AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95784

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95784.t1 MTR_1g103420 95.122 205 3 1 1 205 20 217 4.24e-130 365
MS.gene95784.t1 MTR_5g006940 59.512 205 71 5 1 205 20 212 5.20e-63 194
MS.gene95784.t1 MTR_1g071720 49.624 133 62 5 8 137 27 157 1.29e-31 114
MS.gene95784.t1 MTR_1g071720 56.190 105 42 4 8 109 27 130 1.68e-31 113
MS.gene95784.t1 MTR_7g095250 48.544 103 46 3 18 113 2 104 7.93e-23 90.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95784.t1 AT1G05450 60.993 141 48 3 7 147 27 160 2.21e-46 152
MS.gene95784.t1 AT3G22620 47.692 195 80 6 13 205 29 203 2.09e-41 139
MS.gene95784.t1 AT2G48140 50.331 151 63 6 1 140 15 164 5.15e-35 123
MS.gene95784.t1 AT2G48140 57.009 107 44 2 1 106 15 120 2.56e-34 119

Find 67 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTCTCTTCACACCTTGTA+TGG 0.248146 1.1:+74255883 MS.gene95784:CDS
AATCCATGCCACTACTTGTT+AGG 0.277189 1.1:-74255973 None:intergenic
AAGAGAGTGCTTATTGTAGA+AGG 0.288971 1.1:-74255869 None:intergenic
ATAGCTAAGGTTCTATTGAT+TGG 0.350447 1.1:-74256037 None:intergenic
CTTACAGGTAGTAGTGCTAA+TGG 0.358055 1.1:+74255911 MS.gene95784:CDS
GGAGATGAAGTTGGTGAAGC+TGG 0.379930 1.1:-74256720 None:intergenic
GTCATTAATATTGTCATGGC+TGG 0.381229 1.1:+74255812 None:intergenic
CCATCGCCCTCGGTGAATTC+CGG 0.383644 1.1:+74256786 MS.gene95784:CDS
CTTCCAGTTGTCGATGTAGA+TGG 0.386358 1.1:-74256813 None:intergenic
TACTGTTCTATTGATTGCAC+TGG 0.398561 1.1:+74256890 MS.gene95784:CDS
TGCTAATAACCTTGAGGACT+AGG 0.423773 1.1:-74256574 None:intergenic
CTTATTGTAGAAGGGTTACA+TGG 0.446986 1.1:-74255860 None:intergenic
TCACCTGCATCTTCTCCCTC+AGG 0.449806 1.1:+74256538 MS.gene95784:CDS
ATCCATGCCACTACTTGTTA+GGG 0.450316 1.1:-74255972 None:intergenic
TGGGGTGTTGATTTGTGCAT+TGG 0.461296 1.1:-74255840 None:intergenic
TGAGACATTGTAAGATGTAA+TGG 0.469321 1.1:-74256865 None:intergenic
GCTAATAACCTTGAGGACTA+GGG 0.472496 1.1:-74256573 None:intergenic
TTTGACTCCGCCATCGCCCT+CGG 0.482556 1.1:+74256776 MS.gene95784:CDS
TTCACCAACTTCATCTCCTC+TGG 0.485231 1.1:+74256725 MS.gene95784:CDS
CCTCGTGCTTGTAACATGCC+TGG 0.487865 1.1:+74256067 MS.gene95784:CDS
ATTCCATCTACATCGACAAC+TGG 0.490256 1.1:+74256810 MS.gene95784:CDS
GCTTCACCACTTCCTGCTCC+TGG 0.495227 1.1:+74256235 MS.gene95784:CDS
