AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040056

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040056 MtrunA17_Chr7g0265391 49.565 345 63 7 9 281 167 472 6.81e-86 269
MsaG040056 MtrunA17_Chr3g0112391 28.531 354 123 12 18 281 160 473 2.40e-23 99.8
MsaG040056 MtrunA17_Chr3g0125471 34.810 158 69 2 156 281 333 488 1.25e-17 83.2
MsaG040056 MtrunA17_Chr5g0403051 31.677 161 77 2 152 281 298 456 3.02e-17 82.0
MsaG040056 MtrunA17_Chr1g0148501 36.170 141 58 1 173 281 417 557 1.27e-16 80.1
MsaG040056 MtrunA17_Chr1g0148491 34.615 156 67 2 173 295 324 477 1.48e-16 79.7
MsaG040056 MtrunA17_Chr1g0148511 31.429 175 87 1 140 281 377 551 2.52e-16 79.3
MsaG040056 MtrunA17_Chr3g0125461 34.752 141 60 1 173 281 431 571 2.79e-16 79.0
MsaG040056 MtrunA17_Chr1g0148461 34.752 141 60 1 173 281 424 564 3.00e-16 79.0
MsaG040056 MtrunA17_Chr2g0279661 33.544 158 71 2 156 281 403 558 3.49e-16 79.0
MsaG040056 MtrunA17_Chr3g0125491 35.333 150 62 2 164 281 38 184 5.03e-16 77.4
MsaG040056 MtrunA17_Chr3g0125431 33.544 158 71 2 156 281 398 553 1.38e-15 77.0
MsaG040056 MtrunA17_Chr1g0158291 35.211 142 59 3 173 281 40 181 1.68e-15 76.3
MsaG040056 MtrunA17_Chr3g0125451 28.788 198 92 4 128 281 356 548 7.74e-15 74.7
MsaG040056 MtrunA17_Chr8g0374031 32.099 162 76 3 151 281 304 462 8.49e-15 74.7
MsaG040056 MtrunA17_Chr1g0209361 36.364 143 54 3 173 281 330 469 9.88e-15 74.3
MsaG040056 MtrunA17_Chr2g0333181 29.870 154 75 2 161 281 15 168 5.97e-14 71.2
MsaG040056 MtrunA17_Chr7g0245221 32.394 142 62 2 174 281 609 750 2.88e-13 70.1
MsaG040056 MtrunA17_Chr1g0209381 34.965 143 56 3 173 281 315 454 7.53e-13 68.9
MsaG040056 MtrunA17_Chr3g0113601 29.050 179 85 4 145 281 433 611 4.42e-12 66.6
MsaG040056 MtrunA17_Chr5g0434141 31.928 166 73 5 156 281 558 723 7.69e-12 65.9
MsaG040056 MtrunA17_Chr8g0340091 29.078 141 68 1 173 281 519 659 6.62e-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
MsaG040056 AT5G02070.1 36.196 163 67 3 154 281 332 492 4.86e-21 93.6
MsaG040056 AT3G53840.1 27.742 310 119 10 68 281 186 486 9.50e-21 92.8
MsaG040056 AT1G21250.1 36.170 141 58 1 173 281 396 536 7.93e-16 78.2
MsaG040056 AT1G16110.1 34.722 144 58 3 173 281 419 561 7.26e-15 75.1
MsaG040056 AT1G16150.1 33.333 141 62 1 173 281 411 551 1.03e-14 74.7
