AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1354970


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 tig0014543:+661873 Msa1354970:intron
GAAGAAACAATGACGGTATC+TGG 0.223499 tig0014543:-661760 None:intergenic
CGCTTTACGCCCAATCATTC+CGG 0.287091 tig0014543:+661675 Msa1354970:CDS
CAATGCCGCGTGGAGGTAAA+AGG 0.308793 tig0014543:-661812 None:intergenic
TCCTTTCGCTCCTCAGCTTA+CGG 0.318574 tig0014543:+662017 Msa1354970:CDS
ATCAGACGCGAGCCCCTCCT+TGG 0.323688 tig0014543:+661985 Msa1354970:CDS
CTCTGTCTTACCGCGGCTGC+TGG 0.335301 tig0014543:+661712 Msa1354970:CDS
CCTTTCGCTCCTCAGCTTAC+GGG 0.341229 tig0014543:+662018 Msa1354970:CDS
CAAGCGTTATCCGGAATGAT+TGG 0.365557 tig0014543:-661685 None:intergenic
CAGCTGTTGTTCCCCTCCCA+AGG 0.401225 tig0014543:+662058 Msa1354970:CDS
CAGAGGATGCAAGCGTTATC+CGG 0.442617 tig0014543:-661694 None:intergenic
GGTTGAGCCCTGGGATTTGA+CGG 0.443812 tig0014543:+661628 None:intergenic
CTTGGGAGGGGAACAACAGC+TGG 0.448224 tig0014543:-662057 None:intergenic
CTCGCGTCTGATTAGCTAGT+TGG 0.450357 tig0014543:-661974 None:intergenic
GTTGTTCCCCTCCCAAGGGC+AGG 0.453286 tig0014543:+662063 Msa1354970:CDS
TCAGACGCGAGCCCCTCCTT+GGG 0.455699 tig0014543:+661986 Msa1354970:CDS
GCTGCCTCCCGTAGGAGTCT+GGG 0.465822 tig0014543:+661874 Msa1354970:intron
TAAGTTCGCCGTCAAATCCC+AGG 0.467544 tig0014543:-661636 None:intergenic
TAAGAACCTGCCCTTGGGAG+GGG 0.474163 tig0014543:-662069 None:intergenic
CTCCTACGGGAGGCAGCAGT+GGG 0.476121 tig0014543:-661868 None:intergenic
AGGGGAACAACAGCTGGAAA+CGG 0.479232 tig0014543:-662051 None:intergenic
TTTACACATGCAAGTCGAAC+GGG 0.480570 tig0014543:-662129 None:intergenic
CCACGCGGCATTGCTCCGTC+AGG 0.484232 tig0014543:+661822 Msa1354970:CDS
ACTCCTACGGGAGGCAGCAG+TGG 0.491996 tig0014543:-661869 None:intergenic
AAGAAACAATGACGGTATCT+GGG 0.492143 tig0014543:-661759 None:intergenic
AACGCGTAAGAACCTGCCCT+TGG 0.497667 tig0014543:-662075 None:intergenic
AGGAGGAATCCGCCCAAGGA+GGG 0.502243 tig0014543:-661998 None:intergenic
TGGTGTTTCCAGTGGCGGAC+GGG 0.506464 tig0014543:-662103 None:intergenic
AAGCGTTATCCGGAATGATT+GGG 0.511219 tig0014543:-661684 None:intergenic
CATGCAAGTCGAACGGGAAG+TGG 0.511388 tig0014543:-662123 None:intergenic
GTTACTCACCCGTCCGCCAC+TGG 0.515654 tig0014543:+662095 Msa1354970:CDS
GTGGTGTTTCCAGTGGCGGA+CGG 0.521309 tig0014543:-662104 None:intergenic
ACGCGTAAGAACCTGCCCTT+GGG 0.530469 tig0014543:-662074 None:intergenic
AGCTGTTGTTCCCCTCCCAA+GGG 0.533909 tig0014543:+662059 Msa1354970:CDS
CGCAATGGGCGAAAGCCTGA+CGG 0.536266 tig0014543:-661837 None:intergenic
CCAAGGCGGTGATCAGTAGC+TGG 0.540351 tig0014543:-661936 None:intergenic
