AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023887

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023887.t1 MTR_7g077620 94.237 295 17 0 1 295 76 370 0.0 567
MS.gene023887.t1 MTR_7g077660 71.959 296 75 6 5 297 78 368 3.77e-141 402
MS.gene023887.t1 MTR_7g077650 67.550 302 85 6 3 297 77 372 4.83e-132 379
MS.gene023887.t1 MTR_7g076110 56.419 296 118 5 10 297 21 313 9.56e-104 305
MS.gene023887.t1 MTR_7g076100 65.823 237 79 2 62 297 65 300 3.15e-102 301
MS.gene023887.t1 MTR_5g038260 41.231 325 150 14 2 297 71 383 1.27e-60 197
MS.gene023887.t1 MTR_1g108740 43.234 303 133 15 4 295 70 344 1.99e-55 183
MS.gene023887.t1 MTR_5g038230 39.688 320 132 13 2 295 69 353 1.30e-54 181
MS.gene023887.t1 MTR_1g064570 38.261 345 151 16 2 297 69 400 9.88e-52 175
MS.gene023887.t1 MTR_5g082770 43.568 241 106 7 3 230 65 288 1.37e-47 161
MS.gene023887.t1 MTR_7g076130 60.484 124 48 1 93 215 25 148 5.35e-43 145
MS.gene023887.t1 MTR_5g082780 42.795 229 95 10 39 252 1 208 1.47e-39 138
MS.gene023887.t1 MTR_1g016150 43.103 116 59 5 3 113 78 191 2.26e-17 79.7
MS.gene023887.t1 MTR_3g114970 26.246 301 164 13 2 272 59 331 7.39e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 54 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGATCAATCCCATTGAAAT+TGG 0.173055 7.1:+26107901 None:intergenic
TTTCCAGAAGAATATTATTA+TGG 0.194741 7.1:-26108290 MS.gene023887:CDS
TATTCTTCTGGAAAATTATA+TGG 0.217616 7.1:+26108299 None:intergenic
TTCTCAAGGTAAGTAAAATT+AGG 0.221508 7.1:+26108335 None:intergenic
TCAAGAGGATGTTACATCTT+TGG 0.236048 7.1:-26107932 MS.gene023887:CDS
GTTGCAGCGATTTACAATTT+TGG 0.255211 7.1:-26108527 MS.gene023887:CDS
TTCCCATAATAATATTCTTC+TGG 0.264764 7.1:+26108287 None:intergenic
AACATCCTCTTGAAGGAAAT+TGG 0.274037 7.1:+26107942 None:intergenic
ATTAAAAGTAAAACATGTTT+AGG 0.274585 7.1:-26108710 MS.gene023887:CDS
CAAGAGGATGTTACATCTTT+GGG 0.279656 7.1:-26107931 MS.gene023887:CDS
GGAGCTATACTGCTCTTAAA+AGG 0.328493 7.1:+26108629 None:intergenic
TAATCACTTGGGCTTGTAAT+GGG 0.338599 7.1:+26108554 None:intergenic
TTCCAGAAGAATATTATTAT+GGG 0.343297 7.1:-26108289 MS.gene023887:CDS
GAAGGATGGGATAAATGAAT+AGG 0.361300 7.1:+26108737 None:intergenic
TCTCAAGGTAAGTAAAATTA+GGG 0.370039 7.1:+26108336 None:intergenic
TTCGAGATGTGGCAGACTAA+TGG 0.372397 7.1:+26108607 None:intergenic