MsaG040056 AT1G23540.2 34.043 141 62 3 172 281 357 497 8.71e-14 72.0
MsaG040056 AT4G32710.1 32.867 143 65 2 170 281 373 515 9.88e-14 72.0
MsaG040056 AT1G23540.1 34.043 141 62 3 172 281 357 497 1.15e-13 71.6
MsaG040056 AT4G11480.4 31.515 165 80 4 150 281 284 448 2.20e-13 70.9
MsaG040056 AT4G11470.2 34.286 140 60 3 174 281 332 471 2.23e-13 70.9
MsaG040056 AT4G11470.1 34.286 140 60 3 174 281 327 466 2.29e-13 70.9
MsaG040056 AT4G11480.2 35.000 140 59 3 174 281 312 451 2.33e-13 70.5
MsaG040056 AT4G11480.3 35.000 140 59 3 174 281 312 451 2.77e-13 70.5
MsaG040056 AT4G28670.1 32.857 140 60 3 174 281 319 456 3.76e-13 70.1
MsaG040056 AT1G68690.1 33.113 151 71 2 161 281 352 502 4.93e-13 69.7
MsaG040056 AT1G68690.3 33.113 151 71 2 161 281 352 502 4.93e-13 69.7
MsaG040056 AT1G68690.2 33.113 151 71 2 161 281 352 502 4.93e-13 69.7
MsaG040056 AT1G68690.4 33.113 151 71 2 161 281 352 502 4.98e-13 69.7
MsaG040056 AT3G53590.1 25.568 176 96 3 141 281 572 747 1.04e-12 68.9
MsaG040056 AT5G37450.4 32.374 139 63 2 174 281 416 554 1.24e-12 68.6
MsaG040056 AT5G37450.3 32.374 139 63 2 174 281 619 757 1.91e-12 68.2
MsaG040056 AT5G37450.2 32.374 139 63 2 174 281 643 781 2.01e-12 68.2
MsaG040056 AT5G37450.1 32.374 139 63 2 174 281 595 733 2.09e-12 68.2
MsaG040056 AT4G11480.1 30.058 173 80 4 150 281 284 456 2.26e-12 67.8
MsaG040056 AT3G15890.1 30.065 153 74 2 162 281 15 167 9.77e-12 65.1
MsaG040056 AT1G61360.1 28.369 141 69 2 173 281 485 625 8.04e-11 63.2
MsaG040056 AT1G52540.1 28.743 167 75 3 148 281 13 168 9.41e-11 62.4
MsaG040056 AT1G61360.2 28.369 141 69 2 173 281 404 544 9.51e-11 62.8
MsaG040056 AT1G61360.3 28.369 141 69 2 173 281 404 544 9.51e-11 62.8
MsaG040056 AT1G61360.4 28.369 141 69 2 173 281 404 544 9.51e-11 62.8

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCGTTGCACATTTGTTTC+TGG 0.072792 7:+96184730 MsaT040056.1:CDS
CCGGCAGTTGCAGTCGTATT+TGG 0.135825 7:-96186310 None:intergenic
CTCTTTGGCTTTCTTCTCAT+TGG 0.209628 7:+96185654 MsaT040056.1:CDS
GTCAGTTGAAACATCGTATA+AGG 0.289996 7:-96185770 None:intergenic
GTGATTCTGTTGGGACTCTT+TGG 0.294658 7:+96185639 MsaT040056.1:intron
GAGACTCGATGTTCCCCTTT+TGG 0.302018 7:+96185585 MsaT040056.1:CDS
TCTTAGGAAGTGGTTGCTTT+GGG 0.308970 7:+96185834 MsaT040056.1:CDS
GTCCTTATACATCCTTCATT+TGG 0.312776 7:+96185466 MsaT040056.1:CDS
