AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32704


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32704.t1 MTR_3g105925 97.807 228 5 0 1 228 1 228 6.31e-165 454
MS.gene32704.t1 MTR_1g014130 40.351 171 66 4 1 169 1 137 4.69e-28 105
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32704.t1 AT5G25080 50.000 202 98 2 13 214 16 214 1.90e-69 212

Find 56 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTGCTGCTCAGGAGTTTC+TGG 0.118592 3.1:+83789955 MS.gene32704:CDS
TGGTAATAATGGCGGTATTA+AGG 0.185771 3.1:+83790003 MS.gene32704:CDS
GAGGAGGGTAGAAGTGATTT+TGG 0.247186 3.1:-83788998 None:intergenic
ACGCCTTCTAGATTTGAATA+AGG 0.277390 3.1:+83789298 MS.gene32704:CDS
CGCCTTCTAGATTTGAATAA+GGG 0.349424 3.1:+83789299 MS.gene32704:CDS
GGTAATAATGGCGGTATTAA+GGG 0.353390 3.1:+83790004 MS.gene32704:CDS
TTCTGTTCAAGCTGCTGCTC+AGG 0.368572 3.1:+83789946 MS.gene32704:CDS
GACTGAATCCATCACCGCTT+CGG 0.381291 3.1:-83788851 None:intergenic
GGAAGTTGGGAGAGAGTTTG+AGG 0.381337 3.1:-83788940 None:intergenic
AGAGTTTGAGGGTTCATAAG+AGG 0.391223 3.1:-83788928 None:intergenic
ACTGAATCCATCACCGCTTC+GGG 0.404917 3.1:-83788850 None:intergenic
GATTTGACAGGGTTATCATC+TGG 0.415518 3.1:-83789153 None:intergenic
TGAACGGAATTCACGAAGAT+TGG 0.426985 3.1:-83788887 None:intergenic
TACCCTTATTCAAATCTAGA+AGG 0.427243 3.1:-83789301 None:intergenic
TGAGAATTCAACATAGTAGA+AGG 0.433685 3.1:-83789660 None:intergenic
CACGTTCAAGAGGTGGAAGT+TGG 0.442376 3.1:-83788954 None:intergenic
TGGAGAGGAGAAAGAGAGAG+TGG 0.446758 3.1:-83788978 None:intergenic
TCTTTGCCTGACCTCACTCC+AGG 0.468606 3.1:+83789708 MS.gene32704:CDS
ATGATGATTACGTGTGAGGA+GGG 0.486690 3.1:-83789013 None:intergenic
TAGTTCAGAAATTCAGGTCA+TGG 0.488101 3.1:-83790107 None:intergenic
ACGTTCAAGAGGTGGAAGTT+GGG 0.491157 3.1:-83788953 None:intergenic
GCAGCTTGAACAGAAATAGA+TGG 0.491461 3.1:-83789938 None:intergenic
GGGAAAGAAGAGGAAACATC+AGG 0.491988 3.1:+83789874 MS.gene32704:CDS
CTCACAAGCTCTGATTTGAC+AGG 0.494155 3.1:-83789165 None:intergenic
GAAGTTGGGAGAGAGTTTGA+GGG 0.500143 3.1:-83788939 None:intergenic
AGGAGTACCCGAAGCGGTGA+TGG 0.509427 3.1:+83788843 MS.gene32704:CDS
AACCCACCTGGAGTGAGGTC+AGG 0.514003 3.1:-83789714 None:intergenic
AGGAGCAGGCTGGTCAAAAG+AGG 0.529385 3.1:+83789894 MS.gene32704:CDS
AGTGAAAGTGAAAGCTGTGG+AGG 0.534576 3.1:+83788823 MS.gene32704:CDS
GAAGAGGAAACATCAGGAGC+AGG 0.536755 3.1:+83789880 MS.gene32704:CDS
CAGAACAACGGCAGAGAATG+AGG 0.541135 3.1:+83789834 MS.gene32704:intron
GAGTGGGCACGTTCAAGAGG+TGG 0.552869 3.1:-83788961 None:intergenic
AGAGAGTGGGCACGTTCAAG+AGG 0.559812 3.1:-83788964 None:intergenic
GACATGTTGTCAATTTGAAG+TGG 0.576081 3.1:-83790028 None:intergenic
AGTTCAGAAATTCAGGTCAT+GGG 0.578175 3.1:-83790106 None:intergenic
TTCACGAAGATTGGAGAGAG+TGG 0.578299 3.1:-83788878 None:intergenic
GTAATAATGGCGGTATTAAG+GGG 0.582541 3.1:+83790005 MS.gene32704:CDS
AGGAAACATCAGGAGCAGGC+TGG 0.583685 3.1:+83789884 MS.gene32704:CDS
