AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1385400


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 tig0020748:+98915 Msa1385400:intron
GAAGAAACAATGACGGTATC+TGG 0.223499 tig0020748:-98802 None:intergenic
CGCTTTACGCCCAATCATTC+CGG 0.287091 tig0020748:+98717 Msa1385400:CDS
CAATGCCGCGTGGAGGTAAA+AGG 0.308793 tig0020748:-98854 None:intergenic
TCCTTTCGCTCCTCAGCTTA+CGG 0.318574 tig0020748:+99059 Msa1385400:CDS
ATCAGACGCGAGCCCCTCCT+TGG 0.323688 tig0020748:+99027 Msa1385400:CDS
CTCTGTCTTACCGCGGCTGC+TGG 0.335301 tig0020748:+98754 Msa1385400:CDS
CCTTTCGCTCCTCAGCTTAC+GGG 0.341229 tig0020748:+99060 Msa1385400:CDS
CAAGCGTTATCCGGAATGAT+TGG 0.365557 tig0020748:-98727 None:intergenic
CAGCTGTTGTTCCCCTCCCA+AGG 0.401225 tig0020748:+99100 Msa1385400:CDS
CAGAGGATGCAAGCGTTATC+CGG 0.442617 tig0020748:-98736 None:intergenic
GGTTGAGCCCTGGGATTTGA+CGG 0.443812 tig0020748:+98670 None:intergenic
CTTGGGAGGGGAACAACAGC+TGG 0.448224 tig0020748:-99099 None:intergenic
CTCGCGTCTGATTAGCTAGT+TGG 0.450357 tig0020748:-99016 None:intergenic
GTTGTTCCCCTCCCAAGGGC+AGG 0.453286 tig0020748:+99105 Msa1385400:CDS
TCAGACGCGAGCCCCTCCTT+GGG 0.455699 tig0020748:+99028 Msa1385400:CDS
GCTGCCTCCCGTAGGAGTCT+GGG 0.465822 tig0020748:+98916 Msa1385400:intron
TAAGTTCGCCGTCAAATCCC+AGG 0.467544 tig0020748:-98678 None:intergenic
TAAGAACCTGCCCTTGGGAG+GGG 0.474163 tig0020748:-99111 None:intergenic
CTCCTACGGGAGGCAGCAGT+GGG 0.476121 tig0020748:-98910 None:intergenic
AGGGGAACAACAGCTGGAAA+CGG 0.479232 tig0020748:-99093 None:intergenic
TTTACACATGCAAGTCGAAC+GGG 0.480570 tig0020748:-99171 None:intergenic
CCACGCGGCATTGCTCCGTC+AGG 0.484232 tig0020748:+98864 Msa1385400:CDS
ACTCCTACGGGAGGCAGCAG+TGG 0.491996 tig0020748:-98911 None:intergenic
AAGAAACAATGACGGTATCT+GGG 0.492143 tig0020748:-98801 None:intergenic
AACGCGTAAGAACCTGCCCT+TGG 0.497667 tig0020748:-99117 None:intergenic
AGGAGGAATCCGCCCAAGGA+GGG 0.502243 tig0020748:-99040 None:intergenic
TGGTGTTTCCAGTGGCGGAC+GGG 0.506464 tig0020748:-99145 None:intergenic
AAGCGTTATCCGGAATGATT+GGG 0.511219 tig0020748:-98726 None:intergenic
CATGCAAGTCGAACGGGAAG+TGG 0.511388 tig0020748:-99165 None:intergenic
GTTACTCACCCGTCCGCCAC+TGG 0.515654 tig0020748:+99137 Msa1385400:CDS
GTGGTGTTTCCAGTGGCGGA+CGG 0.521309 tig0020748:-99146 None:intergenic
ACGCGTAAGAACCTGCCCTT+GGG 0.530469 tig0020748:-99116 None:intergenic
AGCTGTTGTTCCCCTCCCAA+GGG 0.533909 tig0020748:+99101 Msa1385400:CDS
CGCAATGGGCGAAAGCCTGA+CGG 0.536266 tig0020748:-98879 None:intergenic
CCAAGGCGGTGATCAGTAGC+TGG 0.540351 tig0020748:-98978 None:intergenic
