AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1361430


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 81 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTTGGGTGGTGTGGGAAT+AGG 0.179418 tig0017497:+11858 Msa1361430:CDS
TCTGGTTCTGGTTCTGCTTC+AGG 0.203688 tig0017497:+11972 Msa1361430:CDS
GCCGGTGCAGGGTCTGGTTC+AGG 0.215595 tig0017497:+11936 Msa1361430:CDS
TCTGGTTCGGGTTCTGGTTC+TGG 0.216048 tig0017497:+11960 Msa1361430:CDS
TCAGGGTCTGGTTCGGGTTC+TGG 0.223414 tig0017497:+11954 Msa1361430:CDS
CATGCTGGGTCAGGGTCTTC+TGG 0.234545 tig0017497:+12110 Msa1361430:CDS
ACTTGGGTGGTGTGGGAATA+GGG 0.241823 tig0017497:+11859 Msa1361430:CDS
TCTCGTGCAGGGTCAGGGGC+TGG 0.277683 tig0017497:+12047 Msa1361430:CDS
GGTGGTGGTGGTGCTGGCTC+TGG 0.298903 tig0017497:+11912 Msa1361430:CDS
GCTGGCTCTGGTGCCGGTGC+AGG 0.301841 tig0017497:+11924 Msa1361430:CDS
GTCTGGTTCAGGGTCTGGTT+CGG 0.312395 tig0017497:+11947 Msa1361430:CDS
TCTGGTTCAGGGTCTGGTTC+GGG 0.325239 tig0017497:+11948 Msa1361430:CDS
GCAGGATCTCGTGCAGGGTC+AGG 0.327834 tig0017497:+12041 Msa1361430:CDS
GCAGGGTCTCATGCTGGGTC+AGG 0.339790 tig0017497:+12170 Msa1361430:CDS
ATAGGGTTGGGTGCTGGTCT+AGG 0.348841 tig0017497:+11876 Msa1361430:CDS
GCAGGGTCTGGTTCAGGGTC+TGG 0.350841 tig0017497:+11942 Msa1361430:CDS
GCAGGTTCTCATGCTGGGTC+AGG 0.351647 tig0017497:+12101 Msa1361430:CDS
TCTCATGCTGGGTCAGGGTC+TGG 0.360214 tig0017497:+12176 Msa1361430:CDS
TCTGGTTCTGCTTCAGGATC+GGG 0.360619 tig0017497:+11978 Msa1361430:CDS
GGATCGGGATCAGGGTCTTC+TGG 0.361785 tig0017497:+11993 Msa1361430:CDS
CTCGTGCAGGGTCAGGGGCT+GGG 0.364749 tig0017497:+12048 Msa1361430:CDS
GCAGGGTCAGGGGCTGGGTC+AGG 0.366905 tig0017497:+12053 Msa1361430:CDS
TCAGGGTCTGGTTCTGAAGC+TGG 0.377186 tig0017497:+12188 Msa1361430:CDS
TCATATGCAGGGTCTCATGC+TGG 0.384968 tig0017497:+12164 Msa1361430:CDS
TTCTGGTTCTGCTTCAGGAT+CGG 0.386989 tig0017497:+11977 Msa1361430:CDS
TCTGGTGCCGGTGCAGGGTC+TGG 0.387411 tig0017497:+11930 Msa1361430:CDS
AAAGGACCTTGGGTTGGACT+TGG 0.389761 tig0017497:+11842 Msa1361430:CDS
TTGGGTGCTGGTCTAGGACT+TGG 0.390919 tig0017497:+11882 Msa1361430:CDS
TCTGCTTCAGGATCGGGATC+AGG 0.391270 tig0017497:+11984 Msa1361430:CDS