TTGGGGTCATATCAATCATT+GGG 0.319746 7:+96185443 MsaT040056.1:CDS
ATCTTAGGAAGTGGTTGCTT+TGG 0.331108 7:+96185833 MsaT040056.1:CDS
AGGCCTCCTTCCCCTTGATT+AGG 0.333132 7:-96185503 None:intergenic
TTCATGTTTCCATGGATTCC+CGG 0.336174 7:+96185396 MsaT040056.1:CDS
CGGCAGTTGCAGTCGTATTT+GGG 0.336326 7:-96186309 None:intergenic
CTTGATTAGGAGGTTTGTCT+TGG 0.339137 7:-96185490 None:intergenic
GGCTTTCTTCTCATTGGTCC+TGG 0.340759 7:+96185660 MsaT040056.1:CDS
CATTTCGGTTAGGAAGGTTC+CGG 0.376652 7:-96185415 None:intergenic
CTTGGGGTCATATCAATCAT+TGG 0.382899 7:+96185442 MsaT040056.1:CDS
ATGATGACTTAACATCTCTA+TGG 0.395400 7:-96186163 None:intergenic
CCTAACCGAAATGATTCCTT+GGG 0.396408 7:+96185425 MsaT040056.1:CDS
TTGGCTCTTTCATGTTTCCA+TGG 0.399393 7:+96185388 MsaT040056.1:CDS
ATTTCGGTTAGGAAGGTTCC+GGG 0.406196 7:-96185414 None:intergenic
TTAACATCTCTATGGTAGAT+AGG 0.409807 7:-96186155 None:intergenic
GACCTGCTTAGAACGTTTGA+AGG 0.410346 7:-96185702 None:intergenic
TCCTAACCGAAATGATTCCT+TGG 0.416883 7:+96185424 MsaT040056.1:CDS
GGCCAAATGAAGGATGTATA+AGG 0.421343 7:-96185468 None:intergenic
AAGATTCACCTTTACAATTC+CGG 0.428868 7:+96184772 MsaT040056.1:CDS
AAGGAGGCCTACAGATTAGA+TGG 0.436707 7:+96185516 MsaT040056.1:CDS
GCTTCTGAATGCTTTGCAAC+CGG 0.438254 7:-96184791 None:intergenic
TTTGTAATAGTGATTCTGTT+GGG 0.443696 7:+96185630 MsaT040056.1:intron
ATGACCCCAAGGAATCATTT+CGG 0.448325 7:-96185430 None:intergenic
TTGATTAGGAGGTTTGTCTT+GGG 0.449448 7:-96185489 None:intergenic
AAACCTCATTATGCACTAGT+TGG 0.453543 7:-96185934 None:intergenic
CCTCCTTCCCCTTGATTAGG+AGG 0.457119 7:-96185500 None:intergenic
ACCTGTATGCAGGACACAAT+GGG 0.464185 7:+96185553 MsaT040056.1:CDS
TTCATGATAGGTATCCCAAT+TGG 0.469521 7:+96186064 MsaT040056.1:intron
TCCCATTGTGTCCTGCATAC+AGG 0.475267 7:-96185554 None:intergenic
TTGTGTCCTGCATACAGGTT+CGG 0.477664 7:-96185549 None:intergenic
TTTACATACAACTGAAGCAT+TGG 0.483626 7:+96186106 MsaT040056.1:CDS
GTTTGTCTTGGGCCAAATGA+AGG 0.485193 7:-96185478 None:intergenic
CGTTGCACATTTGTTTCTGG+TGG 0.490783 7:+96184733 MsaT040056.1:CDS
GCAATCACAAGAACCTAGTC+AGG 0.491400 7:+96185972 MsaT040056.1:CDS
CAAGACAAACCTCCTAATCA+AGG 0.492062 7:+96185491 MsaT040056.1:CDS
CTTTGCAACCGGAATTGTAA+AGG 0.495267 7:-96184780 None:intergenic
GTGCATCGTCTCTACCAAAA+GGG 0.499018 7:-96185599 None:intergenic
