AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene50082

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50082.t1 MTR_4g063220 99.324 148 1 0 1 148 1 148 3.84e-102 289
MS.gene50082.t1 MTR_4g063990 99.324 148 1 0 1 148 1 148 3.84e-102 289
MS.gene50082.t1 MTR_4g063200 99.324 148 1 0 1 148 1 148 3.84e-102 289
MS.gene50082.t1 MTR_4g064020 99.324 148 1 0 1 148 1 148 3.84e-102 289
MS.gene50082.t1 MTR_4g071180 99.324 148 1 0 1 148 1 148 8.19e-102 288
MS.gene50082.t1 MTR_4g070240 99.324 148 1 0 1 148 1 148 8.19e-102 288
MS.gene50082.t1 MTR_4g070245 97.973 148 3 0 1 148 1 148 4.03e-100 284
MS.gene50082.t1 MTR_4g063240 98.649 148 1 1 1 148 1 147 1.11e-99 283
MS.gene50082.t1 MTR_4g063275 96.622 148 5 0 1 148 1 148 8.15e-99 280
MS.gene50082.t1 MTR_4g064983 98.611 144 2 0 1 144 1 144 7.90e-97 279
MS.gene50082.t1 MTR_4g088025 93.919 148 4 1 1 148 1 143 7.97e-89 255
MS.gene50082.t1 MTR_1g090780 88.514 148 6 3 1 148 1 137 1.62e-78 229
MS.gene50082.t1 MTR_1g492910 87.838 148 7 3 1 148 1 137 8.01e-78 227
MS.gene50082.t1 MTR_1g068600 92.793 111 4 1 38 148 30 136 3.27e-64 192
MS.gene50082.t1 MTR_7g099960 92.793 111 5 1 38 148 31 138 6.03e-64 192
MS.gene50082.t1 MTR_2g084480 61.798 89 34 0 59 147 136 224 4.66e-37 127
MS.gene50082.t1 MTR_8g069990 68.817 93 21 3 15 107 4 88 3.43e-34 115
MS.gene50082.t1 MTR_4g063270 90.196 51 5 0 86 136 1 51 5.07e-27 95.9
MS.gene50082.t1 MTR_7g114580 90.244 41 4 0 108 148 11 51 9.18e-20 77.4
MS.gene50082.t1 MTR_4g032777 36.792 106 63 2 31 132 5 110 1.69e-13 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50082.t1 AT3G45980 88.742 151 13 2 1 148 1 150 1.41e-83 242
MS.gene50082.t1 AT2G28720 86.093 151 18 1 1 148 1 151 9.31e-81 235
MS.gene50082.t1 AT1G07790 86.928 153 10 3 1 148 1 148 7.39e-80 233
MS.gene50082.t1 AT5G59910 91.176 136 9 2 13 148 18 150 2.55e-77 226
MS.gene50082.t1 AT3G46030 94.444 126 6 1 23 148 21 145 8.32e-76 222
MS.gene50082.t1 AT2G37470 82.432 148 15 3 1 147 1 138 5.77e-71 210
MS.gene50082.t1 AT3G53650 81.208 149 16 3 1 148 1 138 4.43e-69 205
MS.gene50082.t1 AT5G22880 87.586 145 16 2 4 148 3 145 4.09e-67 200
MS.gene50082.t1 AT5G02570 79.730 148 14 1 1 148 1 132 9.33e-67 199
MS.gene50082.t1 AT3G09480 84.127 126 16 1 23 148 5 126 2.05e-62 187
MS.gene50082.t1 AT1G08170 61.176 85 33 0 61 145 151 235 2.87e-37 127

Find 46 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCTAAGAGCTTGTGAATT+TGG 0.203095 4.2:-36664634 None:intergenic