TAACTCTGTGCCAGCAGCCG+CGG 0.544469 tig0020748:-98764 None:intergenic
CGTAAGAACCTGCCCTTGGG+AGG 0.550231 tig0020748:-99113 None:intergenic
CCCGTAAGCTGAGGAGCGAA+AGG 0.554829 tig0020748:-99060 None:intergenic
GAGAGGATGATCAGCCACAC+TGG 0.556699 tig0020748:-98952 None:intergenic
GTAAGAACCTGCCCTTGGGA+GGG 0.557080 tig0020748:-99112 None:intergenic
GCGTGGAGGTAAAAGGCCTA+CGG 0.560249 tig0020748:-98847 None:intergenic
GGAGGAATCCGCCCAAGGAG+GGG 0.562553 tig0020748:-99039 None:intergenic
AAGTTCGCCGTCAAATCCCA+GGG 0.564420 tig0020748:-98677 None:intergenic
CGTGGAGGTAAAAGGCCTAC+GGG 0.570032 tig0020748:-98846 None:intergenic
GACGCGAGCCCCTCCTTGGG+CGG 0.572606 tig0020748:+99031 Msa1385400:CDS
CTTTCGCTCCTCAGCTTACG+GGG 0.577687 tig0020748:+99061 Msa1385400:CDS
CCAGCTACTGATCACCGCCT+TGG 0.578071 tig0020748:+98978 Msa1385400:CDS
CGTCAGGCTTTCGCCCATTG+CGG 0.587223 tig0020748:+98880 Msa1385400:CDS
GGGCGTAAAGCGTCTGTAGG+TGG 0.587281 tig0020748:-98706 None:intergenic
AGTGTGGCTGATCATCCTCT+CGG 0.593369 tig0020748:+98954 Msa1385400:CDS
CGAAAGGAGGAATCCGCCCA+AGG 0.596152 tig0020748:-99044 None:intergenic
CTTTACACATGCAAGTCGAA+CGG 0.597034 tig0020748:-99172 None:intergenic
TCCTGGCTCAGGATGAACGC+TGG 0.603603 tig0020748:-99202 None:intergenic
AGAGGATGATCAGCCACACT+GGG 0.612353 tig0020748:-98951 None:intergenic
TGCTAATACCCCGTAAGCTG+AGG 0.615470 tig0020748:-99069 None:intergenic
GGTATCTGGGGAATAAGCAT+CGG 0.620214 tig0020748:-98788 None:intergenic
ACGGGAAGTGGTGTTTCCAG+TGG 0.620953 tig0020748:-99153 None:intergenic
AAGGAGGAATCCGCCCAAGG+AGG 0.622334 tig0020748:-99041 None:intergenic
GGAAGTGGTGTTTCCAGTGG+CGG 0.627120 tig0020748:-99150 None:intergenic
TCCTGGAGAAGAAACAATGA+CGG 0.628601 tig0020748:-98809 None:intergenic
GCCACACTGGGACTGAGACA+AGG 0.629204 tig0020748:-98939 None:intergenic
ATTGGGCGTAAAGCGTCTGT+AGG 0.632255 tig0020748:-98709 None:intergenic
GACGGAGCAATGCCGCGTGG+AGG 0.640730 tig0020748:-98861 None:intergenic
GTCTGATTAGCTAGTTGGTG+AGG 0.641304 tig0020748:-99011 None:intergenic
CAGCAGCCGCGGTAAGACAG+AGG 0.650015 tig0020748:-98753 None:intergenic
TGGCTCAGGATGAACGCTGG+CGG 0.650788 tig0020748:-99199 None:intergenic
AAAAGAAGTTCATGACCCGT+AGG 0.653857 tig0020748:+98831 Msa1385400:CDS
GTAAGCTGAGGAGCGAAAGG+AGG 0.654589 tig0020748:-99057 None:intergenic
GCCTTGTCTCAGTCCCAGTG+TGG 0.654955 tig0020748:+98938 Msa1385400:CDS
AGAAACAATGACGGTATCTG+GGG 0.658343 tig0020748:-98800 None:intergenic
TGATCAGTAGCTGGTCCGAG+AGG 0.705254 tig0020748:-98969 None:intergenic
CCTGACGGAGCAATGCCGCG+TGG 0.711882 tig0020748:-98864 None:intergenic