TAACTCTGTGCCAGCAGCCG+CGG 0.544469 tig0014543:-661722 None:intergenic
CGTAAGAACCTGCCCTTGGG+AGG 0.550231 tig0014543:-662071 None:intergenic
CCCGTAAGCTGAGGAGCGAA+AGG 0.554829 tig0014543:-662018 None:intergenic
GAGAGGATGATCAGCCACAC+TGG 0.556699 tig0014543:-661910 None:intergenic
GTAAGAACCTGCCCTTGGGA+GGG 0.557080 tig0014543:-662070 None:intergenic
GCGTGGAGGTAAAAGGCCTA+CGG 0.560249 tig0014543:-661805 None:intergenic
GGAGGAATCCGCCCAAGGAG+GGG 0.562553 tig0014543:-661997 None:intergenic
AAGTTCGCCGTCAAATCCCA+GGG 0.564420 tig0014543:-661635 None:intergenic
CGTGGAGGTAAAAGGCCTAC+GGG 0.570032 tig0014543:-661804 None:intergenic
GACGCGAGCCCCTCCTTGGG+CGG 0.572606 tig0014543:+661989 Msa1354970:CDS
CTTTCGCTCCTCAGCTTACG+GGG 0.577687 tig0014543:+662019 Msa1354970:CDS
CCAGCTACTGATCACCGCCT+TGG 0.578071 tig0014543:+661936 Msa1354970:CDS
CGTCAGGCTTTCGCCCATTG+CGG 0.587223 tig0014543:+661838 Msa1354970:CDS
GGGCGTAAAGCGTCTGTAGG+TGG 0.587281 tig0014543:-661664 None:intergenic
AGTGTGGCTGATCATCCTCT+CGG 0.593369 tig0014543:+661912 Msa1354970:CDS
CGAAAGGAGGAATCCGCCCA+AGG 0.596152 tig0014543:-662002 None:intergenic
CTTTACACATGCAAGTCGAA+CGG 0.597034 tig0014543:-662130 None:intergenic
TCCTGGCTCAGGATGAACGC+TGG 0.603603 tig0014543:-662160 None:intergenic
AGAGGATGATCAGCCACACT+GGG 0.612353 tig0014543:-661909 None:intergenic
TGCTAATACCCCGTAAGCTG+AGG 0.615470 tig0014543:-662027 None:intergenic
GGTATCTGGGGAATAAGCAT+CGG 0.620214 tig0014543:-661746 None:intergenic
ACGGGAAGTGGTGTTTCCAG+TGG 0.620953 tig0014543:-662111 None:intergenic
AAGGAGGAATCCGCCCAAGG+AGG 0.622334 tig0014543:-661999 None:intergenic
GGAAGTGGTGTTTCCAGTGG+CGG 0.627120 tig0014543:-662108 None:intergenic
TCCTGGAGAAGAAACAATGA+CGG 0.628601 tig0014543:-661767 None:intergenic
GCCACACTGGGACTGAGACA+AGG 0.629204 tig0014543:-661897 None:intergenic
ATTGGGCGTAAAGCGTCTGT+AGG 0.632255 tig0014543:-661667 None:intergenic
GACGGAGCAATGCCGCGTGG+AGG 0.640730 tig0014543:-661819 None:intergenic
GTCTGATTAGCTAGTTGGTG+AGG 0.641304 tig0014543:-661969 None:intergenic
CAGCAGCCGCGGTAAGACAG+AGG 0.650015 tig0014543:-661711 None:intergenic
TGGCTCAGGATGAACGCTGG+CGG 0.650788 tig0014543:-662157 None:intergenic
AAAAGAAGTTCATGACCCGT+AGG 0.653857 tig0014543:+661789 Msa1354970:CDS
GTAAGCTGAGGAGCGAAAGG+AGG 0.654589 tig0014543:-662015 None:intergenic
GCCTTGTCTCAGTCCCAGTG+TGG 0.654955 tig0014543:+661896 Msa1354970:CDS
AGAAACAATGACGGTATCTG+GGG 0.658343 tig0014543:-661758 None:intergenic
TGATCAGTAGCTGGTCCGAG+AGG 0.705254 tig0014543:-661927 None:intergenic
CCTGACGGAGCAATGCCGCG+TGG 0.711882 tig0014543:-661822 None:intergenic
GGTGAGGTAATAGCTTACCA+AGG 0.724474 tig0014543:-661953 None:intergenic