GGTAGCTTCTTTCCAGCCTT+TGG 0.299167 4.2:-36664300 None:intergenic
GCTTGTTCTGCCCGGTGAAT+TGG 0.304089 4.2:+36664575 MS.gene50082:CDS
GCTGGCTTCTTCTCTCCCTT+TGG 0.362568 4.2:-36664213 None:intergenic
CTTGTTGTACCTAGCGAGTC+TGG 0.384866 4.2:-36664511 None:intergenic
TCTGCGGGTTTCTTCTCTGC+TGG 0.399254 4.2:-36664231 None:intergenic
GCCTTTGGCTTCTTCTCCGC+CGG 0.402654 4.2:-36664285 None:intergenic
GCGGCTGAACCACCTTCCTT+TGG 0.410543 4.2:-36664321 None:intergenic
GTGGATTTCTTCTCCTCTGC+GGG 0.431011 4.2:-36664246 None:intergenic
TCTCTTCTTCTTCTTGTCTC+CGG 0.444808 4.2:-36664343 None:intergenic
ACCCTCAGAAACAGCATGCT+TGG 0.462043 4.2:-36664598 None:intergenic
TTGCTTGAGATACCAATGTC+CGG 0.465790 4.2:-36664426 None:intergenic
AGCATGCTTGGCCAATTCAC+CGG 0.471051 4.2:-36664586 None:intergenic
GGGAAATTCAGACCGCGGTC+AGG 0.471115 4.2:+36664553 MS.gene50082:CDS
TGTGAATTTGGTCACAGCCT+TGG 0.493306 4.2:-36664622 None:intergenic
AATTCCTTCAATGGCGCCAA+AGG 0.495983 4.2:+36664197 None:intergenic
GCGGAGAAGAAGCCAAAGGC+TGG 0.504484 4.2:+36664288 MS.gene50082:CDS
AAGGAAGGTGGTTCAGCCGC+CGG 0.504946 4.2:+36664324 MS.gene50082:CDS
TGCTTGAGATACCAATGTCC+GGG 0.518516 4.2:-36664425 None:intergenic
GCATGCTTGGCCAATTCACC+GGG 0.525255 4.2:-36664585 None:intergenic
TGGTATCTCAAGCAAAGCCA+TGG 0.533917 4.2:+36664434 MS.gene50082:CDS
GCCAAGCATGCTGTTTCTGA+GGG 0.538001 4.2:+36664597 MS.gene50082:CDS
GGCCAAGCATGCTGTTTCTG+AGG 0.538906 4.2:+36664596 MS.gene50082:CDS
CACAGTCGCTGAGAAAGCTC+CGG 0.552253 4.2:+36664266 MS.gene50082:CDS
GCGGTCAGGCTTGTTCTGCC+CGG 0.555879 4.2:+36664567 MS.gene50082:CDS
ATTCCTTCAATGGCGCCAAA+GGG 0.555903 4.2:+36664198 None:intergenic
ATTTCCCTCGAAGTGATCGT+CGG 0.569915 4.2:-36664537 None:intergenic
TGCTGTTTCTGAGGGTACCA+AGG 0.572597 4.2:+36664605 MS.gene50082:CDS
CTTCTTCTTCTTGTCTCCGG+CGG 0.574610 4.2:-36664340 None:intergenic
AAACAAGTTCACCCGGACAT+TGG 0.574952 4.2:+36664414 MS.gene50082:CDS
AGAAGCCGACGATCACTTCG+AGG 0.586465 4.2:+36664532 MS.gene50082:CDS
AAGAATCTTCCAGACTCGCT+AGG 0.594905 4.2:+36664502 MS.gene50082:CDS
TGTGGATTTCTTCTCCTCTG+CGG 0.602479 4.2:-36664247 None:intergenic
GGAAAGAAGCTACCAAAGGA+AGG 0.624050 4.2:+36664309 MS.gene50082:CDS
CGGAGCTTTCTCAGCGACTG+TGG 0.628186 4.2:-36664265 None:intergenic
GGCTGGAAAGAAGCTACCAA+AGG 0.634160 4.2:+36664305 MS.gene50082:CDS
AGTTCTGAAACAAGTTCACC+CGG 0.635033 4.2:+36664407 MS.gene50082:CDS
AGTCGCTGAGAAAGCTCCGG+CGG 0.656886 4.2:+36664269 MS.gene50082:CDS
