AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056450


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056450.t1 MTR_8g069825 100.000 85 0 0 1 85 133 217 6.87e-53 173
MS.gene056450.t1 MTR_8g102850 50.515 97 48 0 1 97 110 206 3.58e-22 89.4
MS.gene056450.t1 MTR_8g102850 50.515 97 48 0 1 97 110 206 3.67e-22 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056450.t1 AT1G23400 71.277 94 27 0 1 94 141 234 9.98e-38 132
MS.gene056450.t1 AT2G20020 54.118 85 39 0 1 85 181 265 2.72e-20 84.3

Find 42 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCGGTGAGTTGGAATTTA+AGG 0.130290 8.3:+32976644 MS.gene056450:CDS
TGAAATGCCGGGGCCGTTTC+CGG 0.203657 8.3:+32976506 MS.gene056450:CDS
GAGATTAACTTGGCGATTAT+CGG 0.301688 8.3:-32976625 None:intergenic
TTAACACCTTTCATCCCTTC+CGG 0.362703 8.3:-32976477 None:intergenic
CTCGGTGAGTTGGAATTTAA+GGG 0.363203 8.3:+32976645 MS.gene056450:CDS
TCTCTACTCACCCCTTCTTC+AGG 0.366333 8.3:-32976540 None:intergenic
TGGCGATTATCGGCCATCAT+AGG 0.381412 8.3:-32976615 None:intergenic
TGCCGGGGCCGTTTCCGGTT+GGG 0.392027 8.3:+32976511 MS.gene056450:CDS
GCTTTCCCTGTCCACGGCCT+CGG 0.430447 8.3:-32976399 None:intergenic
CTCCCACAATGCCGAGGCCG+TGG 0.446187 8.3:+32976388 None:intergenic
GTTGGGAAGTTTCCTGAAGA+AGG 0.448522 8.3:+32976528 MS.gene056450:CDS
CCTTTCATCCCTTCCGGAGG+AGG 0.450761 8.3:-32976471 None:intergenic
CCAACTCACCGAGATTAACT+TGG 0.455660 8.3:-32976635 None:intergenic
ACAATGCCGAGGCCGTGGAC+AGG 0.457243 8.3:+32976393 None:intergenic
TCTTCAGGAAACTTCCCAAC+CGG 0.465046 8.3:-32976525 None:intergenic
GGAAACTTCCCAACCGGAAA+CGG 0.466951 8.3:-32976519 None:intergenic
TTCCCAACCGGAAACGGCCC+CGG 0.479889 8.3:-32976513 None:intergenic
GTGAGTAGAGAGGAGATACT+TGG 0.489608 8.3:+32976552 MS.gene056450:CDS
ATGCCGGGGCCGTTTCCGGT+TGG 0.495232 8.3:+32976510 MS.gene056450:CDS
CAATGCCGAGGCCGTGGACA+GGG 0.503686 8.3:+32976394 None:intergenic
TGCACCTCCCACTTCTTAAG+CGG 0.514241 8.3:-32976579 None:intergenic
TTGGGAAGTTTCCTGAAGAA+GGG 0.515141 8.3:+32976529 MS.gene056450:CDS
AACGGTGCTTTCCCTGTCCA+CGG 0.517992 8.3:-32976405 None:intergenic
CCAAGTTAATCTCGGTGAGT+TGG 0.536247 8.3:+32976635 MS.gene056450:CDS
TTCTTCTTCGACTTCTTCAA+CGG 0.536586 8.3:-32976423 None:intergenic
TCGTTTAATCCTCCTCCGGA+AGG 0.538069 8.3:+32976462 MS.gene056450:CDS
TGTTAAGAAAGTTGAAATGC+CGG 0.538229 8.3:+32976494 MS.gene056450:CDS