CCCAAGGAATCATTTCGGTT+AGG 0.509190 7:-96185425 None:intergenic
TTCCATCCGAACCTGTATGC+AGG 0.513311 7:+96185543 MsaT040056.1:CDS
CTTTGTAATAGTGATTCTGT+TGG 0.515279 7:+96185629 MsaT040056.1:intron
AGGTATCCCAATTGGAAAAG+AGG 0.517551 7:+96186072 MsaT040056.1:intron
TCAGGGAACACTGTGGTAGC+TGG 0.521989 7:+96186284 MsaT040056.1:intron
GTCCTTCAAACGTTCTAAGC+AGG 0.528647 7:+96185700 MsaT040056.1:CDS
CACAACAGCATCTTAGGAAG+TGG 0.538457 7:+96185824 MsaT040056.1:CDS
AGGAATCATTTCGGTTAGGA+AGG 0.542384 7:-96185421 None:intergenic
AGGTGAATCTTGTAAGCTGA+AGG 0.555983 7:-96184760 None:intergenic
AGGAAGGTTCCGGGAATCCA+TGG 0.558955 7:-96185405 None:intergenic
AACCTCATTATGCACTAGTT+GGG 0.559284 7:-96185933 None:intergenic
CCAAATACGACTGCAACTGC+CGG 0.562699 7:+96186310 MsaT040056.1:CDS
CCTCCTAATCAAGGGGAAGG+AGG 0.571085 7:+96185500 MsaT040056.1:CDS
CTTAGGAAGTGGTTGCTTTG+GGG 0.590416 7:+96185835 MsaT040056.1:CDS
GCAGAAATCAAGCGCTGGAG+AGG 0.590846 7:+96185742 MsaT040056.1:CDS
GTCCTGCATACAGGTTCGGA+TGG 0.599275 7:-96185545 None:intergenic
AAGACAAACCTCCTAATCAA+GGG 0.599438 7:+96185492 MsaT040056.1:CDS
GTCATTGGAATGCTAGTCAA+AGG 0.599569 7:+96184676 None:intergenic
GAAGAGACCATCTAATCTGT+AGG 0.600659 7:-96185523 None:intergenic
AAACCTCCTAATCAAGGGGA+AGG 0.606973 7:+96185497 MsaT040056.1:CDS
CACCCAACTAGTGCATAATG+AGG 0.609291 7:+96185931 MsaT040056.1:CDS
CAGCGATGATGACAAAGACC+AGG 0.610654 7:-96185678 None:intergenic
GCTGTCAAGAAAGCGAGAGT+TGG 0.613643 7:+96185896 MsaT040056.1:CDS
AACCTGTATGCAGGACACAA+TGG 0.614206 7:+96185552 MsaT040056.1:CDS
AGCTTATCAGAATGTGCAAG+TGG 0.617147 7:+96184700 MsaT040056.1:CDS
CAGAAACAAATGTGCAACGA+GGG 0.621445 7:-96184729 None:intergenic
CAAACGTTCTAAGCAGGTCA+AGG 0.624413 7:+96185706 MsaT040056.1:CDS
ATTGTGCAGAAATCAAGCGC+TGG 0.624625 7:+96185737 MsaT040056.1:CDS
ATTCTACATAAAGCCTGACT+AGG 0.632184 7:-96185985 None:intergenic
TGGAAACATGAAAGAGCCAA+AGG 0.632283 7:-96185385 None:intergenic
TGGGGTCATATCAATCATTG+GGG 0.642273 7:+96185444 MsaT040056.1:CDS
TGCATCGTCTCTACCAAAAG+GGG 0.646621 7:-96185598 None:intergenic
AGACAAACCTCCTAATCAAG+GGG 0.659605 7:+96185493 MsaT040056.1:CDS
CAATGATTGATATGACCCCA+AGG 0.663522 7:-96185441 None:intergenic
CCAGAAACAAATGTGCAACG+AGG 0.692197 7:-96184730 None:intergenic
CTAACCGAAATGATTCCTTG+GGG 0.704554 7:+96185426 MsaT040056.1:CDS