GGGTCAGGGTCTTCTGGAGC+AGG 0.391858 tig0017497:+12116 Msa1361430:CDS
TGGGTTGGACTTGGGTGGTG+TGG 0.397876 tig0017497:+11851 Msa1361430:CDS
CTTGGACTTGGTGGTGGTGG+TGG 0.399016 tig0017497:+11900 Msa1361430:CDS
GGGTTGGACTTGGGTGGTGT+GGG 0.411811 tig0017497:+11852 Msa1361430:CDS
TCATATGCAGGTTCTCATGC+TGG 0.411964 tig0017497:+12095 Msa1361430:CDS
CCGGTGCAGGGTCTGGTTCA+GGG 0.417735 tig0017497:+11937 Msa1361430:CDS
CAGGATCTCGTGCAGGGTCA+GGG 0.422958 tig0017497:+12042 Msa1361430:CDS
GGGTGGTGTGGGAATAGGGT+TGG 0.424884 tig0017497:+11863 Msa1361430:CDS
GTGGGAATAGGGTTGGGTGC+TGG 0.428348 tig0017497:+11870 Msa1361430:CDS
TCTGAAGCTGGTTCATATGC+AGG 0.430821 tig0017497:+12200 Msa1361430:CDS
GGTGGTGCTGGCTCTGGTGC+CGG 0.433528 tig0017497:+11918 Msa1361430:CDS
GCTGGTCTAGGACTTGGACT+TGG 0.437253 tig0017497:+11888 Msa1361430:CDS
GGACTTGGACTTGGTGGTGG+TGG 0.442166 tig0017497:+11897 Msa1361430:CDS
CTGGCTCTGGTGCCGGTGCA+GGG 0.443610 tig0017497:+11925 Msa1361430:CDS
TCTGAAGCCGGTTCATATGC+AGG 0.445047 tig0017497:+12152 Msa1361430:CDS
GCAGGGTCCCATGCTGGATC+AGG 0.455555 tig0017497:+12218 Msa1361430:CDS
TCATATGCAGGGTCCCATGC+TGG 0.457998 tig0017497:+12212 Msa1361430:CDS
TCTCATGCAGGATCTCGTGC+AGG 0.458538 tig0017497:+12035 Msa1361430:CDS
CTAGGACTTGGACTTGGTGG+TGG 0.462464 tig0017497:+11894 Msa1361430:CDS
GGATCAGGGTCTTCTGGAGC+TGG 0.463140 tig0017497:+11999 Msa1361430:CDS
TCTGAAGCCGGTTCATATGC+AGG 0.467588 tig0017497:+12083 Msa1361430:CDS
TGAAAGTAGAGCAGCGAGAA+AGG 0.468232 tig0017497:+11824 Msa1361430:CDS
GGTGGTGTGGGAATAGGGTT+GGG 0.480105 tig0017497:+11864 Msa1361430:CDS
GAGCAGCGAGAAAGGACCTT+GGG 0.484360 tig0017497:+11832 Msa1361430:CDS
CAGGGTCTCATGCTGGGTCA+GGG 0.484638 tig0017497:+12171 Msa1361430:CDS
GGTCTAGGACTTGGACTTGG+TGG 0.486657 tig0017497:+11891 Msa1361430:CDS
TCTGGAGCTGGTTCTGAAGC+CGG 0.491049 tig0017497:+12011 Msa1361430:CDS
TCAGAAGCCGGTTCTGAAGC+CGG 0.491057 tig0017497:+12140 Msa1361430:CDS
AAGGACCTTGGGTTGGACTT+GGG 0.494177 tig0017497:+11843 Msa1361430:CDS
ATATGAACCGGCTTCAGAAC+CGG 0.494377 tig0017497:-12147 Msa1361430:intergenic
ATGAGAACCTGCATATGAAC+CGG 0.496137 tig0017497:-12090 Msa1361430:intergenic
ATGAGACCCTGCATATGAAC+CGG 0.496137 tig0017497:-12159 Msa1361430:intergenic