TGATTCGTTTAATCCTCCTC+CGG 0.541927 8.3:+32976458 MS.gene056450:CDS
CCTCCTCCGGAAGGGATGAA+AGG 0.553704 8.3:+32976471 MS.gene056450:CDS
GTTAAGAAAGTTGAAATGCC+GGG 0.557025 8.3:+32976495 MS.gene056450:CDS
CGTTTAATCCTCCTCCGGAA+GGG 0.578528 8.3:+32976463 MS.gene056450:CDS
TTGGTGAGCCGCTTAAGAAG+TGG 0.586181 8.3:+32976571 MS.gene056450:CDS
TGGTGAGCCGCTTAAGAAGT+GGG 0.592158 8.3:+32976572 MS.gene056450:CDS
TGGGAAGTTTCCTGAAGAAG+GGG 0.603738 8.3:+32976530 MS.gene056450:CDS
TGAAGAAGGGGTGAGTAGAG+AGG 0.605646 8.3:+32976542 MS.gene056450:CDS
AATGCTTGTTAAGCCTATGA+TGG 0.616220 8.3:+32976602 MS.gene056450:CDS
GATAATCGCCAAGTTAATCT+CGG 0.621259 8.3:+32976627 MS.gene056450:CDS
TTGAACCTCCCACAATGCCG+AGG 0.638283 8.3:+32976382 None:intergenic
ACACCTTTCATCCCTTCCGG+AGG 0.653893 8.3:-32976474 None:intergenic
TTAAGAAAGTTGAAATGCCG+GGG 0.666363 8.3:+32976496 MS.gene056450:CDS
GGATTAAACGAATCAAACAG+CGG 0.734775 8.3:-32976450 None:intergenic
TGAGCCGCTTAAGAAGTGGG+AGG 0.754394 8.3:+32976575 MS.gene056450:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGTTAAGAAAGTTGAAATGC+CGG + chr8.3:32976494-32976513 MS.gene056450:CDS 30.0%
GATAATCGCCAAGTTAATCT+CGG + chr8.3:32976627-32976646 MS.gene056450:CDS 35.0%
GGATTAAACGAATCAAACAG+CGG - chr8.3:32976453-32976472 None:intergenic 35.0%
GTTAAGAAAGTTGAAATGCC+GGG + chr8.3:32976495-32976514 MS.gene056450:CDS 35.0%
TTAAGAAAGTTGAAATGCCG+GGG + chr8.3:32976496-32976515 MS.gene056450:CDS 35.0%
TTCTTCTTCGACTTCTTCAA+CGG - chr8.3:32976426-32976445 None:intergenic 35.0%
! AATGCTTGTTAAGCCTATGA+TGG + chr8.3:32976602-32976621 MS.gene056450:CDS 35.0%
! GAGATTAACTTGGCGATTAT+CGG - chr8.3:32976628-32976647 None:intergenic 35.0%
TGATTCGTTTAATCCTCCTC+CGG + chr8.3:32976458-32976477 MS.gene056450:CDS 40.0%
TTAACACCTTTCATCCCTTC+CGG - chr8.3:32976480-32976499 None:intergenic 40.0%
TTGGGAAGTTTCCTGAAGAA+GGG + chr8.3:32976529-32976548 MS.gene056450:CDS 40.0%
! CTCGGTGAGTTGGAATTTAA+GGG + chr8.3:32976645-32976664 MS.gene056450:CDS 40.0%
! TCTCGGTGAGTTGGAATTTA+AGG + chr8.3:32976644-32976663 MS.gene056450:CDS 40.0%
CCAACTCACCGAGATTAACT+TGG - chr8.3:32976638-32976657 None:intergenic 45.0%
CCAAGTTAATCTCGGTGAGT+TGG + chr8.3:32976635-32976654 MS.gene056450:CDS 45.0%
GTGAGTAGAGAGGAGATACT+TGG + chr8.3:32976552-32976571 MS.gene056450:CDS 45.0%
GTTGGGAAGTTTCCTGAAGA+AGG + chr8.3:32976528-32976547 MS.gene056450:CDS 45.0%
TCTTCAGGAAACTTCCCAAC+CGG - chr8.3:32976528-32976547 None:intergenic 45.0%