AGATCAATCCCATTGAAATT+GGG 0.389469 7.1:+26107902 None:intergenic
GGGTTCTACCCCAATTTCAA+TGG 0.404683 7.1:-26107911 MS.gene023887:CDS
AAAAGGATTCACTAGAGTTA+TGG 0.411464 7.1:+26108646 None:intergenic
AGGAGGATTGTTGAATTTGA+AGG 0.425039 7.1:+26108376 None:intergenic
TCGAGATGTGGCAGACTAAT+GGG 0.436341 7.1:+26108608 None:intergenic
AAGATGTAACATCCTCTTGA+AGG 0.440096 7.1:+26107935 None:intergenic
CCATGGTTGGCTTGCACTAG+TGG 0.460763 7.1:-26108681 MS.gene023887:CDS
AAGGATGGGATAAATGAATA+GGG 0.470406 7.1:+26108738 None:intergenic
ATAATCACTTGGGCTTGTAA+TGG 0.476686 7.1:+26108553 None:intergenic
TTATGAAGGCTTGGTATTTG+CGG 0.479972 7.1:-26108423 MS.gene023887:CDS
TTGTTTCTCAAAGTTTGAAA+AGG 0.480128 7.1:-26108057 MS.gene023887:CDS
AATCATTGACCGGAGACATA+TGG 0.484616 7.1:-26108250 MS.gene023887:CDS
GGTTCTACCCCAATTTCAAT+GGG 0.486591 7.1:-26107910 MS.gene023887:CDS
GTTTAGGTTGTAGCCATGGT+TGG 0.497773 7.1:-26108694 MS.gene023887:CDS
TACAAGCCCAAGTGATTATG+TGG 0.499442 7.1:-26108549 MS.gene023887:CDS
ATAGGGTACTCTTTCTCACT+TGG 0.511489 7.1:+26108755 None:intergenic
CTTTACCAATTTCCTTCAAG+AGG 0.512890 7.1:-26107947 MS.gene023887:CDS
GGGTCAACTGAGTCATCATA+AGG 0.515509 7.1:+26108356 None:intergenic
CAAATCTATAATGCGAAGGA+TGG 0.523156 7.1:-26107987 MS.gene023887:CDS
TTTCACCATCCATATGTCTC+CGG 0.527974 7.1:+26108241 None:intergenic
GCTGCAACCACATAATCACT+TGG 0.549128 7.1:+26108542 None:intergenic
ACATGTTTAGGTTGTAGCCA+TGG 0.559363 7.1:-26108698 MS.gene023887:CDS
GATCAATCCCATTGAAATTG+GGG 0.566979 7.1:+26107903 None:intergenic
TGTAATGGGGTCAGCAGACA+AGG 0.568289 7.1:+26108568 None:intergenic
AGTTTGTATGTAAGATTGTG+TGG 0.574270 7.1:+26108203 None:intergenic
TTCAAACTTTGAGAAACAAG+CGG 0.575958 7.1:+26108061 None:intergenic
TTGTTGAGAGATTCGAGATG+TGG 0.590451 7.1:+26108596 None:intergenic
TAGGGTACTCTTTCTCACTT+GGG 0.591906 7.1:+26108756 None:intergenic
GAGTACTAGCTATCTTCTCA+AGG 0.600472 7.1:+26108321 None:intergenic
AATCACTTGGGCTTGTAATG+GGG 0.606028 7.1:+26108555 None:intergenic
GTTACAAATCTATAATGCGA+AGG 0.615721 7.1:-26107991 MS.gene023887:CDS
CCACTAGTGCAAGCCAACCA+TGG 0.620481 7.1:+26108681 None:intergenic
CTGCAACCACATAATCACTT+GGG 0.636696 7.1:+26108543 None:intergenic
GTTTGTATGTAAGATTGTGT+GGG 0.646089 7.1:+26108204 None:intergenic
TCAACTGAGTCATCATAAGG+AGG 0.676917 7.1:+26108359 None:intergenic
ACATCTCGAATCTCTCAACA+AGG 0.689831 7.1:-26108594 MS.gene023887:CDS