GTTTCTGGAGAAAGCACAGA+GGG 0.589967 3.1:+83789970 MS.gene32704:CDS
AAAACTGTTGAAAATGTGAA+CGG 0.603460 3.1:-83788903 None:intergenic
GGAGAGGAGAAAGAGAGAGT+GGG 0.607959 3.1:-83788977 None:intergenic
GACAATCTTTCAGAAGATGA+CGG 0.608692 3.1:+83790073 MS.gene32704:CDS
AGGAACTTAAGTAGCGGCGA+GGG 0.610045 3.1:+83789854 MS.gene32704:CDS
GCAGTGAAATTGAGGTGCAG+TGG 0.625638 3.1:+83789123 MS.gene32704:intron
GGAAGTGAAAGTGAAAGCTG+TGG 0.627299 3.1:+83788820 MS.gene32704:CDS
AACATAGTAGAAGGTCGCAA+TGG 0.635548 3.1:-83789651 None:intergenic
GAAGATGATGATTACGTGTG+AGG 0.647831 3.1:-83789017 None:intergenic
TTAACAACCCACCTGGAGTG+AGG 0.652502 3.1:-83789719 None:intergenic
GAGGAACTTAAGTAGCGGCG+AGG 0.667273 3.1:+83789853 MS.gene32704:CDS
GATGATGATTACGTGTGAGG+AGG 0.668929 3.1:-83789014 None:intergenic
TCACAAGCTCTGATTTGACA+GGG 0.674644 3.1:-83789164 None:intergenic
CTGTGGAGGAGTACCCGAAG+CGG 0.685892 3.1:+83788837 MS.gene32704:CDS
GTAGCGGCGAGGGAAAGAAG+AGG 0.690376 3.1:+83789864 MS.gene32704:CDS
TTATTTCATATGCAGAACAA+CGG 0.698855 3.1:+83789822 MS.gene32704:intron
AGAATGAGGAACTTAAGTAG+CGG 0.704922 3.1:+83789848 MS.gene32704:CDS
AGTTTCTGGAGAAAGCACAG+AGG 0.726155 3.1:+83789969 MS.gene32704:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTCTAAGCTAATAAAAAA+GGG - chr3.1:83789576-83789595 None:intergenic 20.0%
!! AAGTTCAAAATATAAGATGA+TGG + chr3.1:83789392-83789411 MS.gene32704:intron 20.0%
!! ATAGAACAAGAAAATTAAGT+TGG - chr3.1:83789084-83789103 None:intergenic 20.0%
! AAAACTGTTGAAAATGTGAA+CGG - chr3.1:83788906-83788925 None:intergenic 25.0%
! ACACTGATGATAATTTAAGA+AGG + chr3.1:83789485-83789504 MS.gene32704:intron 25.0%
! AGTCTAAGCTAATAAAAAAG+GGG - chr3.1:83789575-83789594 None:intergenic 25.0%
! CAAGTCTAAGCTAATAAAAA+AGG - chr3.1:83789577-83789596 None:intergenic 25.0%
! TTATTTCATATGCAGAACAA+CGG + chr3.1:83789822-83789841 MS.gene32704:intron 25.0%
!! ATGATAATTTAAGAAGGTGT+TGG + chr3.1:83789491-83789510 MS.gene32704:intron 25.0%
!!! AAGATGATGGATATTTGAAT+TGG + chr3.1:83789405-83789424 MS.gene32704:intron 25.0%
!!! ATTTTTTTGCAGTGAAATTG+AGG + chr3.1:83789115-83789134 MS.gene32704:intron 25.0%
!!! GATTTTTGTTGTGTATTTTC+AGG + chr3.1:83789244-83789263 MS.gene32704:intron 25.0%
!!! TGATAATTTAAGAAGGTGTT+GGG + chr3.1:83789492-83789511 MS.gene32704:intron 25.0%
AACTTGGTTTATTGCTTCTA+GGG + chr3.1:83789740-83789759 MS.gene32704:intron 30.0%
ACATGTTAACCTTCAATATG+AGG + chr3.1:83789529-83789548 MS.gene32704:intron 30.0%
ATTGCATGTATGTAAAGAAG+TGG + chr3.1:83789799-83789818 MS.gene32704:intron 30.0%
TAACTTGGTTTATTGCTTCT+AGG + chr3.1:83789739-83789758 MS.gene32704:intron 30.0%
TACATGCAATGTGATCAAAA+TGG - chr3.1:83789789-83789808 None:intergenic 30.0%
TACCCTTATTCAAATCTAGA+AGG - chr3.1:83789304-83789323 None:intergenic 30.0%
TGAGAATTCAACATAGTAGA+AGG - chr3.1:83789663-83789682 None:intergenic 30.0%
TTAGCTTAGACTTGTAGTAT+TGG + chr3.1:83789583-83789602 MS.gene32704:intron 30.0%
