AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1391250


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:-109025 Msa1391250:intron
GAAGAAACAATGACGGTATC+TGG 0.223499 tig0021410:+109138 None:intergenic
CGCTTTACGCCCAATCATTC+CGG 0.287091 tig0021410:-109223 Msa1391250:CDS
CAATGCCGCGTGGAGGTAAA+AGG 0.308793 tig0021410:+109086 None:intergenic
TCCTTTCGCTCCTCAGCTTA+CGG 0.318574 tig0021410:-108881 Msa1391250:CDS
ATCAGACGCGAGCCCCTCCT+TGG 0.323688 tig0021410:-108913 Msa1391250:CDS
CTCTGTCTTACCGCGGCTGC+TGG 0.335301 tig0021410:-109186 Msa1391250:CDS
CCTTTCGCTCCTCAGCTTAC+GGG 0.341229 tig0021410:-108880 Msa1391250:CDS
CAAGCGTTATCCGGAATGAT+TGG 0.365557 tig0021410:+109213 None:intergenic
CAGCTGTTGTTCCCCTCCCA+AGG 0.401225 tig0021410:-108840 Msa1391250:CDS
CAGAGGATGCAAGCGTTATC+CGG 0.442617 tig0021410:+109204 None:intergenic
GGTTGAGCCCTGGGATTTGA+CGG 0.443812 tig0021410:-109270 None:intergenic
CTTGGGAGGGGAACAACAGC+TGG 0.448224 tig0021410:+108841 None:intergenic
CTCGCGTCTGATTAGCTAGT+TGG 0.450357 tig0021410:+108924 None:intergenic
GTTGTTCCCCTCCCAAGGGC+AGG 0.453286 tig0021410:-108835 Msa1391250:CDS
TCAGACGCGAGCCCCTCCTT+GGG 0.455699 tig0021410:-108912 Msa1391250:CDS
GCTGCCTCCCGTAGGAGTCT+GGG 0.465822 tig0021410:-109024 Msa1391250:intron
TAAGTTCGCCGTCAAATCCC+AGG 0.467544 tig0021410:+109262 None:intergenic
TAAGAACCTGCCCTTGGGAG+GGG 0.474163 tig0021410:+108829 None:intergenic
CTCCTACGGGAGGCAGCAGT+GGG 0.476121 tig0021410:+109030 None:intergenic
AGGGGAACAACAGCTGGAAA+CGG 0.479232 tig0021410:+108847 None:intergenic
TTTACACATGCAAGTCGAAC+GGG 0.480570 tig0021410:+108769 None:intergenic
CCACGCGGCATTGCTCCGTC+AGG 0.484232 tig0021410:-109076 Msa1391250:CDS
ACTCCTACGGGAGGCAGCAG+TGG 0.491996 tig0021410:+109029 None:intergenic
AAGAAACAATGACGGTATCT+GGG 0.492143 tig0021410:+109139 None:intergenic
AACGCGTAAGAACCTGCCCT+TGG 0.497667 tig0021410:+108823 None:intergenic
AGGAGGAATCCGCCCAAGGA+GGG 0.502243 tig0021410:+108900 None:intergenic
TGGTGTTTCCAGTGGCGGAC+GGG 0.506464 tig0021410:+108795 None:intergenic
AAGCGTTATCCGGAATGATT+GGG 0.511219 tig0021410:+109214 None:intergenic
CATGCAAGTCGAACGGGAAG+TGG 0.511388 tig0021410:+108775 None:intergenic
GTTACTCACCCGTCCGCCAC+TGG 0.515654 tig0021410:-108803 Msa1391250:CDS
GTGGTGTTTCCAGTGGCGGA+CGG 0.521309 tig0021410:+108794 None:intergenic
ACGCGTAAGAACCTGCCCTT+GGG 0.530469 tig0021410:+108824 None:intergenic
AGCTGTTGTTCCCCTCCCAA+GGG 0.533909 tig0021410:-108839 Msa1391250:CDS
CGCAATGGGCGAAAGCCTGA+CGG 0.536266 tig0021410:+109061 None:intergenic
CCAAGGCGGTGATCAGTAGC+TGG 0.540351 tig0021410:+108962 None:intergenic