TGGGAAGTTTCCTGAAGAAG+GGG + chr8.3:32976530-32976549 MS.gene056450:CDS 45.0%
CGTTTAATCCTCCTCCGGAA+GGG + chr8.3:32976463-32976482 MS.gene056450:CDS 50.0%
GGAAACTTCCCAACCGGAAA+CGG - chr8.3:32976522-32976541 None:intergenic 50.0%
TCGTTTAATCCTCCTCCGGA+AGG + chr8.3:32976462-32976481 MS.gene056450:CDS 50.0%
TCTCTACTCACCCCTTCTTC+AGG - chr8.3:32976543-32976562 None:intergenic 50.0%
TGAAGAAGGGGTGAGTAGAG+AGG + chr8.3:32976542-32976561 MS.gene056450:CDS 50.0%
TGCACCTCCCACTTCTTAAG+CGG - chr8.3:32976582-32976601 None:intergenic 50.0%
TGGCGATTATCGGCCATCAT+AGG - chr8.3:32976618-32976637 None:intergenic 50.0%
TGGTGAGCCGCTTAAGAAGT+GGG + chr8.3:32976572-32976591 MS.gene056450:CDS 50.0%
TTGGTGAGCCGCTTAAGAAG+TGG + chr8.3:32976571-32976590 MS.gene056450:CDS 50.0%
AACGGTGCTTTCCCTGTCCA+CGG - chr8.3:32976408-32976427 None:intergenic 55.0%
ACACCTTTCATCCCTTCCGG+AGG - chr8.3:32976477-32976496 None:intergenic 55.0%
TGAGCCGCTTAAGAAGTGGG+AGG + chr8.3:32976575-32976594 MS.gene056450:CDS 55.0%
CCTCCTCCGGAAGGGATGAA+AGG + chr8.3:32976471-32976490 MS.gene056450:CDS 60.0%
CCTTTCATCCCTTCCGGAGG+AGG - chr8.3:32976474-32976493 None:intergenic 60.0%
TGAAATGCCGGGGCCGTTTC+CGG + chr8.3:32976506-32976525 MS.gene056450:CDS 60.0%
GCTTTCCCTGTCCACGGCCT+CGG - chr8.3:32976402-32976421 None:intergenic 65.0%
TTCCCAACCGGAAACGGCCC+CGG - chr8.3:32976516-32976535 None:intergenic 65.0%
ATGCCGGGGCCGTTTCCGGT+TGG + chr8.3:32976510-32976529 MS.gene056450:CDS 70.0%
TGCCGGGGCCGTTTCCGGTT+GGG + chr8.3:32976511-32976530 MS.gene056450:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 32976396 32976689 32976396 ID=MS.gene056450
chr8.3 mRNA 32976396 32976689 32976396 ID=MS.gene056450.t1;Parent=MS.gene056450
chr8.3 exon 32976396 32976689 32976396 ID=MS.gene056450.t1.exon1;Parent=MS.gene056450.t1
chr8.3 CDS 32976396 32976689 32976396 ID=cds.MS.gene056450.t1;Parent=MS.gene056450.t1
Gene Sequence

>MS.gene056450

ATGCCGAGGCCGTGGACAGGGAAAGCACCGTTGAAGAAGTCGAAGAAGAATATTCCGCTGTTTGATTCGTTTAATCCTCCTCCGGAAGGGATGAAAGGTGTTAAGAAAGTTGAAATGCCGGGGCCGTTTCCGGTTGGGAAGTTTCCTGAAGAAGGGGTGAGTAGAGAGGAGATACTTGGTGAGCCGCTTAAGAAGTGGGAGGTGCAAATGCTTGTTAAGCCTATGATGGCCGATAATCGCCAAGTTAATCTCGGTGAGTTGGAATTTAAGGGTAGTTTTGTTTGCGATATTTGA

Protein sequence

>MS.gene056450.t1

MPRPWTGKAPLKKSKKNIPLFDSFNPPPEGMKGVKKVEMPGPFPVGKFPEEGVSREEILGEPLKKWEVQMLVKPMMADNRQVNLGELEFKGSFVCDI