CAGGTTCTCATGCTGGGTCA+GGG 0.496495 tig0017497:+12102 Msa1361430:CDS
TCTGAAGCCGGCTCTCATGC+AGG 0.510342 tig0017497:+12023 Msa1361430:CDS
CATATGCAGGGTCTCATGCT+GGG 0.511139 tig0017497:+12165 Msa1361430:CDS
CTGCTTCAGGATCGGGATCA+GGG 0.517642 tig0017497:+11985 Msa1361430:CDS
CATATGCAGGTTCTCATGCT+GGG 0.520335 tig0017497:+12096 Msa1361430:CDS
TCTGGAGCAGGTTCAGAAGC+CGG 0.521004 tig0017497:+12128 Msa1361430:CDS
GACCTTGGGTTGGACTTGGG+TGG 0.531909 tig0017497:+11846 Msa1361430:CDS
TCCCATGCTGGATCAGGAAG+TGG 0.533422 tig0017497:+12224 Msa1361430:CDS
CCCTGAACCAGACCCTGCAC+CGG 0.544836 tig0017497:-11937 Msa1361430:intergenic
AGGATCTCGTGCAGGGTCAG+GGG 0.549900 tig0017497:+12043 Msa1361430:CDS
TTCCACTTCCTGATCCAGCA+TGG 0.553357 tig0017497:-12226 Msa1361430:intergenic
TCAGGAGCAGATTCTGAAGC+CGG 0.558363 tig0017497:+12071 Msa1361430:CDS
TCCACTTCCTGATCCAGCAT+GGG 0.559462 tig0017497:-12225 Msa1361430:intergenic
ACGAGATCCTGCATGAGAGC+CGG 0.567620 tig0017497:-12030 Msa1361430:intergenic
CTGAAGCTGGTTCATATGCA+GGG 0.570910 tig0017497:+12201 Msa1361430:CDS
AGAGCAGCGAGAAAGGACCT+TGG 0.580493 tig0017497:+11831 Msa1361430:CDS
AGCGAGAAAGGACCTTGGGT+TGG 0.600015 tig0017497:+11836 Msa1361430:CDS
CTGAAGCCGGTTCATATGCA+GGG 0.607921 tig0017497:+12153 Msa1361430:CDS
CTCATGCAGGATCTCGTGCA+GGG 0.622416 tig0017497:+12036 Msa1361430:CDS
CACCACCCAAGTCCAACCCA+AGG 0.633824 tig0017497:-11848 Msa1361420:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGAGAACCTGCATATGAAC+CGG - tig0017497:12093-12112 Msa1361430:intergenic 40.0%
TGAAAGTAGAGCAGCGAGAA+AGG + tig0017497:11824-11843 Msa1361430:CDS 45.0%
!! TTCTGGTTCTGCTTCAGGAT+CGG + tig0017497:11977-11996 Msa1361430:CDS 45.0%
TCATATGCAGGTTCTCATGC+TGG + tig0017497:12095-12114 Msa1361430:CDS 45.0%
CATATGCAGGTTCTCATGCT+GGG + tig0017497:12096-12115 Msa1361430:CDS 45.0%
! ATATGAACCGGCTTCAGAAC+CGG - tig0017497:12150-12169 Msa1361430:intergenic 45.0%
ATGAGACCCTGCATATGAAC+CGG - tig0017497:12162-12181 Msa1361430:intergenic 45.0%
! TCTGAAGCTGGTTCATATGC+AGG + tig0017497:12200-12219 Msa1361430:CDS 45.0%
! CTGAAGCTGGTTCATATGCA+GGG + tig0017497:12201-12220 Msa1361430:CDS 45.0%
!! AAAGGACCTTGGGTTGGACT+TGG + tig0017497:11842-11861 Msa1361430:CDS 50.0%