GAGATGAAGTTGGTGAAGCT+GGG 0.504474 1.1:-74256719 None:intergenic
GCATTACCAGGAGCAGGAAG+TGG 0.522233 1.1:-74256241 None:intergenic
AGAGAGTGCTTATTGTAGAA+GGG 0.525567 1.1:-74255868 None:intergenic
AATCCTGAGGGAGAAGATGC+AGG 0.533311 1.1:-74256541 None:intergenic
AGCAGGAAGTGGTGAAGCTG+AGG 0.535400 1.1:-74256230 None:intergenic
CCGGAATTCACCGAGGGCGA+TGG 0.539092 1.1:-74256786 None:intergenic
ATTCCAACCCCTAGTCCTCA+AGG 0.540237 1.1:+74256565 MS.gene95784:CDS
ACTCTCTTCACACCTTGTAT+GGG 0.540459 1.1:+74255884 MS.gene95784:CDS
AATTTGGCATTACCAGGAGC+AGG 0.546347 1.1:-74256247 None:intergenic
TTCACAGGTCCTGTGGCTCT+AGG 0.546401 1.1:+74256505 MS.gene95784:intron
TAACCTTGAGGACTAGGGGT+TGG 0.546635 1.1:-74256568 None:intergenic
ATGTATATTCACAGGTCCTG+TGG 0.548141 1.1:+74256498 MS.gene95784:intron
ATCCCTAACAAGTAGTGGCA+TGG 0.551127 1.1:+74255970 MS.gene95784:CDS
CTTAAATCCCTAACAAGTAG+TGG 0.551269 1.1:+74255965 MS.gene95784:CDS
TGTCGATGTAGATGGAATAC+CGG 0.553646 1.1:-74256805 None:intergenic
TGAGATGGTCCTAGAGCCAC+AGG 0.556902 1.1:-74256514 None:intergenic
ACTGTTCTATTGATTGCACT+GGG 0.566423 1.1:+74256891 MS.gene95784:CDS
CCTGTAAGAAAACCCATACA+AGG 0.567820 1.1:-74255896 None:intergenic
GGAACATTTGTGTCTTGTTG+TGG 0.568188 1.1:-74256750 None:intergenic
TAAGATGTAATGGCAGATGA+TGG 0.568483 1.1:-74256855 None:intergenic
TTGCATTGAACTGGAACACC+AGG 0.568933 1.1:-74256085 None:intergenic
GGCGATGGCGGAGTCAAAAG+AGG 0.572662 1.1:-74256771 None:intergenic
AAGAGCACCGCAACATTCAG+TGG 0.581316 1.1:-74255945 None:intergenic
AGGGAACACTAGCAGTTACA+AGG 0.586483 1.1:-74256006 None:intergenic
AGTGCAATCAATAGAACAGT+AGG 0.586789 1.1:-74256888 None:intergenic
GTGTCTTGTTGTGGTGCCAG+AGG 0.590812 1.1:-74256741 None:intergenic
GCACCGCAACATTCAGTGGT+TGG 0.593515 1.1:-74255941 None:intergenic
TCTACATCGACAACTGGAAG+CGG 0.603015 1.1:+74256816 MS.gene95784:CDS
GAAGATGCAGGTGAATGAGA+TGG 0.607870 1.1:-74256529 None:intergenic
GAATTCACCGAGGGCGATGG+CGG 0.615597 1.1:-74256783 None:intergenic
GGTGTTCCAGTTCAATGCAA+AGG 0.630148 1.1:+74256088 MS.gene95784:CDS
CCAGGCATGTTACAAGCACG+AGG 0.631598 1.1:-74256067 None:intergenic
ACGAGGGAGAGAGATAGCTA+AGG 0.635982 1.1:-74256050 None:intergenic
CTAATAACCTTGAGGACTAG+GGG 0.642081 1.1:-74256572 None:intergenic
TCACCAACCACTGAATGTTG+CGG 0.642405 1.1:+74255938 MS.gene95784:CDS
