AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1391150


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 77 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTGCCTCCCGTAGGAGTC+TGG 0.214220 tig0021410:+48655 Msa1391150:intron
GAAGAAACAATGACGGTATC+TGG 0.223499 tig0021410:-48542 None:intergenic
CGCTTTACGCCCAATCATTC+CGG 0.287091 tig0021410:+48457 Msa1391150:CDS
CAATGCCGCGTGGAGGTAAA+AGG 0.308793 tig0021410:-48594 None:intergenic
TCCTTTCGCTCCTCAGCTTA+CGG 0.318574 tig0021410:+48799 Msa1391150:CDS
ATCAGACGCGAGCCCCTCCT+TGG 0.323688 tig0021410:+48767 Msa1391150:CDS
CTCTGTCTTACCGCGGCTGC+TGG 0.335301 tig0021410:+48494 Msa1391150:CDS
CCTTTCGCTCCTCAGCTTAC+GGG 0.341229 tig0021410:+48800 Msa1391150:CDS
CAAGCGTTATCCGGAATGAT+TGG 0.365557 tig0021410:-48467 None:intergenic
CAGCTGTTGTTCCCCTCCCA+AGG 0.401225 tig0021410:+48840 Msa1391150:CDS
CAGAGGATGCAAGCGTTATC+CGG 0.442617 tig0021410:-48476 None:intergenic
GGTTGAGCCCTGGGATTTGA+CGG 0.443812 tig0021410:+48410 None:intergenic
CTTGGGAGGGGAACAACAGC+TGG 0.448224 tig0021410:-48839 None:intergenic
CTCGCGTCTGATTAGCTAGT+TGG 0.450357 tig0021410:-48756 None:intergenic
GTTGTTCCCCTCCCAAGGGC+AGG 0.453286 tig0021410:+48845 Msa1391150:CDS
TCAGACGCGAGCCCCTCCTT+GGG 0.455699 tig0021410:+48768 Msa1391150:CDS
GCTGCCTCCCGTAGGAGTCT+GGG 0.465822 tig0021410:+48656 Msa1391150:intron
TAAGTTCGCCGTCAAATCCC+AGG 0.467544 tig0021410:-48418 None:intergenic
TAAGAACCTGCCCTTGGGAG+GGG 0.474163 tig0021410:-48851 None:intergenic
CTCCTACGGGAGGCAGCAGT+GGG 0.476121 tig0021410:-48650 None:intergenic
AGGGGAACAACAGCTGGAAA+CGG 0.479232 tig0021410:-48833 None:intergenic
TTTACACATGCAAGTCGAAC+GGG 0.480570 tig0021410:-48911 None:intergenic
CCACGCGGCATTGCTCCGTC+AGG 0.484232 tig0021410:+48604 Msa1391150:CDS
ACTCCTACGGGAGGCAGCAG+TGG 0.491996 tig0021410:-48651 None:intergenic
AAGAAACAATGACGGTATCT+GGG 0.492143 tig0021410:-48541 None:intergenic
AACGCGTAAGAACCTGCCCT+TGG 0.497667 tig0021410:-48857 None:intergenic
AGGAGGAATCCGCCCAAGGA+GGG 0.502243 tig0021410:-48780 None:intergenic
TGGTGTTTCCAGTGGCGGAC+GGG 0.506464 tig0021410:-48885 None:intergenic
AAGCGTTATCCGGAATGATT+GGG 0.511219 tig0021410:-48466 None:intergenic
CATGCAAGTCGAACGGGAAG+TGG 0.511388 tig0021410:-48905 None:intergenic
GTTACTCACCCGTCCGCCAC+TGG 0.515654 tig0021410:+48877 Msa1391150:CDS
GTGGTGTTTCCAGTGGCGGA+CGG 0.521309 tig0021410:-48886 None:intergenic
ACGCGTAAGAACCTGCCCTT+GGG 0.530469 tig0021410:-48856 None:intergenic
AGCTGTTGTTCCCCTCCCAA+GGG 0.533909 tig0021410:+48841 Msa1391150:CDS
CGCAATGGGCGAAAGCCTGA+CGG 0.536266 tig0021410:-48619 None:intergenic