GGTATCTCAAGCAAAGCCAT+GGG 0.659631 4.2:+36664435 MS.gene50082:CDS
GAAGCCGACGATCACTTCGA+GGG 0.660226 4.2:+36664533 MS.gene50082:CDS
AAGAAGCTACCAAAGGAAGG+TGG 0.666846 4.2:+36664312 MS.gene50082:CDS
TCCGGCGGAGAAGAAGCCAA+AGG 0.682003 4.2:+36664284 MS.gene50082:CDS
GAAACTGTTCATGATACCCA+TGG 0.683953 4.2:-36664451 None:intergenic
GGGCAGAACAAGCCTGACCG+CGG 0.695125 4.2:-36664565 None:intergenic
AGCAGAGAAGAAACCCGCAG+AGG 0.698236 4.2:+36664233 MS.gene50082:CDS
TTCGAGGGAAATTCAGACCG+CGG 0.709650 4.2:+36664548 MS.gene50082:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GAAACTGTTCATGATACCCA+TGG - chr4.2:36664454-36664473 None:intergenic 40.0%
TCTCTTCTTCTTCTTGTCTC+CGG - chr4.2:36664346-36664365 None:intergenic 40.0%
TTGCTTGAGATACCAATGTC+CGG - chr4.2:36664429-36664448 None:intergenic 40.0%
!! AGTTCTGAAACAAGTTCACC+CGG + chr4.2:36664407-36664426 MS.gene50082:CDS 40.0%
AAACAAGTTCACCCGGACAT+TGG + chr4.2:36664414-36664433 MS.gene50082:CDS 45.0%
AAGAAGCTACCAAAGGAAGG+TGG + chr4.2:36664312-36664331 MS.gene50082:CDS 45.0%
AAGAATCTTCCAGACTCGCT+AGG + chr4.2:36664502-36664521 MS.gene50082:CDS 45.0%
ATTTCCCTCGAAGTGATCGT+CGG - chr4.2:36664540-36664559 None:intergenic 45.0%
GGAAAGAAGCTACCAAAGGA+AGG + chr4.2:36664309-36664328 MS.gene50082:CDS 45.0%
GGTATCTCAAGCAAAGCCAT+GGG + chr4.2:36664435-36664454 MS.gene50082:CDS 45.0%
TGCTTGAGATACCAATGTCC+GGG - chr4.2:36664428-36664447 None:intergenic 45.0%
TGGTATCTCAAGCAAAGCCA+TGG + chr4.2:36664434-36664453 MS.gene50082:CDS 45.0%
TGTGAATTTGGTCACAGCCT+TGG - chr4.2:36664625-36664644 None:intergenic 45.0%
TGTGGATTTCTTCTCCTCTG+CGG - chr4.2:36664250-36664269 None:intergenic 45.0%
ACCCTCAGAAACAGCATGCT+TGG - chr4.2:36664601-36664620 None:intergenic 50.0%
AGCATGCTTGGCCAATTCAC+CGG - chr4.2:36664589-36664608 None:intergenic 50.0%
CTTCTTCTTCTTGTCTCCGG+CGG - chr4.2:36664343-36664362 None:intergenic 50.0%
GGCTGGAAAGAAGCTACCAA+AGG + chr4.2:36664305-36664324 MS.gene50082:CDS 50.0%
GGTAGCTTCTTTCCAGCCTT+TGG - chr4.2:36664303-36664322 None:intergenic 50.0%
GTGGATTTCTTCTCCTCTGC+GGG - chr4.2:36664249-36664268 None:intergenic 50.0%
TTCGAGGGAAATTCAGACCG+CGG + chr4.2:36664548-36664567 MS.gene50082:CDS 50.0%
! CTTGTTGTACCTAGCGAGTC+TGG - chr4.2:36664514-36664533 None:intergenic 50.0%
!! GCCAAGCATGCTGTTTCTGA+GGG + chr4.2:36664597-36664616 MS.gene50082:CDS 50.0%
!! TGCTGTTTCTGAGGGTACCA+AGG + chr4.2:36664605-36664624 MS.gene50082:CDS 50.0%