TAACTCTGTGCCAGCAGCCG+CGG 0.544469 tig0021410:+109176 None:intergenic
CGTAAGAACCTGCCCTTGGG+AGG 0.550231 tig0021410:+108827 None:intergenic
CCCGTAAGCTGAGGAGCGAA+AGG 0.554829 tig0021410:+108880 None:intergenic
GAGAGGATGATCAGCCACAC+TGG 0.556699 tig0021410:+108988 None:intergenic
GTAAGAACCTGCCCTTGGGA+GGG 0.557080 tig0021410:+108828 None:intergenic
GCGTGGAGGTAAAAGGCCTA+CGG 0.560249 tig0021410:+109093 None:intergenic
GGAGGAATCCGCCCAAGGAG+GGG 0.562553 tig0021410:+108901 None:intergenic
AAGTTCGCCGTCAAATCCCA+GGG 0.564420 tig0021410:+109263 None:intergenic
CGTGGAGGTAAAAGGCCTAC+GGG 0.570032 tig0021410:+109094 None:intergenic
GACGCGAGCCCCTCCTTGGG+CGG 0.572606 tig0021410:-108909 Msa1391250:CDS
CTTTCGCTCCTCAGCTTACG+GGG 0.577687 tig0021410:-108879 Msa1391250:CDS
CCAGCTACTGATCACCGCCT+TGG 0.578071 tig0021410:-108962 Msa1391250:CDS
CGTCAGGCTTTCGCCCATTG+CGG 0.587223 tig0021410:-109060 Msa1391250:CDS
GGGCGTAAAGCGTCTGTAGG+TGG 0.587281 tig0021410:+109234 None:intergenic
AGTGTGGCTGATCATCCTCT+CGG 0.593369 tig0021410:-108986 Msa1391250:CDS
CGAAAGGAGGAATCCGCCCA+AGG 0.596152 tig0021410:+108896 None:intergenic
CTTTACACATGCAAGTCGAA+CGG 0.597034 tig0021410:+108768 None:intergenic
TCCTGGCTCAGGATGAACGC+TGG 0.603603 tig0021410:+108738 None:intergenic
AGAGGATGATCAGCCACACT+GGG 0.612353 tig0021410:+108989 None:intergenic
TGCTAATACCCCGTAAGCTG+AGG 0.615470 tig0021410:+108871 None:intergenic
GGTATCTGGGGAATAAGCAT+CGG 0.620214 tig0021410:+109152 None:intergenic
ACGGGAAGTGGTGTTTCCAG+TGG 0.620953 tig0021410:+108787 None:intergenic
AAGGAGGAATCCGCCCAAGG+AGG 0.622334 tig0021410:+108899 None:intergenic
GGAAGTGGTGTTTCCAGTGG+CGG 0.627120 tig0021410:+108790 None:intergenic
TCCTGGAGAAGAAACAATGA+CGG 0.628601 tig0021410:+109131 None:intergenic
GCCACACTGGGACTGAGACA+AGG 0.629204 tig0021410:+109001 None:intergenic
ATTGGGCGTAAAGCGTCTGT+AGG 0.632255 tig0021410:+109231 None:intergenic
GACGGAGCAATGCCGCGTGG+AGG 0.640730 tig0021410:+109079 None:intergenic
GTCTGATTAGCTAGTTGGTG+AGG 0.641304 tig0021410:+108929 None:intergenic
CAGCAGCCGCGGTAAGACAG+AGG 0.650015 tig0021410:+109187 None:intergenic
TGGCTCAGGATGAACGCTGG+CGG 0.650788 tig0021410:+108741 None:intergenic
AAAAGAAGTTCATGACCCGT+AGG 0.653857 tig0021410:-109109 Msa1391250:CDS
GTAAGCTGAGGAGCGAAAGG+AGG 0.654589 tig0021410:+108883 None:intergenic
GCCTTGTCTCAGTCCCAGTG+TGG 0.654955 tig0021410:-109002 Msa1391250:CDS
AGAAACAATGACGGTATCTG+GGG 0.658343 tig0021410:+109140 None:intergenic
TGATCAGTAGCTGGTCCGAG+AGG 0.705254 tig0021410:+108971 None:intergenic
CCTGACGGAGCAATGCCGCG+TGG 0.711882 tig0021410:+109076 None:intergenic
GGTGAGGTAATAGCTTACCA+AGG 0.724474 tig0021410:+108945 None:intergenic