CCAAGGCGGTGATCAGTAGC+TGG 0.540351 tig0021410:-48718 None:intergenic
TAACTCTGTGCCAGCAGCCG+CGG 0.544469 tig0021410:-48504 None:intergenic
CGTAAGAACCTGCCCTTGGG+AGG 0.550231 tig0021410:-48853 None:intergenic
CCCGTAAGCTGAGGAGCGAA+AGG 0.554829 tig0021410:-48800 None:intergenic
GAGAGGATGATCAGCCACAC+TGG 0.556699 tig0021410:-48692 None:intergenic
GTAAGAACCTGCCCTTGGGA+GGG 0.557080 tig0021410:-48852 None:intergenic
GCGTGGAGGTAAAAGGCCTA+CGG 0.560249 tig0021410:-48587 None:intergenic
GGAGGAATCCGCCCAAGGAG+GGG 0.562553 tig0021410:-48779 None:intergenic
AAGTTCGCCGTCAAATCCCA+GGG 0.564420 tig0021410:-48417 None:intergenic
CGTGGAGGTAAAAGGCCTAC+GGG 0.570032 tig0021410:-48586 None:intergenic
GACGCGAGCCCCTCCTTGGG+CGG 0.572606 tig0021410:+48771 Msa1391150:CDS
CTTTCGCTCCTCAGCTTACG+GGG 0.577687 tig0021410:+48801 Msa1391150:CDS
CCAGCTACTGATCACCGCCT+TGG 0.578071 tig0021410:+48718 Msa1391150:CDS
CGTCAGGCTTTCGCCCATTG+CGG 0.587223 tig0021410:+48620 Msa1391150:CDS
GGGCGTAAAGCGTCTGTAGG+TGG 0.587281 tig0021410:-48446 None:intergenic
AGTGTGGCTGATCATCCTCT+CGG 0.593369 tig0021410:+48694 Msa1391150:CDS
CGAAAGGAGGAATCCGCCCA+AGG 0.596152 tig0021410:-48784 None:intergenic
CTTTACACATGCAAGTCGAA+CGG 0.597034 tig0021410:-48912 None:intergenic
TCCTGGCTCAGGATGAACGC+TGG 0.603603 tig0021410:-48942 None:intergenic
AGAGGATGATCAGCCACACT+GGG 0.612353 tig0021410:-48691 None:intergenic
TGCTAATACCCCGTAAGCTG+AGG 0.615470 tig0021410:-48809 None:intergenic
GGTATCTGGGGAATAAGCAT+CGG 0.620214 tig0021410:-48528 None:intergenic
ACGGGAAGTGGTGTTTCCAG+TGG 0.620953 tig0021410:-48893 None:intergenic
AAGGAGGAATCCGCCCAAGG+AGG 0.622334 tig0021410:-48781 None:intergenic
GGAAGTGGTGTTTCCAGTGG+CGG 0.627120 tig0021410:-48890 None:intergenic
TCCTGGAGAAGAAACAATGA+CGG 0.628601 tig0021410:-48549 None:intergenic
GCCACACTGGGACTGAGACA+AGG 0.629204 tig0021410:-48679 None:intergenic
ATTGGGCGTAAAGCGTCTGT+AGG 0.632255 tig0021410:-48449 None:intergenic
GACGGAGCAATGCCGCGTGG+AGG 0.640730 tig0021410:-48601 None:intergenic
GTCTGATTAGCTAGTTGGTG+AGG 0.641304 tig0021410:-48751 None:intergenic
CAGCAGCCGCGGTAAGACAG+AGG 0.650015 tig0021410:-48493 None:intergenic
TGGCTCAGGATGAACGCTGG+CGG 0.650788 tig0021410:-48939 None:intergenic
AAAAGAAGTTCATGACCCGT+AGG 0.653857 tig0021410:+48571 Msa1391150:CDS
GTAAGCTGAGGAGCGAAAGG+AGG 0.654589 tig0021410:-48797 None:intergenic
GCCTTGTCTCAGTCCCAGTG+TGG 0.654955 tig0021410:+48678 Msa1391150:CDS
AGAAACAATGACGGTATCTG+GGG 0.658343 tig0021410:-48540 None:intergenic
TGATCAGTAGCTGGTCCGAG+AGG 0.705254 tig0021410:-48709 None:intergenic
CCTGACGGAGCAATGCCGCG+TGG 0.711882 tig0021410:-48604 None:intergenic