ATTGACCGGAGACATATGGA+TGG 0.696827 7.1:-26108246 MS.gene023887:CDS
TTGGAAATGGACGCCCAGAG+CGG 0.711159 7.1:-26108167 MS.gene023887:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCAATTTATTTTATTTATGA+TGG - chr7.1:26108649-26108668 MS.gene023887:CDS 10.0%
!! ATTAAAAGTAAAACATGTTT+AGG - chr7.1:26107971-26107990 MS.gene023887:CDS 15.0%
!! TTCCAGAAGAATATTATTAT+GGG - chr7.1:26108392-26108411 MS.gene023887:CDS 20.0%
!! TTTCCAGAAGAATATTATTA+TGG - chr7.1:26108391-26108410 MS.gene023887:CDS 20.0%
!!! AACATTTTATTTGTAGGAAT+CGG - chr7.1:26108577-26108596 MS.gene023887:CDS 20.0%
!!! ACATGTTTTACTTTTAATGA+TGG + chr7.1:26107969-26107988 None:intergenic 20.0%
!!! ACTAATGTTGTATTTTATGA+AGG - chr7.1:26108244-26108263 MS.gene023887:CDS 20.0%
!!! TATTCTTCTGGAAAATTATA+TGG + chr7.1:26108385-26108404 None:intergenic 20.0%
! TCTCAAGGTAAGTAAAATTA+GGG + chr7.1:26108348-26108367 None:intergenic 25.0%
! TTCCCATAATAATATTCTTC+TGG + chr7.1:26108397-26108416 None:intergenic 25.0%
! TTCTCAAGGTAAGTAAAATT+AGG + chr7.1:26108349-26108368 None:intergenic 25.0%
!! TATTTTGTGAAATCATTGAC+CGG - chr7.1:26108421-26108440 MS.gene023887:CDS 25.0%
!! TTGTTTCTCAAAGTTTGAAA+AGG - chr7.1:26108624-26108643 MS.gene023887:CDS 25.0%
!!! GAGAACAACATTTTATTTGT+AGG - chr7.1:26108571-26108590 MS.gene023887:CDS 25.0%
!!! GTTTTACTTTTAATGATGGA+AGG + chr7.1:26107965-26107984 None:intergenic 25.0%
AAAAGGATTCACTAGAGTTA+TGG + chr7.1:26108038-26108057 None:intergenic 30.0%
AAGGATGGGATAAATGAATA+GGG + chr7.1:26107946-26107965 None:intergenic 30.0%
AGTTTGTATGTAAGATTGTG+TGG + chr7.1:26108481-26108500 None:intergenic 30.0%
GTTACAAATCTATAATGCGA+AGG - chr7.1:26108690-26108709 MS.gene023887:CDS 30.0%
GTTTGTATGTAAGATTGTGT+GGG + chr7.1:26108480-26108499 None:intergenic 30.0%
! CAAACTCTACGTTTTCAAAT+TGG - chr7.1:26108495-26108514 MS.gene023887:CDS 30.0%
! CTACGTTTTCAAATTGGAAA+TGG - chr7.1:26108501-26108520 MS.gene023887:CDS 30.0%
! TGTTGTATTTTATGAAGGCT+TGG - chr7.1:26108249-26108268 MS.gene023887:CDS 30.0%
! TTCAAACTTTGAGAAACAAG+CGG + chr7.1:26108623-26108642 None:intergenic 30.0%
!! ACTTTTAATGATGGAAGGAT+GGG + chr7.1:26107960-26107979 None:intergenic 30.0%
!! TACTTTTAATGATGGAAGGA+TGG + chr7.1:26107961-26107980 None:intergenic 30.0%
AACATCCTCTTGAAGGAAAT+TGG + chr7.1:26108742-26108761 None:intergenic 35.0%