GGTGAGGTAATAGCTTACCA+AGG 0.724474 tig0020748:-98995 None:intergenic
GAGGTAATAGCTTACCAAGG+CGG 0.748896 tig0020748:-98992 None:intergenic
TTGCATCCTCTGTCTTACCG+CGG 0.760348 tig0020748:+98747 Msa1385400:CDS
TCCTACGGGAGGCAGCAGTG+GGG 0.779333 tig0020748:-98909 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAACAATGACGGTATCT+GGG - tig0020748:98804-98823 None:intergenic 35.0%
AAGCGTTATCCGGAATGATT+GGG - tig0020748:98729-98748 None:intergenic 40.0%
AGAAACAATGACGGTATCTG+GGG - tig0020748:98803-98822 None:intergenic 40.0%
GAAGAAACAATGACGGTATC+TGG - tig0020748:98805-98824 None:intergenic 40.0%
TCCTGGAGAAGAAACAATGA+CGG - tig0020748:98812-98831 None:intergenic 40.0%
AAAAGAAGTTCATGACCCGT+AGG + tig0020748:98831-98850 Msa1385400:CDS 40.0%
TTTACACATGCAAGTCGAAC+GGG - tig0020748:99174-99193 None:intergenic 40.0%
CTTTACACATGCAAGTCGAA+CGG - tig0020748:99175-99194 None:intergenic 40.0%
CAAGCGTTATCCGGAATGAT+TGG - tig0020748:98730-98749 None:intergenic 45.0%
GGTATCTGGGGAATAAGCAT+CGG - tig0020748:98791-98810 None:intergenic 45.0%
! ACCGTCATTGTTTCTTCTCC+AGG + tig0020748:98808-98827 Msa1385400:intron 45.0%
! GGGTCATGAACTTCTTTTCC+TGG - tig0020748:98829-98848 None:intergenic 45.0%
! AGTGGGGAATTTTCCGCAAT+GGG - tig0020748:98896-98915 None:intergenic 45.0%
GAGGTAATAGCTTACCAAGG+CGG - tig0020748:98995-99014 None:intergenic 45.0%
GGTGAGGTAATAGCTTACCA+AGG - tig0020748:98998-99017 None:intergenic 45.0%
! GTCTGATTAGCTAGTTGGTG+AGG - tig0020748:99014-99033 None:intergenic 45.0%
! ATTGGGCGTAAAGCGTCTGT+AGG - tig0020748:98712-98731 None:intergenic 50.0%
CGCTTTACGCCCAATCATTC+CGG + tig0020748:98717-98736 Msa1385400:CDS 50.0%
CAGAGGATGCAAGCGTTATC+CGG - tig0020748:98739-98758 None:intergenic 50.0%
TTGCATCCTCTGTCTTACCG+CGG + tig0020748:98747-98766 Msa1385400:CDS 50.0%
! CAGTGGGGAATTTTCCGCAA+TGG - tig0020748:98897-98916 None:intergenic 50.0%
AGAGGATGATCAGCCACACT+GGG - tig0020748:98954-98973 None:intergenic 50.0%
AGTGTGGCTGATCATCCTCT+CGG + tig0020748:98954-98973 Msa1385400:CDS 50.0%
! CTCGCGTCTGATTAGCTAGT+TGG - tig0020748:99019-99038 None:intergenic 50.0%
TCCTTTCGCTCCTCAGCTTA+CGG + tig0020748:99059-99078 Msa1385400:CDS 50.0%
TGCTAATACCCCGTAAGCTG+AGG - tig0020748:99072-99091 None:intergenic 50.0%
AGGGGAACAACAGCTGGAAA+CGG - tig0020748:99096-99115 None:intergenic 50.0%
CGTGGAGGTAAAAGGCCTAC+GGG - tig0020748:98849-98868 None:intergenic 55.0%
GCGTGGAGGTAAAAGGCCTA+CGG - tig0020748:98850-98869 None:intergenic 55.0%
! GTAGGCCTTTTACCTCCACG+CGG + tig0020748:98849-98868 Msa1385400:CDS 55.0%
CAATGCCGCGTGGAGGTAAA+AGG - tig0020748:98857-98876 None:intergenic 55.0%
