCTTACTTTTAGTGT+TGG - Chr3:26936913-26936932 None:intergenic 30.0%
AGACCAAACATTTCAGCTTA+TGG + Chr3:26937515-26937534 MsG0380012917.01.T01:CDS 35.0%
AGACCCAATATTTCAGCTTA+TGG + Chr3:26937281-26937300 MsG0380012917.01.T01:CDS 35.0%
ATTGATGCTAAGGAAAAGAG+CGG + Chr3:26937470-26937489 MsG0380012917.01.T01:CDS 35.0%
CTTGGTTCAAAATCTTTGAC+TGG - Chr3:26937029-26937048 None:intergenic 35.0%
TAAGCTGAAATATTGGGTCT+TGG - Chr3:26937281-26937300 None:intergenic 35.0%
TAAGCTGAAATGTTTGGTCT+TGG - Chr3:26937515-26937534 None:intergenic 35.0%
TCTCCATAAGCTGAAATGTT+GGG - Chr3:26937053-26937072 None:intergenic 35.0%
TCTCCATAAGCTGAAATGTT+TGG - Chr3:26937053-26937072 None:intergenic 35.0%
TCTCCGTAAGCTGAAATATT+AGG - Chr3:26937209-26937228 None:intergenic 35.0%
TCTTGGTTCAAAATCCTTAG+TGG - Chr3:26937498-26937517 None:intergenic 35.0%
! GACATCTTTCCTATTTTCCT+TGG - Chr3:26937012-26937031 None:intergenic 35.0%
! TCTTGGTTCGAAATCATTAG+TGG - Chr3:26937342-26937361 None:intergenic 35.0%
AAATGATGGCACTAACACCA+AGG + Chr3:26936992-26937011 MsG0380012917.01.T01:CDS 40.0%
AGACCCAACATTTCAGCTTA+CGG + Chr3:26937047-26937066 MsG0380012917.01.T01:CDS 40.0%
AGACCCAACATTTCAGCTTA+TGG + Chr3:26937047-26937066 MsG0380012917.01.T01:CDS 40.0%
AGATGATGCCATTGATGCTA+AGG + Chr3:26937460-26937479 MsG0380012917.01.T01:CDS 40.0%
AGGCCGAATATTTCAGCATA+TGG + Chr3:26937749-26937768 MsG0380012917.01.T01:CDS 40.0%
ATCTCCATAAGCCGAAATGT+TGG - Chr3:26937444-26937463 None:intergenic 40.0%
CAACAATGACATTGACACCA+AGG + Chr3:26937694-26937713 MsG0380012917.01.T01:CDS 40.0%
GCACTAACACCAAGGAAAAT+AGG + Chr3:26937000-26937019 MsG0380012917.01.T01:CDS 40.0%
GTCTCCATAAGCTGAAATGT+TGG - Chr3:26937054-26937073 None:intergenic 40.0%
TAAGCTCAATACCCAAGAGA+AGG + Chr3:26936923-26936942 MsG0380012917.01.T01:CDS 40.0%
TAAGCTGAAATGTTGGGTCT+TGG - Chr3:26937047-26937066 None:intergenic 40.0%
TATGCTGAAATATTCGGCCT+TGG - Chr3:26937749-26937768 None:intergenic 40.0%
TCTCCATAAGCCGAAATGTT+GGG - Chr3:26937443-26937462 None:intergenic 40.0%
TCTCCGTAAGCTGAAATGTT+GGG - Chr3:26937365-26937384 None:intergenic 40.0%
TGACATTGACACCAAGGAAA+AGG + Chr3:26937700-26937719 MsG0380012917.01.T01:CDS 40.0%
! CCACTGAGGATTTTAAACCA+CGG + Chr3:26937417-26937436 MsG0380012917.01.T01:CDS 40.0%
! CTGCCAAAGATTTTGAACCA+AGG + Chr3:26937729-26937748 MsG0380012917.01.T01:CDS 40.0%
! GCTCTTTTCCTTAGCATCAA+TGG - Chr3:26937471-26937490 None:intergenic 40.0%
CGACCCAACATTTCAGCTTA+TGG + Chr3:26937125-26937144 MsG0380012917.01.T01:CDS 45.0%
CGGCCTTGGTTCAAAATCTT+TGG - Chr3:26937735-26937754 None:intergenic 45.0%
CTCTCCGTAAGCTGAAATGT+TGG - Chr3:26937366-26937385 None:intergenic 45.0%
CTCTCTAAACGCCTTCTCTT+GGG - Chr3:26936937-26936956 None:intergenic 45.0%
GTCTCCGTAAGCTGAAATGT+TGG - Chr3:26937600-26937619 None:intergenic 45.0%
TAAACCACGGCCCAACATTT+CGG + Chr3:26937430-26937449 MsG0380012917.01.T01:CDS 45.0%
TAAGCTGAAATGTTGGGTCG+TGG - Chr3:26937125-26937144 None:intergenic 45.0%
! CCGTGGTTTAAAATCCTCAG+TGG - Chr3:26937420-26937439 None:intergenic 45.0%
CCTCTCTAAACGCCTTCTCT+TGG - Chr3:26936938-26936957 None:intergenic 50.0%
TGAAAAGAAGGCAGCCACTG+AGG + Chr3:26937403-26937422 MsG0380012917.01.T01:CDS 50.0%
! GGCAGCTTTCTCCTTTTCCT+TGG - Chr3:26937714-26937733 None:intergenic 50.0%
!! CCAAGAGAAGGCGTTTAGAG+AGG + Chr3:26936935-26936954 MsG0380012917.01.T01:CDS 50.0%
CGGCCCAACATTTCGGCTTA+TGG + Chr3:26937437-26937456 MsG0380012917.01.T01:CDS 55.0%
GGAAAAGAGCGGAGCCACTA+AGG + Chr3:26937481-26937500 MsG0380012917.01.T01:CDS 55.0%
TAAGCCGAAATGTTGGGCCG+TGG - Chr3:26937437-26937456 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 26936873 26937781 26936873 ID=MsG0380012917.01;Name=MsG0380012917.01
Chr3 mRNA 26936873 26937781 26936873 ID=MsG0380012917.01.T01;Parent=MsG0380012917.01;Name=MsG0380012917.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|302
Chr3 exon 26936873 26937781 26936873 ID=MsG0380012917.01.T01:exon:22550;Parent=MsG0380012917.01.T01
Chr3 CDS 26936873 26937781 26936873 ID=MsG0380012917.01.T01:cds;Parent=MsG0380012917.01.T01
Gene Sequence