AAGATGTAACATCCTCTTGA+AGG + chr7.1:26108749-26108768 None:intergenic 35.0%
AGGAGGATTGTTGAATTTGA+AGG + chr7.1:26108308-26108327 None:intergenic 35.0%
ATAATCACTTGGGCTTGTAA+TGG + chr7.1:26108131-26108150 None:intergenic 35.0%
CAAATCTATAATGCGAAGGA+TGG - chr7.1:26108694-26108713 MS.gene023887:CDS 35.0%
CAAGAGGATGTTACATCTTT+GGG - chr7.1:26108750-26108769 MS.gene023887:CDS 35.0%
CTTTACCAATTTCCTTCAAG+AGG - chr7.1:26108734-26108753 MS.gene023887:CDS 35.0%
GAAGGATGGGATAAATGAAT+AGG + chr7.1:26107947-26107966 None:intergenic 35.0%
TAATCACTTGGGCTTGTAAT+GGG + chr7.1:26108130-26108149 None:intergenic 35.0%
TCAAGAGGATGTTACATCTT+TGG - chr7.1:26108749-26108768 MS.gene023887:CDS 35.0%
! GTTGCAGCGATTTACAATTT+TGG - chr7.1:26108154-26108173 MS.gene023887:CDS 35.0%
! TTATGAAGGCTTGGTATTTG+CGG - chr7.1:26108258-26108277 MS.gene023887:CDS 35.0%
AATCACTTGGGCTTGTAATG+GGG + chr7.1:26108129-26108148 None:intergenic 40.0%
AATCATTGACCGGAGACATA+TGG - chr7.1:26108431-26108450 MS.gene023887:CDS 40.0%
ACATCTCGAATCTCTCAACA+AGG - chr7.1:26108087-26108106 MS.gene023887:CDS 40.0%
CTGCAACCACATAATCACTT+GGG + chr7.1:26108141-26108160 None:intergenic 40.0%
GAGTACTAGCTATCTTCTCA+AGG + chr7.1:26108363-26108382 None:intergenic 40.0%
GGAGCTATACTGCTCTTAAA+AGG + chr7.1:26108055-26108074 None:intergenic 40.0%
GGTTCTACCCCAATTTCAAT+GGG - chr7.1:26108771-26108790 MS.gene023887:CDS 40.0%
TACAAGCCCAAGTGATTATG+TGG - chr7.1:26108132-26108151 MS.gene023887:CDS 40.0%
TCAACTGAGTCATCATAAGG+AGG + chr7.1:26108325-26108344 None:intergenic 40.0%
TTGTTGAGAGATTCGAGATG+TGG + chr7.1:26108088-26108107 None:intergenic 40.0%
TTTCACCATCCATATGTCTC+CGG + chr7.1:26108443-26108462 None:intergenic 40.0%
! AAAGAGCAAGCCAGTCTTTT+TGG - chr7.1:26108191-26108210 MS.gene023887:CDS 40.0%
! ATAGGGTACTCTTTCTCACT+TGG + chr7.1:26107929-26107948 None:intergenic 40.0%
! TAGGGTACTCTTTCTCACTT+GGG + chr7.1:26107928-26107947 None:intergenic 40.0%
! TTGTTCAACTTTTCCGCTCT+GGG + chr7.1:26108530-26108549 None:intergenic 40.0%
! TTTGTTCAACTTTTCCGCTC+TGG + chr7.1:26108531-26108550 None:intergenic 40.0%
!! ACATGTTTAGGTTGTAGCCA+TGG - chr7.1:26107983-26108002 MS.gene023887:CDS 40.0%
ATTGACCGGAGACATATGGA+TGG - chr7.1:26108435-26108454 MS.gene023887:CDS 45.0%
CTGCACGAATCCAAAAAGAC+TGG + chr7.1:26108204-26108223 None:intergenic 45.0%
GCTGCAACCACATAATCACT+TGG + chr7.1:26108142-26108161 None:intergenic 45.0%