GGTGAGGTAATAGCTTACCA+AGG 0.724474 tig0021410:-48735 None:intergenic
GAGGTAATAGCTTACCAAGG+CGG 0.748896 tig0021410:-48732 None:intergenic
TTGCATCCTCTGTCTTACCG+CGG 0.760348 tig0021410:+48487 Msa1391150:CDS
TCCTACGGGAGGCAGCAGTG+GGG 0.779333 tig0021410:-48649 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAACAATGACGGTATCT+GGG - tig0021410:48544-48563 None:intergenic 35.0%
AAGCGTTATCCGGAATGATT+GGG - tig0021410:48469-48488 None:intergenic 40.0%
AGAAACAATGACGGTATCTG+GGG - tig0021410:48543-48562 None:intergenic 40.0%
GAAGAAACAATGACGGTATC+TGG - tig0021410:48545-48564 None:intergenic 40.0%
TCCTGGAGAAGAAACAATGA+CGG - tig0021410:48552-48571 None:intergenic 40.0%
AAAAGAAGTTCATGACCCGT+AGG + tig0021410:48571-48590 Msa1391150:CDS 40.0%
TTTACACATGCAAGTCGAAC+GGG - tig0021410:48914-48933 None:intergenic 40.0%
CTTTACACATGCAAGTCGAA+CGG - tig0021410:48915-48934 None:intergenic 40.0%
CAAGCGTTATCCGGAATGAT+TGG - tig0021410:48470-48489 None:intergenic 45.0%
GGTATCTGGGGAATAAGCAT+CGG - tig0021410:48531-48550 None:intergenic 45.0%
! ACCGTCATTGTTTCTTCTCC+AGG + tig0021410:48548-48567 Msa1391150:intron 45.0%
! GGGTCATGAACTTCTTTTCC+TGG - tig0021410:48569-48588 None:intergenic 45.0%
! AGTGGGGAATTTTCCGCAAT+GGG - tig0021410:48636-48655 None:intergenic 45.0%
GAGGTAATAGCTTACCAAGG+CGG - tig0021410:48735-48754 None:intergenic 45.0%
GGTGAGGTAATAGCTTACCA+AGG - tig0021410:48738-48757 None:intergenic 45.0%
! GTCTGATTAGCTAGTTGGTG+AGG - tig0021410:48754-48773 None:intergenic 45.0%
! ATTGGGCGTAAAGCGTCTGT+AGG - tig0021410:48452-48471 None:intergenic 50.0%
CGCTTTACGCCCAATCATTC+CGG + tig0021410:48457-48476 Msa1391150:CDS 50.0%
CAGAGGATGCAAGCGTTATC+CGG - tig0021410:48479-48498 None:intergenic 50.0%
TTGCATCCTCTGTCTTACCG+CGG + tig0021410:48487-48506 Msa1391150:CDS 50.0%
! CAGTGGGGAATTTTCCGCAA+TGG - tig0021410:48637-48656 None:intergenic 50.0%
AGAGGATGATCAGCCACACT+GGG - tig0021410:48694-48713 None:intergenic 50.0%
AGTGTGGCTGATCATCCTCT+CGG + tig0021410:48694-48713 Msa1391150:CDS 50.0%
! CTCGCGTCTGATTAGCTAGT+TGG - tig0021410:48759-48778 None:intergenic 50.0%
TCCTTTCGCTCCTCAGCTTA+CGG + tig0021410:48799-48818 Msa1391150:CDS 50.0%
TGCTAATACCCCGTAAGCTG+AGG - tig0021410:48812-48831 None:intergenic 50.0%
AGGGGAACAACAGCTGGAAA+CGG - tig0021410:48836-48855 None:intergenic 50.0%
CGTGGAGGTAAAAGGCCTAC+GGG - tig0021410:48589-48608 None:intergenic 55.0%
GCGTGGAGGTAAAAGGCCTA+CGG - tig0021410:48590-48609 None:intergenic 55.0%
! GTAGGCCTTTTACCTCCACG+CGG + tig0021410:48589-48608 Msa1391150:CDS 55.0%
CAATGCCGCGTGGAGGTAAA+AGG - tig0021410:48597-48616 None:intergenic 55.0%