CCTGTGCTCAGGGAACACTG+TGG 0.809688 7:+96186277 MsaT040056.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 96184685 96186336 96184685 ID=MsaG040056
Chr7 mRNA 96184685 96186336 96184685 ID=MsaT040056.1;Parent=MsaG040056
Chr7 exon 96184685 96184818 96184685 ID=MsaT040056.1.exon1;Parent=MsaT040056.1
Chr7 CDS 96184685 96184818 96184685 ID=cds.MsaT040056.1;Parent=MsaT040056.1
Chr7 exon 96185364 96185606 96185364 ID=MsaT040056.1.exon2;Parent=MsaT040056.1
Chr7 CDS 96185364 96185606 96185364 ID=cds.MsaT040056.1;Parent=MsaT040056.1
Chr7 exon 96185640 96186000 96185640 ID=MsaT040056.1.exon3;Parent=MsaT040056.1
Chr7 CDS 96185640 96186000 96185640 ID=cds.MsaT040056.1;Parent=MsaT040056.1
Chr7 exon 96186074 96186177 96186074 ID=MsaT040056.1.exon4;Parent=MsaT040056.1
Chr7 CDS 96186074 96186177 96186074 ID=cds.MsaT040056.1;Parent=MsaT040056.1
Chr7 exon 96186288 96186336 96186288 ID=MsaT040056.1.exon5;Parent=MsaT040056.1
Chr7 CDS 96186288 96186336 96186288 ID=cds.MsaT040056.1;Parent=MsaT040056.1
Gene Sequence

>MsaT040056.1

ATGCTAGTCAAAGGAAGCTTATCAGAATGTGCAAGTGGTCTTCACCCTCGTTGCACATTTGTTTCTGGTGGCATGCCTTCAGCTTACAAGATTCACCTTTACAATTCCGGTTGCAAAGCATTCAGAAGCACCCTCGTTGAGTTAGTTATTTTGATCCTTTGGCTCTTTCATGTTTCCATGGATTCCCGGAACCTTCCTAACCGAAATGATTCCTTGGGGTCATATCAATCATTGGGGTCCTTATACATCCTTCATTTGGCCCAAGACAAACCTCCTAATCAAGGGGAAGGAGGCCTACAGATTAGATGGTCTCTTCCATCCGAACCTGTATGCAGGACACAATGGGATTGCTCTAGAGACTCGATGTTCCCCTTTTGTGATTCTGTTGGGACTCTTTGGCTTTCTTCTCATTGGTCCTGGTCTTTGTCATCATCGCTGTCCTTCAAACGTTCTAAGCAGGTCAAGGAAAGAGAAATTGTGCAGAAATCAAGCGCTGGAGAGGAGAAACCTTATACGATGTTTCAACTGACAGAGTTGAACAAAGTAACAAACTGTTTTTCACACAACAGCATCTTAGGAAGTGGTTGCTTTGGGGAAGTTTACTATGATGAACTAGAAGATGAAACACATGTAGCTGTCAAGAAAGCGAGAGTTGGTAAACTTAAAAGCACCCAACTAGTGCATAATGAGGTTTCAGTTCTTTCACGATGCAATCACAAGAACCTAGTCAGGCTTTATGTATCCCAATTGGAAAAGAGGCTTAAGATTGCTTTACATACAACTGAAGCATTGGCTTACTTGAATTCTTCTTCACACATTCCTATCTACCATAGAGATGTTAAGGAACACTGTGGTAGCTGGATCCCAAATACGACTGCAACTGCCGGTTAA
Protein sequence

>MsaT040056.1

MLVKGSLSECASGLHPRCTFVSGGMPSAYKIHLYNSGCKAFRSTLVELVILILWLFHVSMDSRNLPNRNDSLGSYQSLGSLYILHLAQDKPPNQGEGGLQIRWSLPSEPVCRTQWDCSRDSMFPFCDSVGTLWLSSHWSWSLSSSLSFKRSKQVKEREIVQKSSAGEEKPYTMFQLTELNKVTNCFSHNSILGSGCFGEVYYDELEDETHVAVKKARVGKLKSTQLVHNEVSVLSRCNHKNLVRLYVSQLEKRLKIALHTTEALAYLNSSSHIPIYHRDVKEHCGSWIPNTTATAG*