GGGTCAACTGAGTCATCATA+AGG + chr7.1:26108328-26108347 None:intergenic 45.0%
GGGTTCTACCCCAATTTCAA+TGG - chr7.1:26108770-26108789 MS.gene023887:CDS 45.0%
TCGAGATGTGGCAGACTAAT+GGG + chr7.1:26108076-26108095 None:intergenic 45.0%
TTCGAGATGTGGCAGACTAA+TGG + chr7.1:26108077-26108096 None:intergenic 45.0%
!! GTTTAGGTTGTAGCCATGGT+TGG - chr7.1:26107987-26108006 MS.gene023887:CDS 45.0%
! TGTAATGGGGTCAGCAGACA+AGG + chr7.1:26108116-26108135 None:intergenic 50.0%
CCACTAGTGCAAGCCAACCA+TGG + chr7.1:26108003-26108022 None:intergenic 55.0%
TTGGAAATGGACGCCCAGAG+CGG - chr7.1:26108514-26108533 MS.gene023887:CDS 55.0%
!! CCATGGTTGGCTTGCACTAG+TGG - chr7.1:26108000-26108019 MS.gene023887:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 26107905 26108798 26107905 ID=MS.gene023887
chr7.1 mRNA 26107905 26108798 26107905 ID=MS.gene023887.t1;Parent=MS.gene023887
chr7.1 exon 26107905 26108798 26107905 ID=MS.gene023887.t1.exon1;Parent=MS.gene023887.t1
chr7.1 CDS 26107905 26108798 26107905 ID=cds.MS.gene023887.t1;Parent=MS.gene023887.t1
Gene Sequence

>MS.gene023887

ATGAAATCGTTATATAGTATCCCAAGTGAGAAAGAGTACCCTATTCATTTATCCCATCCTTCCATCATTAAAAGTAAAACATGTTTAGGTTGTAGCCATGGTTGGCTTGCACTAGTGGATAAAAACAATGCCATAACTCTAGTGAATCCTTTTAAGAGCAGTATAGCTCCCATTAGTCTGCCACATCTCGAATCTCTCAACAAGGTTACCTTGTCTGCTGACCCCATTACAAGCCCAAGTGATTATGTGGTTGCAGCGATTTACAATTTTGGTTCTCTCGCTTTCAAAAGAGCAAGCCAGTCTTTTTGGATTCGTGCAGACACAAATGAATTTTCTTTCACTAATGTTGTATTTTATGAAGGCTTGGTATTTGCGGACAGCGAACAAGACTTCATTGTATCCTTCAAATTCAACAATCCTCCTTATGATGACTCAGTTGACCCTAATTTTACTTACCTTGAGAAGATAGCTAGTACTCCATATAATTTTCCAGAAGAATATTATTATGGGAATTCTTATTTTGTGAAATCATTGACCGGAGACATATGGATGGTGAAAAGATGTTTAATCGACCCACACAATCTTACATACAAACTCTACGTTTTCAAATTGGAAATGGACGCCCAGAGCGGAAAAGTTGAACAAATCAACAAACTTGATAGTTTAGAGAACAACATTTTATTTGTAGGAATCGGTGATTCAATTTCTGTGTCAGCCGCTTGTTTCTCAAAGTTTGAAAAGGATTCAATTTATTTTATTTATGATGGCGACGAAGATGATTTAGAGTTACAAATCTATAATGCGAAGGATGGAAGTTATCGTAGTCAATCTTTACCAATTTCCTTCAAGAGGATGTTACATCTTTGGGTTCTACCCCAATTTCAATGGGATTGA
Protein sequence

>MS.gene023887.t1

MKSLYSIPSEKEYPIHLSHPSIIKSKTCLGCSHGWLALVDKNNAITLVNPFKSSIAPISLPHLESLNKVTLSADPITSPSDYVVAAIYNFGSLAFKRASQSFWIRADTNEFSFTNVVFYEGLVFADSEQDFIVSFKFNNPPYDDSVDPNFTYLEKIASTPYNFPEEYYYGNSYFVKSLTGDIWMVKRCLIDPHNLTYKLYVFKLEMDAQSGKVEQINKLDSLENNILFVGIGDSISVSAACFSKFEKDSIYFIYDGDEDDLELQIYNAKDGSYRSQSLPISFKRMLHLWVLPQFQWD