AGAAGCCGACGATCACTTCG+AGG + chr4.2:36664532-36664551 MS.gene50082:CDS 55.0%
AGCAGAGAAGAAACCCGCAG+AGG + chr4.2:36664233-36664252 MS.gene50082:CDS 55.0%
CACAGTCGCTGAGAAAGCTC+CGG + chr4.2:36664266-36664285 MS.gene50082:CDS 55.0%
GAAGCCGACGATCACTTCGA+GGG + chr4.2:36664533-36664552 MS.gene50082:CDS 55.0%
GCATGCTTGGCCAATTCACC+GGG - chr4.2:36664588-36664607 None:intergenic 55.0%
GCTTGTTCTGCCCGGTGAAT+TGG + chr4.2:36664575-36664594 MS.gene50082:CDS 55.0%
TCTGCGGGTTTCTTCTCTGC+TGG - chr4.2:36664234-36664253 None:intergenic 55.0%
! GCTGGCTTCTTCTCTCCCTT+TGG - chr4.2:36664216-36664235 None:intergenic 55.0%
!! GGCCAAGCATGCTGTTTCTG+AGG + chr4.2:36664596-36664615 MS.gene50082:CDS 55.0%
AAGGAAGGTGGTTCAGCCGC+CGG + chr4.2:36664324-36664343 MS.gene50082:CDS 60.0%
AGTCGCTGAGAAAGCTCCGG+CGG + chr4.2:36664269-36664288 MS.gene50082:CDS 60.0%
CGGAGCTTTCTCAGCGACTG+TGG - chr4.2:36664268-36664287 None:intergenic 60.0%
GCGGAGAAGAAGCCAAAGGC+TGG + chr4.2:36664288-36664307 MS.gene50082:CDS 60.0%
GCGGCTGAACCACCTTCCTT+TGG - chr4.2:36664324-36664343 None:intergenic 60.0%
GGGAAATTCAGACCGCGGTC+AGG + chr4.2:36664553-36664572 MS.gene50082:CDS 60.0%
TCCGGCGGAGAAGAAGCCAA+AGG + chr4.2:36664284-36664303 MS.gene50082:CDS 60.0%
! GCCTTTGGCTTCTTCTCCGC+CGG - chr4.2:36664288-36664307 None:intergenic 60.0%
GGGCAGAACAAGCCTGACCG+CGG - chr4.2:36664568-36664587 None:intergenic 65.0%
! GCGGTCAGGCTTGTTCTGCC+CGG + chr4.2:36664567-36664586 MS.gene50082:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 36664207 36664653 36664207 ID=MS.gene50082
chr4.2 mRNA 36664207 36664653 36664207 ID=MS.gene50082.t1;Parent=MS.gene50082
chr4.2 exon 36664207 36664653 36664207 ID=MS.gene50082.t1.exon1;Parent=MS.gene50082.t1
chr4.2 CDS 36664207 36664653 36664207 ID=cds.MS.gene50082.t1;Parent=MS.gene50082.t1
Gene Sequence

>MS.gene50082

ATGGCGCCAAAGGGAGAGAAGAAGCCAGCAGAGAAGAAACCCGCAGAGGAGAAGAAATCCACAGTCGCTGAGAAAGCTCCGGCGGAGAAGAAGCCAAAGGCTGGAAAGAAGCTACCAAAGGAAGGTGGTTCAGCCGCCGGAGACAAGAAGAAGAAGAGAAGCAAGAAGAGCGTTGAAACATACAAGATTTACATCTTCAAAGTTCTGAAACAAGTTCACCCGGACATTGGTATCTCAAGCAAAGCCATGGGTATCATGAACAGTTTCATCAACGACATCTTCGAGAAGCTCGCTCAAGAATCTTCCAGACTCGCTAGGTACAACAAGAAGCCGACGATCACTTCGAGGGAAATTCAGACCGCGGTCAGGCTTGTTCTGCCCGGTGAATTGGCCAAGCATGCTGTTTCTGAGGGTACCAAGGCTGTGACCAAATTCACAAGCTCTTAG
Protein sequence

>MS.gene50082.t1

MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGDKKKKRSKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQTAVRLVLPGELAKHAVSEGTKAVTKFTSS