TTATTGTAGAAGGGTTACAT+GGG 0.644859 1.1:-74255859 None:intergenic
GCAACATTCAGTGGTTGGTG+AGG 0.651267 1.1:-74255936 None:intergenic
GGGGTTGGAATAAATCCTGA+GGG 0.662198 1.1:-74256553 None:intergenic
AGGGGTTGGAATAAATCCTG+AGG 0.672890 1.1:-74256554 None:intergenic
GGTGCCAGAGGAGATGAAGT+TGG 0.674504 1.1:-74256729 None:intergenic
GGAATACCGGAATTCACCGA+GGG 0.686162 1.1:-74256792 None:intergenic
TATTGTAGAAGGGTTACATG+GGG 0.692481 1.1:-74255858 None:intergenic
TGGTGAAGCTGGGATGTCAG+AGG 0.694095 1.1:-74256709 None:intergenic
TGGAATACCGGAATTCACCG+AGG 0.697163 1.1:-74256793 None:intergenic
CAGGCATGTTACAAGCACGA+GGG 0.748196 1.1:-74256066 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTATTGAAATTGAAATT+TGG - chr1.1:74256266-74256285 None:intergenic 10.0%
!! CATTATTAAGATTAATTCAA+AGG - chr1.1:74256472-74256491 None:intergenic 15.0%
!!! GTTAGAAAATATTTTTGTTA+GGG - chr1.1:74256324-74256343 None:intergenic 15.0%
!!! TGTTAGAAAATATTTTTGTT+AGG - chr1.1:74256325-74256344 None:intergenic 15.0%
! TCAAAGAAAAATGTAAGAGT+TGG - chr1.1:74256682-74256701 None:intergenic 25.0%
! TCAAAGGAAAAATAGTTTAG+AGG - chr1.1:74256456-74256475 None:intergenic 25.0%
!! TTTTGTTAGGGATTATAGAA+GGG - chr1.1:74256312-74256331 None:intergenic 25.0%
!! TTTTTGTTAGGGATTATAGA+AGG - chr1.1:74256313-74256332 None:intergenic 25.0%
!!! CTATTGATTGGAATTTTGAA+GGG - chr1.1:74256028-74256047 None:intergenic 25.0%
!!! TCTATTGATTGGAATTTTGA+AGG - chr1.1:74256029-74256048 None:intergenic 25.0%
!!! TGATTTTGATGTATATTCAC+AGG + chr1.1:74256490-74256509 MS.gene95784:intron 25.0%
AATTGAAATTTGGCATTACC+AGG - chr1.1:74256256-74256275 None:intergenic 30.0%
ATAGCTAAGGTTCTATTGAT+TGG - chr1.1:74256040-74256059 None:intergenic 30.0%
CTATCATCTAGTAACATTGT+AGG + chr1.1:74256423-74256442 MS.gene95784:intron 30.0%
TGAGACATTGTAAGATGTAA+TGG - chr1.1:74256868-74256887 None:intergenic 30.0%
TTATTGTAGAAGGGTTACAT+GGG - chr1.1:74255862-74255881 None:intergenic 30.0%
! TTTTTACCTTTGCATTGAAC+TGG - chr1.1:74256097-74256116 None:intergenic 30.0%
AGTGCAATCAATAGAACAGT+AGG - chr1.1:74256891-74256910 None:intergenic 35.0%
CTTAAATCCCTAACAAGTAG+TGG + chr1.1:74255965-74255984 MS.gene95784:CDS 35.0%
CTTATTGTAGAAGGGTTACA+TGG - chr1.1:74255863-74255882 None:intergenic 35.0%
GTGTAATGCTAATAACCTTG+AGG - chr1.1:74256583-74256602 None:intergenic 35.0%