AGACAAGGCCCAGACTCCTA+CGG - tig0021410:48667-48686 None:intergenic 55.0%
GAGAGGATGATCAGCCACAC+TGG - tig0021410:48695-48714 None:intergenic 55.0%
TGATCAGTAGCTGGTCCGAG+AGG - tig0021410:48712-48731 None:intergenic 55.0%
GTAAGCTGAGGAGCGAAAGG+AGG - tig0021410:48800-48819 None:intergenic 55.0%
CCTTTCGCTCCTCAGCTTAC+GGG + tig0021410:48800-48819 Msa1391150:CDS 55.0%
CTTTCGCTCCTCAGCTTACG+GGG + tig0021410:48801-48820 Msa1391150:CDS 55.0%
AGCTGTTGTTCCCCTCCCAA+GGG + tig0021410:48841-48860 Msa1391150:CDS 55.0%
TAAGAACCTGCCCTTGGGAG+GGG - tig0021410:48854-48873 None:intergenic 55.0%
GTAAGAACCTGCCCTTGGGA+GGG - tig0021410:48855-48874 None:intergenic 55.0%
ACGCGTAAGAACCTGCCCTT+GGG - tig0021410:48859-48878 None:intergenic 55.0%
AACGCGTAAGAACCTGCCCT+TGG - tig0021410:48860-48879 None:intergenic 55.0%
GGAAGTGGTGTTTCCAGTGG+CGG - tig0021410:48893-48912 None:intergenic 55.0%
ACGGGAAGTGGTGTTTCCAG+TGG - tig0021410:48896-48915 None:intergenic 55.0%
CATGCAAGTCGAACGGGAAG+TGG - tig0021410:48908-48927 None:intergenic 55.0%
! GGGCGTAAAGCGTCTGTAGG+TGG - tig0021410:48449-48468 None:intergenic 60.0%
TAACTCTGTGCCAGCAGCCG+CGG - tig0021410:48507-48526 None:intergenic 60.0%
CGCAATGGGCGAAAGCCTGA+CGG - tig0021410:48622-48641 None:intergenic 60.0%
CGTCAGGCTTTCGCCCATTG+CGG + tig0021410:48620-48639 Msa1391150:CDS 60.0%
GACAAGGCCCAGACTCCTAC+GGG - tig0021410:48666-48685 None:intergenic 60.0%
GCCTTGTCTCAGTCCCAGTG+TGG + tig0021410:48678-48697 Msa1391150:CDS 60.0%
GCCACACTGGGACTGAGACA+AGG - tig0021410:48682-48701 None:intergenic 60.0%
CCAAGGCGGTGATCAGTAGC+TGG - tig0021410:48721-48740 None:intergenic 60.0%
CCAGCTACTGATCACCGCCT+TGG + tig0021410:48718-48737 Msa1391150:CDS 60.0%
AGGAGGAATCCGCCCAAGGA+GGG - tig0021410:48783-48802 None:intergenic 60.0%
AAGGAGGAATCCGCCCAAGG+AGG - tig0021410:48784-48803 None:intergenic 60.0%
CGAAAGGAGGAATCCGCCCA+AGG - tig0021410:48787-48806 None:intergenic 60.0%
CCCGTAAGCTGAGGAGCGAA+AGG - tig0021410:48803-48822 None:intergenic 60.0%
CTTGGGAGGGGAACAACAGC+TGG - tig0021410:48842-48861 None:intergenic 60.0%
CAGCTGTTGTTCCCCTCCCA+AGG + tig0021410:48840-48859 Msa1391150:CDS 60.0%
CGTAAGAACCTGCCCTTGGG+AGG - tig0021410:48856-48875 None:intergenic 60.0%
!! TGGTGTTTCCAGTGGCGGAC+GGG - tig0021410:48888-48907 None:intergenic 60.0%
! GTGGTGTTTCCAGTGGCGGA+CGG - tig0021410:48889-48908 None:intergenic 60.0%
CAGCAGCCGCGGTAAGACAG+AGG - tig0021410:48496-48515 None:intergenic 65.0%
CTCTGTCTTACCGCGGCTGC+TGG + tig0021410:48494-48513 Msa1391150:CDS 65.0%
TCCTACGGGAGGCAGCAGTG+GGG - tig0021410:48652-48671 None:intergenic 65.0%