GAGGTAATAGCTTACCAAGG+CGG 0.748896 tig0014543:-661950 None:intergenic
TTGCATCCTCTGTCTTACCG+CGG 0.760348 tig0014543:+661705 Msa1354970:CDS
TCCTACGGGAGGCAGCAGTG+GGG 0.779333 tig0014543:-661867 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAACAATGACGGTATCT+GGG - tig0014543:661762-661781 None:intergenic 35.0%
AAGCGTTATCCGGAATGATT+GGG - tig0014543:661687-661706 None:intergenic 40.0%
AGAAACAATGACGGTATCTG+GGG - tig0014543:661761-661780 None:intergenic 40.0%
GAAGAAACAATGACGGTATC+TGG - tig0014543:661763-661782 None:intergenic 40.0%
TCCTGGAGAAGAAACAATGA+CGG - tig0014543:661770-661789 None:intergenic 40.0%
AAAAGAAGTTCATGACCCGT+AGG + tig0014543:661789-661808 Msa1354970:CDS 40.0%
TTTACACATGCAAGTCGAAC+GGG - tig0014543:662132-662151 None:intergenic 40.0%
CTTTACACATGCAAGTCGAA+CGG - tig0014543:662133-662152 None:intergenic 40.0%
CAAGCGTTATCCGGAATGAT+TGG - tig0014543:661688-661707 None:intergenic 45.0%
GGTATCTGGGGAATAAGCAT+CGG - tig0014543:661749-661768 None:intergenic 45.0%
! ACCGTCATTGTTTCTTCTCC+AGG + tig0014543:661766-661785 Msa1354970:intron 45.0%
! GGGTCATGAACTTCTTTTCC+TGG - tig0014543:661787-661806 None:intergenic 45.0%
! AGTGGGGAATTTTCCGCAAT+GGG - tig0014543:661854-661873 None:intergenic 45.0%
GAGGTAATAGCTTACCAAGG+CGG - tig0014543:661953-661972 None:intergenic 45.0%
GGTGAGGTAATAGCTTACCA+AGG - tig0014543:661956-661975 None:intergenic 45.0%
! GTCTGATTAGCTAGTTGGTG+AGG - tig0014543:661972-661991 None:intergenic 45.0%
! ATTGGGCGTAAAGCGTCTGT+AGG - tig0014543:661670-661689 None:intergenic 50.0%
CGCTTTACGCCCAATCATTC+CGG + tig0014543:661675-661694 Msa1354970:CDS 50.0%
CAGAGGATGCAAGCGTTATC+CGG - tig0014543:661697-661716 None:intergenic 50.0%
TTGCATCCTCTGTCTTACCG+CGG + tig0014543:661705-661724 Msa1354970:CDS 50.0%
! CAGTGGGGAATTTTCCGCAA+TGG - tig0014543:661855-661874 None:intergenic 50.0%
AGAGGATGATCAGCCACACT+GGG - tig0014543:661912-661931 None:intergenic 50.0%
AGTGTGGCTGATCATCCTCT+CGG + tig0014543:661912-661931 Msa1354970:CDS 50.0%
! CTCGCGTCTGATTAGCTAGT+TGG - tig0014543:661977-661996 None:intergenic 50.0%
TCCTTTCGCTCCTCAGCTTA+CGG + tig0014543:662017-662036 Msa1354970:CDS 50.0%
TGCTAATACCCCGTAAGCTG+AGG - tig0014543:662030-662049 None:intergenic 50.0%
AGGGGAACAACAGCTGGAAA+CGG - tig0014543:662054-662073 None:intergenic 50.0%
CGTGGAGGTAAAAGGCCTAC+GGG - tig0014543:661807-661826 None:intergenic 55.0%
GCGTGGAGGTAAAAGGCCTA+CGG - tig0014543:661808-661827 None:intergenic 55.0%
! GTAGGCCTTTTACCTCCACG+CGG + tig0014543:661807-661826 Msa1354970:CDS 55.0%
CAATGCCGCGTGGAGGTAAA+AGG - tig0014543:661815-661834 None:intergenic 55.0%