AGACAAGGCCCAGACTCCTA+CGG - tig0020748:98927-98946 None:intergenic 55.0%
GAGAGGATGATCAGCCACAC+TGG - tig0020748:98955-98974 None:intergenic 55.0%
TGATCAGTAGCTGGTCCGAG+AGG - tig0020748:98972-98991 None:intergenic 55.0%
GTAAGCTGAGGAGCGAAAGG+AGG - tig0020748:99060-99079 None:intergenic 55.0%
CCTTTCGCTCCTCAGCTTAC+GGG + tig0020748:99060-99079 Msa1385400:CDS 55.0%
CTTTCGCTCCTCAGCTTACG+GGG + tig0020748:99061-99080 Msa1385400:CDS 55.0%
AGCTGTTGTTCCCCTCCCAA+GGG + tig0020748:99101-99120 Msa1385400:CDS 55.0%
TAAGAACCTGCCCTTGGGAG+GGG - tig0020748:99114-99133 None:intergenic 55.0%
GTAAGAACCTGCCCTTGGGA+GGG - tig0020748:99115-99134 None:intergenic 55.0%
ACGCGTAAGAACCTGCCCTT+GGG - tig0020748:99119-99138 None:intergenic 55.0%
AACGCGTAAGAACCTGCCCT+TGG - tig0020748:99120-99139 None:intergenic 55.0%
GGAAGTGGTGTTTCCAGTGG+CGG - tig0020748:99153-99172 None:intergenic 55.0%
ACGGGAAGTGGTGTTTCCAG+TGG - tig0020748:99156-99175 None:intergenic 55.0%
CATGCAAGTCGAACGGGAAG+TGG - tig0020748:99168-99187 None:intergenic 55.0%
! GGGCGTAAAGCGTCTGTAGG+TGG - tig0020748:98709-98728 None:intergenic 60.0%
TAACTCTGTGCCAGCAGCCG+CGG - tig0020748:98767-98786 None:intergenic 60.0%
CGCAATGGGCGAAAGCCTGA+CGG - tig0020748:98882-98901 None:intergenic 60.0%
CGTCAGGCTTTCGCCCATTG+CGG + tig0020748:98880-98899 Msa1385400:CDS 60.0%
GACAAGGCCCAGACTCCTAC+GGG - tig0020748:98926-98945 None:intergenic 60.0%
GCCTTGTCTCAGTCCCAGTG+TGG + tig0020748:98938-98957 Msa1385400:CDS 60.0%
GCCACACTGGGACTGAGACA+AGG - tig0020748:98942-98961 None:intergenic 60.0%
CCAAGGCGGTGATCAGTAGC+TGG - tig0020748:98981-99000 None:intergenic 60.0%
CCAGCTACTGATCACCGCCT+TGG + tig0020748:98978-98997 Msa1385400:CDS 60.0%
AGGAGGAATCCGCCCAAGGA+GGG - tig0020748:99043-99062 None:intergenic 60.0%
AAGGAGGAATCCGCCCAAGG+AGG - tig0020748:99044-99063 None:intergenic 60.0%
CGAAAGGAGGAATCCGCCCA+AGG - tig0020748:99047-99066 None:intergenic 60.0%
CCCGTAAGCTGAGGAGCGAA+AGG - tig0020748:99063-99082 None:intergenic 60.0%
CTTGGGAGGGGAACAACAGC+TGG - tig0020748:99102-99121 None:intergenic 60.0%
CAGCTGTTGTTCCCCTCCCA+AGG + tig0020748:99100-99119 Msa1385400:CDS 60.0%
CGTAAGAACCTGCCCTTGGG+AGG - tig0020748:99116-99135 None:intergenic 60.0%
!! TGGTGTTTCCAGTGGCGGAC+GGG - tig0020748:99148-99167 None:intergenic 60.0%
! GTGGTGTTTCCAGTGGCGGA+CGG - tig0020748:99149-99168 None:intergenic 60.0%
CAGCAGCCGCGGTAAGACAG+AGG - tig0020748:98756-98775 None:intergenic 65.0%
CTCTGTCTTACCGCGGCTGC+TGG + tig0020748:98754-98773 Msa1385400:CDS 65.0%
TCCTACGGGAGGCAGCAGTG+GGG - tig0020748:98912-98931 None:intergenic 65.0%