>MsG0380012917.01.T01

TTGGAAACTAGTCATGAAAGAGCAAGACTCGTTATCGCCAACACTAAAAGTAAGCTCAATACCCAAGAGAAGGCGTTTAGAGAGGATCTTGAACCAAGACCTAATATTTCAGTATATGAAAATGATGGCACTAACACCAAGGAAAATAGGAAAGATGTCAAAGATTTTGAACCAAGACCCAACATTTCAGCTTATGGAGACAATGACATTGAAGTTAAGGAAAAGAAAGGTGCCGTTAAAGATTTTGAACCACGACCCAACATTTCAGCTTATGGAGACAATGTCATAGATGTTAAGGAAAAGAAGAAAGTCGTCAAAGATTTCGAACCAAGACCTAATATTTCAGCTTACGGAGACAATGTCGTTGATGTTAAGAAAAAGAAGGGAGTCACTGAAGATTTTGAACCAAGACCCAATATTTCAGCTTATGGAGAAAATGACAATGATGTCAAAGAAAAGAAGCAAACCACTAATGATTTCGAACCAAGACCCAACATTTCAGCTTACGGAGAGAATGACATCGATGTTAATGAAAAGAAGGCAGCCACTGAGGATTTTAAACCACGGCCCAACATTTCGGCTTATGGAGATGATGCCATTGATGCTAAGGAAAAGAGCGGAGCCACTAAGGATTTTGAACCAAGACCAAACATTTCAGCTTATGGAGAAAATGTCATTAATGATGATGAAACAAAGAAACCAGTCAAAGATTTTGAACCAAGACCCAACATTTCAGCTTACGGAGACAATGACATTGATGACAGAAAAAACAATAATGTCATTTCAGATTTTGAACCAAGACCAAATATTTCAGCTTATGGCAACAATGACATTGACACCAAGGAAAAGGAGAAAGCTGCCAAAGATTTTGAACCAAGGCCGAATATTTCAGCATATGGAGAAAAATGA

Protein sequence

>MsG0380012917.01.T01

LETSHERARLVIANTKSKLNTQEKAFREDLEPRPNISVYENDGTNTKENRKDVKDFEPRPNISAYGDNDIEVKEKKGAVKDFEPRPNISAYGDNVIDVKEKKKVVKDFEPRPNISAYGDNVVDVKKKKGVTEDFEPRPNISAYGENDNDVKEKKQTTNDFEPRPNISAYGENDIDVNEKKAATEDFKPRPNISAYGDDAIDAKEKSGATKDFEPRPNISAYGENVINDDETKKPVKDFEPRPNISAYGDNDIDDRKNNNVISDFEPRPNISAYGNNDIDTKEKEKAAKDFEPRPNISAYGEK*