CTCCTACGGGAGGCAGCAGT+GGG - tig0021410:48653-48672 None:intergenic 65.0%
ACTCCTACGGGAGGCAGCAG+TGG - tig0021410:48654-48673 None:intergenic 65.0%
TGCTGCCTCCCGTAGGAGTC+TGG + tig0021410:48655-48674 Msa1391150:intron 65.0%
GCTGCCTCCCGTAGGAGTCT+GGG + tig0021410:48656-48675 Msa1391150:intron 65.0%
AAGGCCCAGACTCCTACGGG+AGG - tig0021410:48663-48682 None:intergenic 65.0%
ATCAGACGCGAGCCCCTCCT+TGG + tig0021410:48767-48786 Msa1391150:CDS 65.0%
TCAGACGCGAGCCCCTCCTT+GGG + tig0021410:48768-48787 Msa1391150:CDS 65.0%
GGAGGAATCCGCCCAAGGAG+GGG - tig0021410:48782-48801 None:intergenic 65.0%
GTTGTTCCCCTCCCAAGGGC+AGG + tig0021410:48845-48864 Msa1391150:CDS 65.0%
GTTACTCACCCGTCCGCCAC+TGG + tig0021410:48877-48896 Msa1391150:CDS 65.0%
GACGGAGCAATGCCGCGTGG+AGG - tig0021410:48604-48623 None:intergenic 70.0%
CCTGACGGAGCAATGCCGCG+TGG - tig0021410:48607-48626 None:intergenic 70.0%
CCACGCGGCATTGCTCCGTC+AGG + tig0021410:48604-48623 Msa1391150:CDS 70.0%
TCCCCACTGCTGCCTCCCGT+AGG + tig0021410:48648-48667 Msa1391150:intron 70.0%
GACGCGAGCCCCTCCTTGGG+CGG + tig0021410:48771-48790 Msa1391150:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0021410 gene 48419 48954 48419 ID=Msa1391150;Name=Msa1391150
tig0021410 mRNA 48419 48954 48419 ID=Msa1391150-mRNA-1;Parent=Msa1391150;Name=Msa1391150-mRNA-1;_AED=0.42;_eAED=0.44;_QI=0|0|0|1|0|0|3|0|173
tig0021410 exon 48419 48556 48419 ID=Msa1391150-mRNA-1:exon:12574;Parent=Msa1391150-mRNA-1
tig0021410 exon 48570 48665 48570 ID=Msa1391150-mRNA-1:exon:12575;Parent=Msa1391150-mRNA-1
tig0021410 exon 48670 48954 48670 ID=Msa1391150-mRNA-1:exon:12576;Parent=Msa1391150-mRNA-1
tig0021410 CDS 48419 48556 48419 ID=Msa1391150-mRNA-1:cds;Parent=Msa1391150-mRNA-1
tig0021410 CDS 48570 48665 48570 ID=Msa1391150-mRNA-1:cds;Parent=Msa1391150-mRNA-1
tig0021410 CDS 48670 48954 48670 ID=Msa1391150-mRNA-1:cds;Parent=Msa1391150-mRNA-1
Gene Sequence

>Msa1391150

CTGGGATTTGACGGCGAACTTAAAAAGCCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCCCAGATACCGTCATTGAAAAGAAGTTCATGACCCGTAGGCCTTTTACCTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGAGTCTGGGCCTTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCACCGCCTTGGTAAGCTATTACCTCACCAACTAGCTAATCAGACGCGAGCCCCTCCTTGGGCGGATTCCTCCTTTCGCTCCTCAGCTTACGGGGTATTAGCAGCCGTTTCCAGCTGTTGTTCCCCTCCCAAGGGCAGGTTCTTACGCGTTACTCACCCGTCCGCCACTGGAAACACCACTTCCCGTTCGACTTGCATGTGTAAAGCATGCCGCCAGCGTTCATCC

Protein sequence

>Msa1391150

LGFDGELKKPPTDALRPIIPDNACILCLTAAAGTELADAYSPDTVIEKKFMTRRPFTSTRHCSVRLSPIAENSPLLPPESGPCLSPSVADHPLGPATDHRLGKLLPHQLANQTRAPPWADSSFRSSAYGVLAAVSSCCSPPKGRFLRVTHPSATGNTTSRSTCMCKACRQRSS