CTCCTACGGGAGGCAGCAGT+GGG - tig0020748:98913-98932 None:intergenic 65.0%
ACTCCTACGGGAGGCAGCAG+TGG - tig0020748:98914-98933 None:intergenic 65.0%
TGCTGCCTCCCGTAGGAGTC+TGG + tig0020748:98915-98934 Msa1385400:intron 65.0%
GCTGCCTCCCGTAGGAGTCT+GGG + tig0020748:98916-98935 Msa1385400:intron 65.0%
AAGGCCCAGACTCCTACGGG+AGG - tig0020748:98923-98942 None:intergenic 65.0%
ATCAGACGCGAGCCCCTCCT+TGG + tig0020748:99027-99046 Msa1385400:CDS 65.0%
TCAGACGCGAGCCCCTCCTT+GGG + tig0020748:99028-99047 Msa1385400:CDS 65.0%
GGAGGAATCCGCCCAAGGAG+GGG - tig0020748:99042-99061 None:intergenic 65.0%
GTTGTTCCCCTCCCAAGGGC+AGG + tig0020748:99105-99124 Msa1385400:CDS 65.0%
GTTACTCACCCGTCCGCCAC+TGG + tig0020748:99137-99156 Msa1385400:CDS 65.0%
GACGGAGCAATGCCGCGTGG+AGG - tig0020748:98864-98883 None:intergenic 70.0%
CCTGACGGAGCAATGCCGCG+TGG - tig0020748:98867-98886 None:intergenic 70.0%
CCACGCGGCATTGCTCCGTC+AGG + tig0020748:98864-98883 Msa1385400:CDS 70.0%
TCCCCACTGCTGCCTCCCGT+AGG + tig0020748:98908-98927 Msa1385400:intron 70.0%
GACGCGAGCCCCTCCTTGGG+CGG + tig0020748:99031-99050 Msa1385400:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0020748 gene 98679 99214 98679 ID=Msa1385400;Name=Msa1385400
tig0020748 mRNA 98679 99214 98679 ID=Msa1385400-mRNA-1;Parent=Msa1385400;Name=Msa1385400-mRNA-1;_AED=0.42;_eAED=0.44;_QI=0|0|0|1|0|0|3|0|173
tig0020748 exon 98679 98816 98679 ID=Msa1385400-mRNA-1:exon:9571;Parent=Msa1385400-mRNA-1
tig0020748 exon 98830 98925 98830 ID=Msa1385400-mRNA-1:exon:9572;Parent=Msa1385400-mRNA-1
tig0020748 exon 98930 99214 98930 ID=Msa1385400-mRNA-1:exon:9573;Parent=Msa1385400-mRNA-1
tig0020748 CDS 98679 98816 98679 ID=Msa1385400-mRNA-1:cds;Parent=Msa1385400-mRNA-1
tig0020748 CDS 98830 98925 98830 ID=Msa1385400-mRNA-1:cds;Parent=Msa1385400-mRNA-1
tig0020748 CDS 98930 99214 98930 ID=Msa1385400-mRNA-1:cds;Parent=Msa1385400-mRNA-1
Gene Sequence

>Msa1385400

CTGGGATTTGACGGCGAACTTAAAAAGCCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCCCAGATACCGTCATTGAAAAGAAGTTCATGACCCGTAGGCCTTTTACCTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGAGTCTGGGCCTTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCACCGCCTTGGTAAGCTATTACCTCACCAACTAGCTAATCAGACGCGAGCCCCTCCTTGGGCGGATTCCTCCTTTCGCTCCTCAGCTTACGGGGTATTAGCAGCCGTTTCCAGCTGTTGTTCCCCTCCCAAGGGCAGGTTCTTACGCGTTACTCACCCGTCCGCCACTGGAAACACCACTTCCCGTTCGACTTGCATGTGTAAAGCATGCCGCCAGCGTTCATCC

Protein sequence

>Msa1385400

LGFDGELKKPPTDALRPIIPDNACILCLTAAAGTELADAYSPDTVIEKKFMTRRPFTSTRHCSVRLSPIAENSPLLPPESGPCLSPSVADHPLGPATDHRLGKLLPHQLANQTRAPPWADSSFRSSAYGVLAAVSSCCSPPKGRFLRVTHPSATGNTTSRSTCMCKACRQRSS