GAGGTAATAGCTTACCAAGG+CGG 0.748896 tig0021410:+108948 None:intergenic
TTGCATCCTCTGTCTTACCG+CGG 0.760348 tig0021410:-109193 Msa1391250:CDS
TCCTACGGGAGGCAGCAGTG+GGG 0.779333 tig0021410:+109031 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAACAATGACGGTATCT+GGG + tig0021410:108873-108892 None:intergenic 35.0%
AAGCGTTATCCGGAATGATT+GGG + tig0021410:108798-108817 None:intergenic 40.0%
AGAAACAATGACGGTATCTG+GGG + tig0021410:108872-108891 None:intergenic 40.0%
GAAGAAACAATGACGGTATC+TGG + tig0021410:108874-108893 None:intergenic 40.0%
TCCTGGAGAAGAAACAATGA+CGG + tig0021410:108881-108900 None:intergenic 40.0%
AAAAGAAGTTCATGACCCGT+AGG - tig0021410:108900-108919 Msa1391250:CDS 40.0%
TTTACACATGCAAGTCGAAC+GGG + tig0021410:109243-109262 None:intergenic 40.0%
CTTTACACATGCAAGTCGAA+CGG + tig0021410:109244-109263 None:intergenic 40.0%
CAAGCGTTATCCGGAATGAT+TGG + tig0021410:108799-108818 None:intergenic 45.0%
GGTATCTGGGGAATAAGCAT+CGG + tig0021410:108860-108879 None:intergenic 45.0%
! ACCGTCATTGTTTCTTCTCC+AGG - tig0021410:108877-108896 Msa1391250:CDS 45.0%
! GGGTCATGAACTTCTTTTCC+TGG + tig0021410:108898-108917 None:intergenic 45.0%
! AGTGGGGAATTTTCCGCAAT+GGG + tig0021410:108965-108984 None:intergenic 45.0%
GAGGTAATAGCTTACCAAGG+CGG + tig0021410:109064-109083 None:intergenic 45.0%
GGTGAGGTAATAGCTTACCA+AGG + tig0021410:109067-109086 None:intergenic 45.0%
! GTCTGATTAGCTAGTTGGTG+AGG + tig0021410:109083-109102 None:intergenic 45.0%
! ATTGGGCGTAAAGCGTCTGT+AGG + tig0021410:108781-108800 None:intergenic 50.0%
CGCTTTACGCCCAATCATTC+CGG - tig0021410:108786-108805 Msa1391250:CDS 50.0%
CAGAGGATGCAAGCGTTATC+CGG + tig0021410:108808-108827 None:intergenic 50.0%
TTGCATCCTCTGTCTTACCG+CGG - tig0021410:108816-108835 Msa1391250:CDS 50.0%
! CAGTGGGGAATTTTCCGCAA+TGG + tig0021410:108966-108985 None:intergenic 50.0%
AGAGGATGATCAGCCACACT+GGG + tig0021410:109023-109042 None:intergenic 50.0%
AGTGTGGCTGATCATCCTCT+CGG - tig0021410:109023-109042 Msa1391250:intron 50.0%
! CTCGCGTCTGATTAGCTAGT+TGG + tig0021410:109088-109107 None:intergenic 50.0%
TCCTTTCGCTCCTCAGCTTA+CGG - tig0021410:109128-109147 Msa1391250:intron 50.0%
TGCTAATACCCCGTAAGCTG+AGG + tig0021410:109141-109160 None:intergenic 50.0%
AGGGGAACAACAGCTGGAAA+CGG + tig0021410:109165-109184 None:intergenic 50.0%
CGTGGAGGTAAAAGGCCTAC+GGG + tig0021410:108918-108937 None:intergenic 55.0%
GCGTGGAGGTAAAAGGCCTA+CGG + tig0021410:108919-108938 None:intergenic 55.0%
! GTAGGCCTTTTACCTCCACG+CGG - tig0021410:108918-108937 Msa1391250:CDS 55.0%
CAATGCCGCGTGGAGGTAAA+AGG + tig0021410:108926-108945 None:intergenic 55.0%