TAAGATGTAATGGCAGATGA+TGG - chr1.1:74256858-74256877 None:intergenic 35.0%
TATTGTAGAAGGGTTACATG+GGG - chr1.1:74255861-74255880 None:intergenic 35.0%
! ACTGTTCTATTGATTGCACT+GGG + chr1.1:74256891-74256910 MS.gene95784:CDS 35.0%
! TACTGTTCTATTGATTGCAC+TGG + chr1.1:74256890-74256909 MS.gene95784:CDS 35.0%
!! AAGAGAGTGCTTATTGTAGA+AGG - chr1.1:74255872-74255891 None:intergenic 35.0%
!! AGAGAGTGCTTATTGTAGAA+GGG - chr1.1:74255871-74255890 None:intergenic 35.0%
AATCCATGCCACTACTTGTT+AGG - chr1.1:74255976-74255995 None:intergenic 40.0%
ACTCTCTTCACACCTTGTAT+GGG + chr1.1:74255884-74255903 MS.gene95784:CDS 40.0%
ATGTATATTCACAGGTCCTG+TGG + chr1.1:74256498-74256517 MS.gene95784:intron 40.0%
ATTCCATCTACATCGACAAC+TGG + chr1.1:74256810-74256829 MS.gene95784:CDS 40.0%
CCTGTAAGAAAACCCATACA+AGG - chr1.1:74255899-74255918 None:intergenic 40.0%
CTAATAACCTTGAGGACTAG+GGG - chr1.1:74256575-74256594 None:intergenic 40.0%
CTTACAGGTAGTAGTGCTAA+TGG + chr1.1:74255911-74255930 MS.gene95784:CDS 40.0%
GCTAATAACCTTGAGGACTA+GGG - chr1.1:74256576-74256595 None:intergenic 40.0%
TGCTAATAACCTTGAGGACT+AGG - chr1.1:74256577-74256596 None:intergenic 40.0%
TGTCGATGTAGATGGAATAC+CGG - chr1.1:74256808-74256827 None:intergenic 40.0%
! ATCCATGCCACTACTTGTTA+GGG - chr1.1:74255975-74255994 None:intergenic 40.0%
! CCTTGTATGGGTTTTCTTAC+AGG + chr1.1:74255896-74255915 MS.gene95784:CDS 40.0%
! GGAACATTTGTGTCTTGTTG+TGG - chr1.1:74256753-74256772 None:intergenic 40.0%
AATTTGGCATTACCAGGAGC+AGG - chr1.1:74256250-74256269 None:intergenic 45.0%
AGGGAACACTAGCAGTTACA+AGG - chr1.1:74256009-74256028 None:intergenic 45.0%
AGGGGTTGGAATAAATCCTG+AGG - chr1.1:74256557-74256576 None:intergenic 45.0%
ATCCCTAACAAGTAGTGGCA+TGG + chr1.1:74255970-74255989 MS.gene95784:CDS 45.0%
CACTCTCTTCACACCTTGTA+TGG + chr1.1:74255883-74255902 MS.gene95784:CDS 45.0%
CTTCCAGTTGTCGATGTAGA+TGG - chr1.1:74256816-74256835 None:intergenic 45.0%
GAAGATGCAGGTGAATGAGA+TGG - chr1.1:74256532-74256551 None:intergenic 45.0%
GGGGTTGGAATAAATCCTGA+GGG - chr1.1:74256556-74256575 None:intergenic 45.0%
GGTGTTCCAGTTCAATGCAA+AGG + chr1.1:74256088-74256107 MS.gene95784:CDS 45.0%
TCACCAACCACTGAATGTTG+CGG + chr1.1:74255938-74255957 MS.gene95784:CDS 45.0%
TCTACATCGACAACTGGAAG+CGG + chr1.1:74256816-74256835 MS.gene95784:CDS 45.0%