AGACAAGGCCCAGACTCCTA+CGG - tig0014543:661885-661904 None:intergenic 55.0%
GAGAGGATGATCAGCCACAC+TGG - tig0014543:661913-661932 None:intergenic 55.0%
TGATCAGTAGCTGGTCCGAG+AGG - tig0014543:661930-661949 None:intergenic 55.0%
GTAAGCTGAGGAGCGAAAGG+AGG - tig0014543:662018-662037 None:intergenic 55.0%
CCTTTCGCTCCTCAGCTTAC+GGG + tig0014543:662018-662037 Msa1354970:CDS 55.0%
CTTTCGCTCCTCAGCTTACG+GGG + tig0014543:662019-662038 Msa1354970:CDS 55.0%
AGCTGTTGTTCCCCTCCCAA+GGG + tig0014543:662059-662078 Msa1354970:CDS 55.0%
TAAGAACCTGCCCTTGGGAG+GGG - tig0014543:662072-662091 None:intergenic 55.0%
GTAAGAACCTGCCCTTGGGA+GGG - tig0014543:662073-662092 None:intergenic 55.0%
ACGCGTAAGAACCTGCCCTT+GGG - tig0014543:662077-662096 None:intergenic 55.0%
AACGCGTAAGAACCTGCCCT+TGG - tig0014543:662078-662097 None:intergenic 55.0%
GGAAGTGGTGTTTCCAGTGG+CGG - tig0014543:662111-662130 None:intergenic 55.0%
ACGGGAAGTGGTGTTTCCAG+TGG - tig0014543:662114-662133 None:intergenic 55.0%
CATGCAAGTCGAACGGGAAG+TGG - tig0014543:662126-662145 None:intergenic 55.0%
! GGGCGTAAAGCGTCTGTAGG+TGG - tig0014543:661667-661686 None:intergenic 60.0%
TAACTCTGTGCCAGCAGCCG+CGG - tig0014543:661725-661744 None:intergenic 60.0%
CGCAATGGGCGAAAGCCTGA+CGG - tig0014543:661840-661859 None:intergenic 60.0%
CGTCAGGCTTTCGCCCATTG+CGG + tig0014543:661838-661857 Msa1354970:CDS 60.0%
GACAAGGCCCAGACTCCTAC+GGG - tig0014543:661884-661903 None:intergenic 60.0%
GCCTTGTCTCAGTCCCAGTG+TGG + tig0014543:661896-661915 Msa1354970:CDS 60.0%
GCCACACTGGGACTGAGACA+AGG - tig0014543:661900-661919 None:intergenic 60.0%
CCAAGGCGGTGATCAGTAGC+TGG - tig0014543:661939-661958 None:intergenic 60.0%
CCAGCTACTGATCACCGCCT+TGG + tig0014543:661936-661955 Msa1354970:CDS 60.0%
AGGAGGAATCCGCCCAAGGA+GGG - tig0014543:662001-662020 None:intergenic 60.0%
AAGGAGGAATCCGCCCAAGG+AGG - tig0014543:662002-662021 None:intergenic 60.0%
CGAAAGGAGGAATCCGCCCA+AGG - tig0014543:662005-662024 None:intergenic 60.0%
CCCGTAAGCTGAGGAGCGAA+AGG - tig0014543:662021-662040 None:intergenic 60.0%
CTTGGGAGGGGAACAACAGC+TGG - tig0014543:662060-662079 None:intergenic 60.0%
CAGCTGTTGTTCCCCTCCCA+AGG + tig0014543:662058-662077 Msa1354970:CDS 60.0%
CGTAAGAACCTGCCCTTGGG+AGG - tig0014543:662074-662093 None:intergenic 60.0%
!! TGGTGTTTCCAGTGGCGGAC+GGG - tig0014543:662106-662125 None:intergenic 60.0%
! GTGGTGTTTCCAGTGGCGGA+CGG - tig0014543:662107-662126 None:intergenic 60.0%
CAGCAGCCGCGGTAAGACAG+AGG - tig0014543:661714-661733 None:intergenic 65.0%
CTCTGTCTTACCGCGGCTGC+TGG + tig0014543:661712-661731 Msa1354970:CDS 65.0%
TCCTACGGGAGGCAGCAGTG+GGG - tig0014543:661870-661889 None:intergenic 65.0%