AGACAAGGCCCAGACTCCTA+CGG + tig0021410:108996-109015 None:intergenic 55.0%
GAGAGGATGATCAGCCACAC+TGG + tig0021410:109024-109043 None:intergenic 55.0%
TGATCAGTAGCTGGTCCGAG+AGG + tig0021410:109041-109060 None:intergenic 55.0%
GTAAGCTGAGGAGCGAAAGG+AGG + tig0021410:109129-109148 None:intergenic 55.0%
CCTTTCGCTCCTCAGCTTAC+GGG - tig0021410:109129-109148 Msa1391250:intron 55.0%
CTTTCGCTCCTCAGCTTACG+GGG - tig0021410:109130-109149 Msa1391250:intron 55.0%
AGCTGTTGTTCCCCTCCCAA+GGG - tig0021410:109170-109189 Msa1391250:CDS 55.0%
TAAGAACCTGCCCTTGGGAG+GGG + tig0021410:109183-109202 None:intergenic 55.0%
GTAAGAACCTGCCCTTGGGA+GGG + tig0021410:109184-109203 None:intergenic 55.0%
ACGCGTAAGAACCTGCCCTT+GGG + tig0021410:109188-109207 None:intergenic 55.0%
AACGCGTAAGAACCTGCCCT+TGG + tig0021410:109189-109208 None:intergenic 55.0%
GGAAGTGGTGTTTCCAGTGG+CGG + tig0021410:109222-109241 None:intergenic 55.0%
ACGGGAAGTGGTGTTTCCAG+TGG + tig0021410:109225-109244 None:intergenic 55.0%
CATGCAAGTCGAACGGGAAG+TGG + tig0021410:109237-109256 None:intergenic 55.0%
! GGGCGTAAAGCGTCTGTAGG+TGG + tig0021410:108778-108797 None:intergenic 60.0%
TAACTCTGTGCCAGCAGCCG+CGG + tig0021410:108836-108855 None:intergenic 60.0%
CGCAATGGGCGAAAGCCTGA+CGG + tig0021410:108951-108970 None:intergenic 60.0%
CGTCAGGCTTTCGCCCATTG+CGG - tig0021410:108949-108968 Msa1391250:CDS 60.0%
GACAAGGCCCAGACTCCTAC+GGG + tig0021410:108995-109014 None:intergenic 60.0%
GCCTTGTCTCAGTCCCAGTG+TGG - tig0021410:109007-109026 Msa1391250:CDS 60.0%
GCCACACTGGGACTGAGACA+AGG + tig0021410:109011-109030 None:intergenic 60.0%
CCAAGGCGGTGATCAGTAGC+TGG + tig0021410:109050-109069 None:intergenic 60.0%
CCAGCTACTGATCACCGCCT+TGG - tig0021410:109047-109066 Msa1391250:CDS 60.0%
AGGAGGAATCCGCCCAAGGA+GGG + tig0021410:109112-109131 None:intergenic 60.0%
AAGGAGGAATCCGCCCAAGG+AGG + tig0021410:109113-109132 None:intergenic 60.0%
CGAAAGGAGGAATCCGCCCA+AGG + tig0021410:109116-109135 None:intergenic 60.0%
CCCGTAAGCTGAGGAGCGAA+AGG + tig0021410:109132-109151 None:intergenic 60.0%
CTTGGGAGGGGAACAACAGC+TGG + tig0021410:109171-109190 None:intergenic 60.0%
CAGCTGTTGTTCCCCTCCCA+AGG - tig0021410:109169-109188 Msa1391250:CDS 60.0%
CGTAAGAACCTGCCCTTGGG+AGG + tig0021410:109185-109204 None:intergenic 60.0%
!! TGGTGTTTCCAGTGGCGGAC+GGG + tig0021410:109217-109236 None:intergenic 60.0%
! GTGGTGTTTCCAGTGGCGGA+CGG + tig0021410:109218-109237 None:intergenic 60.0%
CAGCAGCCGCGGTAAGACAG+AGG + tig0021410:108825-108844 None:intergenic 65.0%
CTCTGTCTTACCGCGGCTGC+TGG - tig0021410:108823-108842 Msa1391250:CDS 65.0%
TCCTACGGGAGGCAGCAGTG+GGG + tig0021410:108981-109000 None:intergenic 65.0%