!! AAGGACCTTGGGTTGGACTT+GGG + tig0017497:11843-11862 Msa1361430:CDS 50.0%
ACTTGGGTGGTGTGGGAATA+GGG + tig0017497:11859-11878 Msa1361430:CDS 50.0%
!! TCTGGTTCTGGTTCTGCTTC+AGG + tig0017497:11972-11991 Msa1361430:CDS 50.0%
!! TCTGGTTCTGCTTCAGGATC+GGG + tig0017497:11978-11997 Msa1361430:CDS 50.0%
!! TCAGGAGCAGATTCTGAAGC+CGG + tig0017497:12071-12090 Msa1361430:CDS 50.0%
! TCTGAAGCCGGTTCATATGC+AGG + tig0017497:12083-12102 Msa1361430:CDS 50.0%
! TCTGAAGCCGGTTCATATGC+AGG + tig0017497:12083-12102 Msa1361430:CDS 50.0%
! CTGAAGCCGGTTCATATGCA+GGG + tig0017497:12084-12103 Msa1361430:CDS 50.0%
TCATATGCAGGGTCTCATGC+TGG + tig0017497:12164-12183 Msa1361430:CDS 50.0%
CATATGCAGGGTCTCATGCT+GGG + tig0017497:12165-12184 Msa1361430:CDS 50.0%
TCCACTTCCTGATCCAGCAT+GGG - tig0017497:12228-12247 Msa1361430:intergenic 50.0%
TTCCACTTCCTGATCCAGCA+TGG - tig0017497:12229-12248 Msa1361430:intergenic 50.0%
AGAGCAGCGAGAAAGGACCT+TGG + tig0017497:11831-11850 Msa1361430:CDS 55.0%
GAGCAGCGAGAAAGGACCTT+GGG + tig0017497:11832-11851 Msa1361430:CDS 55.0%
AGCGAGAAAGGACCTTGGGT+TGG + tig0017497:11836-11855 Msa1361430:CDS 55.0%
GACTTGGGTGGTGTGGGAAT+AGG + tig0017497:11858-11877 Msa1361430:CDS 55.0%
GGTGGTGTGGGAATAGGGTT+GGG + tig0017497:11864-11883 Msa1361430:CDS 55.0%
!! ATAGGGTTGGGTGCTGGTCT+AGG + tig0017497:11876-11895 Msa1361430:CDS 55.0%
!! TTGGGTGCTGGTCTAGGACT+TGG + tig0017497:11882-11901 Msa1361430:CDS 55.0%
! GCTGGTCTAGGACTTGGACT+TGG + tig0017497:11888-11907 Msa1361430:CDS 55.0%
! GGTCTAGGACTTGGACTTGG+TGG + tig0017497:11891-11910 Msa1361430:CDS 55.0%
!! CTAGGACTTGGACTTGGTGG+TGG + tig0017497:11894-11913 Msa1361430:CDS 55.0%
! GTCTGGTTCAGGGTCTGGTT+CGG + tig0017497:11947-11966 Msa1361430:CDS 55.0%
! TCTGGTTCAGGGTCTGGTTC+GGG + tig0017497:11948-11967 Msa1361430:CDS 55.0%
!! TCTGGTTCGGGTTCTGGTTC+TGG + tig0017497:11960-11979 Msa1361430:CDS 55.0%
TCTGCTTCAGGATCGGGATC+AGG + tig0017497:11984-12003 Msa1361430:CDS 55.0%
CTGCTTCAGGATCGGGATCA+GGG + tig0017497:11985-12004 Msa1361430:CDS 55.0%
!! TCTGGAGCTGGTTCTGAAGC+CGG + tig0017497:12011-12030 Msa1361430:CDS 55.0%
ACGAGATCCTGCATGAGAGC+CGG - tig0017497:12033-12052 Msa1361430:intergenic 55.0%