CTCCTACGGGAGGCAGCAGT+GGG - tig0014543:661871-661890 None:intergenic 65.0%
ACTCCTACGGGAGGCAGCAG+TGG - tig0014543:661872-661891 None:intergenic 65.0%
TGCTGCCTCCCGTAGGAGTC+TGG + tig0014543:661873-661892 Msa1354970:intron 65.0%
GCTGCCTCCCGTAGGAGTCT+GGG + tig0014543:661874-661893 Msa1354970:intron 65.0%
AAGGCCCAGACTCCTACGGG+AGG - tig0014543:661881-661900 None:intergenic 65.0%
ATCAGACGCGAGCCCCTCCT+TGG + tig0014543:661985-662004 Msa1354970:CDS 65.0%
TCAGACGCGAGCCCCTCCTT+GGG + tig0014543:661986-662005 Msa1354970:CDS 65.0%
GGAGGAATCCGCCCAAGGAG+GGG - tig0014543:662000-662019 None:intergenic 65.0%
GTTGTTCCCCTCCCAAGGGC+AGG + tig0014543:662063-662082 Msa1354970:CDS 65.0%
GTTACTCACCCGTCCGCCAC+TGG + tig0014543:662095-662114 Msa1354970:CDS 65.0%
GACGGAGCAATGCCGCGTGG+AGG - tig0014543:661822-661841 None:intergenic 70.0%
CCTGACGGAGCAATGCCGCG+TGG - tig0014543:661825-661844 None:intergenic 70.0%
CCACGCGGCATTGCTCCGTC+AGG + tig0014543:661822-661841 Msa1354970:CDS 70.0%
TCCCCACTGCTGCCTCCCGT+AGG + tig0014543:661866-661885 Msa1354970:intron 70.0%
GACGCGAGCCCCTCCTTGGG+CGG + tig0014543:661989-662008 Msa1354970:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0014543 gene 661637 662172 661637 ID=Msa1354970;Name=Msa1354970
tig0014543 mRNA 661637 662172 661637 ID=Msa1354970-mRNA-1;Parent=Msa1354970;Name=Msa1354970-mRNA-1;_AED=0.42;_eAED=0.44;_QI=0|0|0|1|0|0|3|0|173
tig0014543 exon 661637 661774 661637 ID=Msa1354970-mRNA-1:exon:9310;Parent=Msa1354970-mRNA-1
tig0014543 exon 661788 661883 661788 ID=Msa1354970-mRNA-1:exon:9311;Parent=Msa1354970-mRNA-1
tig0014543 exon 661888 662172 661888 ID=Msa1354970-mRNA-1:exon:9312;Parent=Msa1354970-mRNA-1
tig0014543 CDS 661637 661774 661637 ID=Msa1354970-mRNA-1:cds;Parent=Msa1354970-mRNA-1
tig0014543 CDS 661788 661883 661788 ID=Msa1354970-mRNA-1:cds;Parent=Msa1354970-mRNA-1
tig0014543 CDS 661888 662172 661888 ID=Msa1354970-mRNA-1:cds;Parent=Msa1354970-mRNA-1
Gene Sequence

>Msa1354970

CTGGGATTTGACGGCGAACTTAAAAAGCCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCCCAGATACCGTCATTGAAAAGAAGTTCATGACCCGTAGGCCTTTTACCTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGAGTCTGGGCCTTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCACCGCCTTGGTAAGCTATTACCTCACCAACTAGCTAATCAGACGCGAGCCCCTCCTTGGGCGGATTCCTCCTTTCGCTCCTCAGCTTACGGGGTATTAGCAGCCGTTTCCAGCTGTTGTTCCCCTCCCAAGGGCAGGTTCTTACGCGTTACTCACCCGTCCGCCACTGGAAACACCACTTCCCGTTCGACTTGCATGTGTAAAGCATGCCGCCAGCGTTCATCC

Protein sequence

>Msa1354970

LGFDGELKKPPTDALRPIIPDNACILCLTAAAGTELADAYSPDTVIEKKFMTRRPFTSTRHCSVRLSPIAENSPLLPPESGPCLSPSVADHPLGPATDHRLGKLLPHQLANQTRAPPWADSSFRSSAYGVLAAVSSCCSPPKGRFLRVTHPSATGNTTSRSTCMCKACRQRSS