TTCACCAACTTCATCTCCTC+TGG + chr1.1:74256725-74256744 MS.gene95784:CDS 45.0%
TTGCATTGAACTGGAACACC+AGG - chr1.1:74256088-74256107 None:intergenic 45.0%
!! GAGATGAAGTTGGTGAAGCT+GGG - chr1.1:74256722-74256741 None:intergenic 45.0%
!! TGGGGTGTTGATTTGTGCAT+TGG - chr1.1:74255843-74255862 None:intergenic 45.0%
AATCCTGAGGGAGAAGATGC+AGG - chr1.1:74256544-74256563 None:intergenic 50.0%
ACGAGGGAGAGAGATAGCTA+AGG - chr1.1:74256053-74256072 None:intergenic 50.0%
ATTCCAACCCCTAGTCCTCA+AGG + chr1.1:74256565-74256584 MS.gene95784:CDS 50.0%
CAGGCATGTTACAAGCACGA+GGG - chr1.1:74256069-74256088 None:intergenic 50.0%
GGAATACCGGAATTCACCGA+GGG - chr1.1:74256795-74256814 None:intergenic 50.0%
TAACCTTGAGGACTAGGGGT+TGG - chr1.1:74256571-74256590 None:intergenic 50.0%
TGGAATACCGGAATTCACCG+AGG - chr1.1:74256796-74256815 None:intergenic 50.0%
! GCAACATTCAGTGGTTGGTG+AGG - chr1.1:74255939-74255958 None:intergenic 50.0%
!! AAGAGCACCGCAACATTCAG+TGG - chr1.1:74255948-74255967 None:intergenic 50.0%
!! GGAGATGAAGTTGGTGAAGC+TGG - chr1.1:74256723-74256742 None:intergenic 50.0%
AGCAGGAAGTGGTGAAGCTG+AGG - chr1.1:74256233-74256252 None:intergenic 55.0%
CCAGGCATGTTACAAGCACG+AGG - chr1.1:74256070-74256089 None:intergenic 55.0%
CCTCGTGCTTGTAACATGCC+TGG + chr1.1:74256067-74256086 MS.gene95784:CDS 55.0%
GCACCGCAACATTCAGTGGT+TGG - chr1.1:74255944-74255963 None:intergenic 55.0%
GCATTACCAGGAGCAGGAAG+TGG - chr1.1:74256244-74256263 None:intergenic 55.0%
GGTGCCAGAGGAGATGAAGT+TGG - chr1.1:74256732-74256751 None:intergenic 55.0%
TCACCTGCATCTTCTCCCTC+AGG + chr1.1:74256538-74256557 MS.gene95784:CDS 55.0%
TGAGATGGTCCTAGAGCCAC+AGG - chr1.1:74256517-74256536 None:intergenic 55.0%
TGGTGAAGCTGGGATGTCAG+AGG - chr1.1:74256712-74256731 None:intergenic 55.0%
TTCACAGGTCCTGTGGCTCT+AGG + chr1.1:74256505-74256524 MS.gene95784:intron 55.0%
! GTGTCTTGTTGTGGTGCCAG+AGG - chr1.1:74256744-74256763 None:intergenic 55.0%
CCATCGCCCTCGGTGAATTC+CGG + chr1.1:74256786-74256805 MS.gene95784:CDS 60.0%
GAATTCACCGAGGGCGATGG+CGG - chr1.1:74256786-74256805 None:intergenic 60.0%
GCTTCACCACTTCCTGCTCC+TGG + chr1.1:74256235-74256254 MS.gene95784:CDS 60.0%
TTTGACTCCGCCATCGCCCT+CGG + chr1.1:74256776-74256795 MS.gene95784:CDS 60.0%
!! GGCGATGGCGGAGTCAAAAG+AGG - chr1.1:74256774-74256793 None:intergenic 60.0%