TCTCATGCAGGATCTCGTGC+AGG + tig0017497:12035-12054 Msa1361430:CDS 55.0%
CTCATGCAGGATCTCGTGCA+GGG + tig0017497:12036-12055 Msa1361430:CDS 55.0%
CAGGTTCTCATGCTGGGTCA+GGG + tig0017497:12102-12121 Msa1361430:CDS 55.0%
! TCTGGAGCAGGTTCAGAAGC+CGG + tig0017497:12128-12147 Msa1361430:CDS 55.0%
!! TCAGAAGCCGGTTCTGAAGC+CGG + tig0017497:12140-12159 Msa1361430:CDS 55.0%
!! TCAGGGTCTGGTTCTGAAGC+TGG + tig0017497:12188-12207 Msa1361430:CDS 55.0%
TCATATGCAGGGTCCCATGC+TGG + tig0017497:12212-12231 Msa1361430:CDS 55.0%
TCCCATGCTGGATCAGGAAG+TGG + tig0017497:12224-12243 Msa1361430:CDS 55.0%
!! GACCTTGGGTTGGACTTGGG+TGG + tig0017497:11846-11865 Msa1361430:CDS 60.0%
CACCACCCAAGTCCAACCCA+AGG - tig0017497:11851-11870 Msa1361430:intergenic 60.0%
! TGGGTTGGACTTGGGTGGTG+TGG + tig0017497:11851-11870 Msa1361430:CDS 60.0%
GGGTTGGACTTGGGTGGTGT+GGG + tig0017497:11852-11871 Msa1361430:CDS 60.0%
GGGTGGTGTGGGAATAGGGT+TGG + tig0017497:11863-11882 Msa1361430:CDS 60.0%
GTGGGAATAGGGTTGGGTGC+TGG + tig0017497:11870-11889 Msa1361430:CDS 60.0%
!! GGACTTGGACTTGGTGGTGG+TGG + tig0017497:11897-11916 Msa1361430:CDS 60.0%
!! CTTGGACTTGGTGGTGGTGG+TGG + tig0017497:11900-11919 Msa1361430:CDS 60.0%
!! TCAGGGTCTGGTTCGGGTTC+TGG + tig0017497:11954-11973 Msa1361430:CDS 60.0%
GGATCGGGATCAGGGTCTTC+TGG + tig0017497:11993-12012 Msa1361430:CDS 60.0%
!! GGATCAGGGTCTTCTGGAGC+TGG + tig0017497:11999-12018 Msa1361430:CDS 60.0%
! TCTGAAGCCGGCTCTCATGC+AGG + tig0017497:12023-12042 Msa1361430:CDS 60.0%
CAGGATCTCGTGCAGGGTCA+GGG + tig0017497:12042-12061 Msa1361430:CDS 60.0%
AGGATCTCGTGCAGGGTCAG+GGG + tig0017497:12043-12062 Msa1361430:CDS 60.0%
GCAGGTTCTCATGCTGGGTC+AGG + tig0017497:12101-12120 Msa1361430:CDS 60.0%
CATGCTGGGTCAGGGTCTTC+TGG + tig0017497:12110-12129 Msa1361430:CDS 60.0%
CAGGGTCTCATGCTGGGTCA+GGG + tig0017497:12171-12190 Msa1361430:CDS 60.0%
TCTCATGCTGGGTCAGGGTC+TGG + tig0017497:12107-12126 Msa1361430:CDS 60.0%
!! CTTGGTGGTGGTGGTGGTGC+TGG + tig0017497:11906-11925 Msa1361430:CDS 65.0%
CCCTGAACCAGACCCTGCAC+CGG - tig0017497:11940-11959 Msa1361430:intergenic 65.0%
! CCGGTGCAGGGTCTGGTTCA+GGG + tig0017497:11937-11956 Msa1361430:CDS 65.0%