CTCCTACGGGAGGCAGCAGT+GGG + tig0021410:108982-109001 None:intergenic 65.0%
ACTCCTACGGGAGGCAGCAG+TGG + tig0021410:108983-109002 None:intergenic 65.0%
TGCTGCCTCCCGTAGGAGTC+TGG - tig0021410:108984-109003 Msa1391250:CDS 65.0%
GCTGCCTCCCGTAGGAGTCT+GGG - tig0021410:108985-109004 Msa1391250:CDS 65.0%
AAGGCCCAGACTCCTACGGG+AGG + tig0021410:108992-109011 None:intergenic 65.0%
ATCAGACGCGAGCCCCTCCT+TGG - tig0021410:109096-109115 Msa1391250:CDS 65.0%
TCAGACGCGAGCCCCTCCTT+GGG - tig0021410:109097-109116 Msa1391250:CDS 65.0%
GGAGGAATCCGCCCAAGGAG+GGG + tig0021410:109111-109130 None:intergenic 65.0%
GTTGTTCCCCTCCCAAGGGC+AGG - tig0021410:109174-109193 Msa1391250:CDS 65.0%
GTTACTCACCCGTCCGCCAC+TGG - tig0021410:109206-109225 Msa1391250:CDS 65.0%
GACGGAGCAATGCCGCGTGG+AGG + tig0021410:108933-108952 None:intergenic 70.0%
CCTGACGGAGCAATGCCGCG+TGG + tig0021410:108936-108955 None:intergenic 70.0%
CCACGCGGCATTGCTCCGTC+AGG - tig0021410:108933-108952 Msa1391250:CDS 70.0%
TCCCCACTGCTGCCTCCCGT+AGG - tig0021410:108977-108996 Msa1391250:CDS 70.0%
GACGCGAGCCCCTCCTTGGG+CGG - tig0021410:109100-109119 Msa1391250:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0021410 gene 108748 109283 108748 ID=Msa1391250;Name=Msa1391250
tig0021410 mRNA 108748 109283 108748 ID=Msa1391250-mRNA-1;Parent=Msa1391250;Name=Msa1391250-mRNA-1;_AED=0.42;_eAED=0.44;_QI=0|0|0|1|0|0|3|0|173
tig0021410 exon 109146 109283 109146 ID=Msa1391250-mRNA-1:exon:12579;Parent=Msa1391250-mRNA-1
tig0021410 exon 109037 109132 109037 ID=Msa1391250-mRNA-1:exon:12578;Parent=Msa1391250-mRNA-1
tig0021410 exon 108748 109032 108748 ID=Msa1391250-mRNA-1:exon:12577;Parent=Msa1391250-mRNA-1
tig0021410 CDS 109146 109283 109146 ID=Msa1391250-mRNA-1:cds;Parent=Msa1391250-mRNA-1
tig0021410 CDS 109037 109132 109037 ID=Msa1391250-mRNA-1:cds;Parent=Msa1391250-mRNA-1
tig0021410 CDS 108748 109032 108748 ID=Msa1391250-mRNA-1:cds;Parent=Msa1391250-mRNA-1
Gene Sequence

>Msa1391250

CTGGGATTTGACGGCGAACTTAAAAAGCCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCCCAGATACCGTCATTGAAAAGAAGTTCATGACCCGTAGGCCTTTTACCTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGAGTCTGGGCCTTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCACCGCCTTGGTAAGCTATTACCTCACCAACTAGCTAATCAGACGCGAGCCCCTCCTTGGGCGGATTCCTCCTTTCGCTCCTCAGCTTACGGGGTATTAGCAGCCGTTTCCAGCTGTTGTTCCCCTCCCAAGGGCAGGTTCTTACGCGTTACTCACCCGTCCGCCACTGGAAACACCACTTCCCGTTCGACTTGCATGTGTAAAGCATGCCGCCAGCGTTCATCC

Protein sequence

>Msa1391250

LGFDGELKKPPTDALRPIIPDNACILCLTAAAGTELADAYSPDTVIEKKFMTRRPFTSTRHCSVRLSPIAENSPLLPPESGPCLSPSVADHPLGPATDHRLGKLLPHQLANQTRAPPWADSSFRSSAYGVLAAVSSCCSPPKGRFLRVTHPSATGNTTSRSTCMCKACRQRSS