CCGGAATTCACCGAGGGCGA+TGG - chr1.1:74256789-74256808 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 74255827 74256938 74255827 ID=MS.gene95784
chr1.1 mRNA 74255827 74256938 74255827 ID=MS.gene95784.t1;Parent=MS.gene95784
chr1.1 exon 74255827 74256109 74255827 ID=MS.gene95784.t1.exon1;Parent=MS.gene95784.t1
chr1.1 CDS 74255827 74256109 74255827 ID=cds.MS.gene95784.t1;Parent=MS.gene95784.t1
chr1.1 exon 74256230 74256256 74256230 ID=MS.gene95784.t1.exon2;Parent=MS.gene95784.t1
chr1.1 CDS 74256230 74256256 74256230 ID=cds.MS.gene95784.t1;Parent=MS.gene95784.t1
chr1.1 exon 74256512 74256586 74256512 ID=MS.gene95784.t1.exon3;Parent=MS.gene95784.t1
chr1.1 CDS 74256512 74256586 74256512 ID=cds.MS.gene95784.t1;Parent=MS.gene95784.t1
chr1.1 exon 74256706 74256938 74256706 ID=MS.gene95784.t1.exon4;Parent=MS.gene95784.t1
chr1.1 CDS 74256706 74256938 74256706 ID=cds.MS.gene95784.t1;Parent=MS.gene95784.t1
Gene Sequence

>MS.gene95784

ATGGCTGGACAAGCCAATGCACAAATCAACACCCCATGTAACCCTTCTACAATAAGCACTCTCTTCACACCTTGTATGGGTTTTCTTACAGGTAGTAGTGCTAATGGCACCTCACCAACCACTGAATGTTGCGGTGCTCTTAAATCCCTAACAAGTAGTGGCATGGATTGTTTGTGTCTCCTTGTAACTGCTAGTGTTCCCTTCAAAATTCCAATCAATAGAACCTTAGCTATCTCTCTCCCTCGTGCTTGTAACATGCCTGGTGTTCCAGTTCAATGCAAAGGTAAAAAAAAACTACAATATTTTTCTTGTGTTTGTAACTTTGTAGAGTAAAATTTGTTATTCTCACTACAATAATAAAGCTAAGATGTTACTTTTTTTTTTTTTTTTTTTTACTTTGCAGCCTCAGCTTCACCACTTCCTGCTCCTGGTAATGCCAAATTTCAATTTCAATAATTTTTGTACACAAATTCTTACATAAACCCTTCTATAATCCCTAACAAAAATATTTTCTAACAAACTCTTCGCGACATGTGAATTTCATTTCTTTACTTAGAAATTGAGTCATGCTAAATAAGAAATGAAACTAGCATGATCTATCATCTAGTAACATTGTAGGTTTAATTCCTCTAAACTATTTTTCCTTTGAATTAATCTTAATAATGATTTTGATGTATATTCACAGGTCCTGTGGCTCTAGGACCATCTCATTCACCTGCATCTTCTCCCTCAGGATTTATTCCAACCCCTAGTCCTCAAGGTTATTAGCATTACACTATTCTATTACAATACAAGCTTATACAAGTTTAAACTTTTCATAGTGCTAAGAGCTTCTTAATGTGTTACTAACATCCAACTCTTACATTTTTCTTTGAGCAGCATCCTCTGACATCCCAGCTTCACCAACTTCATCTCCTCTGGCACCACAACAAGACACAAATGTTCCTCTTTTGACTCCGCCATCGCCCTCGGTGAATTCCGGTATTCCATCTACATCGACAACTGGAAGCGGTCGCTCTTCTCTGACTCCATCATCTGCCATTACATCTTACAATGTCTCACCTACTGTTCTATTGATTGCACTGGGATTTGTTGCTCTCAAATACTACTAG
Protein sequence

>MS.gene95784.t1

MAGQANAQINTPCNPSTISTLFTPCMGFLTGSSANGTSPTTECCGALKSLTSSGMDCLCLLVTASVPFKIPINRTLAISLPRACNMPGVPVQCKASASPLPAPGPVALGPSHSPASSPSGFIPTPSPQASSDIPASPTSSPLAPQQDTNVPLLTPPSPSVNSGIPSTSTTGSGRSSLTPSSAITSYNVSPTVLLIALGFVALKYY