! GCAGGGTCTGGTTCAGGGTC+TGG + tig0017497:11942-11961 Msa1361430:CDS 65.0%
GCAGGATCTCGTGCAGGGTC+AGG + tig0017497:12041-12060 Msa1361430:CDS 65.0%
!! GGGTCAGGGTCTTCTGGAGC+AGG + tig0017497:12116-12135 Msa1361430:CDS 65.0%
GCAGGGTCTCATGCTGGGTC+AGG + tig0017497:12170-12189 Msa1361430:CDS 65.0%
GCAGGGTCCCATGCTGGATC+AGG + tig0017497:12218-12237 Msa1361430:CDS 65.0%
!! GGTGGTGGTGGTGCTGGCTC+TGG + tig0017497:11912-11931 Msa1361430:CDS 70.0%
!! GGTGGTGCTGGCTCTGGTGC+CGG + tig0017497:11918-11937 Msa1361430:CDS 70.0%
!! CTGGCTCTGGTGCCGGTGCA+GGG + tig0017497:11925-11944 Msa1361430:CDS 70.0%
!! TCTGGTGCCGGTGCAGGGTC+TGG + tig0017497:11930-11949 Msa1361430:CDS 70.0%
! GCCGGTGCAGGGTCTGGTTC+AGG + tig0017497:11936-11955 Msa1361430:CDS 70.0%
TCTCGTGCAGGGTCAGGGGC+TGG + tig0017497:12047-12066 Msa1361430:CDS 70.0%
CTCGTGCAGGGTCAGGGGCT+GGG + tig0017497:12048-12067 Msa1361430:CDS 70.0%
!! GCTGGCTCTGGTGCCGGTGC+AGG + tig0017497:11924-11943 Msa1361430:CDS 75.0%
GCAGGGTCAGGGGCTGGGTC+AGG + tig0017497:12053-12072 Msa1361430:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0017497 gene 11762 12253 11762 ID=Msa1361430;Name=Msa1361430
tig0017497 mRNA 11762 12253 11762 ID=Msa1361430-mRNA-1;Parent=Msa1361430;Name=Msa1361430-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|163
tig0017497 exon 11762 12253 11762 ID=Msa1361430-mRNA-1:exon:12394;Parent=Msa1361430-mRNA-1
tig0017497 CDS 11762 12253 11762 ID=Msa1361430-mRNA-1:cds;Parent=Msa1361430-mRNA-1
Gene Sequence

>Msa1361430

ATGGCTTCAATGAAGATTTTAGTTGTTGTTTCTTTGCTTGTTGCAATTAATGCTATTGCATGTGAAAGTAGAGCAGCGAGAAAGGACCTTGGGTTGGACTTGGGTGGTGTGGGAATAGGGTTGGGTGCTGGTCTAGGACTTGGACTTGGTGGTGGTGGTGGTGCTGGCTCTGGTGCCGGTGCAGGGTCTGGTTCAGGGTCTGGTTCGGGTTCTGGTTCTGGTTCTGCTTCAGGATCGGGATCAGGGTCTTCTGGAGCTGGTTCTGAAGCCGGCTCTCATGCAGGATCTCGTGCAGGGTCAGGGGCTGGGTCAGGAGCAGATTCTGAAGCCGGTTCATATGCAGGTTCTCATGCTGGGTCAGGGTCTTCTGGAGCAGGTTCAGAAGCCGGTTCTGAAGCCGGTTCATATGCAGGGTCTCATGCTGGGTCAGGGTCTGGTTCTGAAGCTGGTTCATATGCAGGGTCCCATGCTGGATCAGGAAGTGGAAATTAA

Protein sequence

>Msa1361430

MASMKILVVVSLLVAINAIACESRAARKDLGLDLGGVGIGLGAGLGLGLGGGGGAGSGAGAGSGSGSGSGSGSGSASGSGSGSSGAGSEAGSHAGSRAGSGAGSGADSEAGSYAGSHAGSGSSGAGSEAGSEAGSYAGSHAGSGSGSEAGSYAGSHAGSGSGN*