! TGATTGTGTTTTCGTGATTT+TGG + chr3.1:83789612-83789631 MS.gene32704:intron 30.0%
!! GAACTTTTTGGTGGTAATAA+TGG + chr3.1:83789992-83790011 MS.gene32704:CDS 30.0%
ACGCCTTCTAGATTTGAATA+AGG + chr3.1:83789298-83789317 MS.gene32704:CDS 35.0%
ACTTGGTTTATTGCTTCTAG+GGG + chr3.1:83789741-83789760 MS.gene32704:intron 35.0%
AGAATGAGGAACTTAAGTAG+CGG + chr3.1:83789848-83789867 MS.gene32704:CDS 35.0%
ATCAAACAGAGTAAGCAACA+AGG - chr3.1:83789227-83789246 None:intergenic 35.0%
CGCCTTCTAGATTTGAATAA+GGG + chr3.1:83789299-83789318 MS.gene32704:CDS 35.0%
GACAATCTTTCAGAAGATGA+CGG + chr3.1:83790073-83790092 MS.gene32704:CDS 35.0%
GACATGTTGTCAATTTGAAG+TGG - chr3.1:83790031-83790050 None:intergenic 35.0%
GGTAATAATGGCGGTATTAA+GGG + chr3.1:83790004-83790023 MS.gene32704:CDS 35.0%
GTAATAATGGCGGTATTAAG+GGG + chr3.1:83790005-83790024 MS.gene32704:CDS 35.0%
TAACCTTCAATATGAGGTGT+TGG + chr3.1:83789535-83789554 MS.gene32704:intron 35.0%
TCAAACAGAGTAAGCAACAA+GGG - chr3.1:83789226-83789245 None:intergenic 35.0%
TGGTAATAATGGCGGTATTA+AGG + chr3.1:83790003-83790022 MS.gene32704:CDS 35.0%
!! CTTTTTGGTGGTAATAATGG+CGG + chr3.1:83789995-83790014 MS.gene32704:CDS 35.0%
AACATAGTAGAAGGTCGCAA+TGG - chr3.1:83789654-83789673 None:intergenic 40.0%
AGAGTTTGAGGGTTCATAAG+AGG - chr3.1:83788931-83788950 None:intergenic 40.0%
ATCATCAGTGTCTATGTGTC+AGG - chr3.1:83789476-83789495 None:intergenic 40.0%
ATGATGATTACGTGTGAGGA+GGG - chr3.1:83789016-83789035 None:intergenic 40.0%
GAAGATGATGATTACGTGTG+AGG - chr3.1:83789020-83789039 None:intergenic 40.0%
GATTTGACAGGGTTATCATC+TGG - chr3.1:83789156-83789175 None:intergenic 40.0%
GCAGCTTGAACAGAAATAGA+TGG - chr3.1:83789941-83789960 None:intergenic 40.0%
TGAACGGAATTCACGAAGAT+TGG - chr3.1:83788890-83788909 None:intergenic 40.0%
! AAAGCACAGAGGGAACTTTT+TGG + chr3.1:83789980-83789999 MS.gene32704:CDS 40.0%
! TCACAAGCTCTGATTTGACA+GGG - chr3.1:83789167-83789186 None:intergenic 40.0%
AACCAAGTTAACAACCCACC+TGG - chr3.1:83789729-83789748 None:intergenic 45.0%
ACGTTCAAGAGGTGGAAGTT+GGG - chr3.1:83788956-83788975 None:intergenic 45.0%
AGTGAAAGTGAAAGCTGTGG+AGG + chr3.1:83788823-83788842 MS.gene32704:CDS 45.0%
CAGAGTAAGCAACAAGGGTT+AGG - chr3.1:83789221-83789240 None:intergenic 45.0%
GAAGTTGGGAGAGAGTTTGA+GGG - chr3.1:83788942-83788961 None:intergenic 45.0%
GATGATGATTACGTGTGAGG+AGG - chr3.1:83789017-83789036 None:intergenic 45.0%
GCACCAACACCTCATATTGA+AGG - chr3.1:83789541-83789560 None:intergenic 45.0%
GGAAGTGAAAGTGAAAGCTG+TGG + chr3.1:83788820-83788839 MS.gene32704:CDS 45.0%
GGGAAAGAAGAGGAAACATC+AGG + chr3.1:83789874-83789893 MS.gene32704:CDS 45.0%
TTCACGAAGATTGGAGAGAG+TGG - chr3.1:83788881-83788900 None:intergenic 45.0%
! AGTTTCTGGAGAAAGCACAG+AGG + chr3.1:83789969-83789988 MS.gene32704:CDS 45.0%
! CTCACAAGCTCTGATTTGAC+AGG - chr3.1:83789168-83789187 None:intergenic 45.0%
! GAGGAGGGTAGAAGTGATTT+TGG - chr3.1:83789001-83789020 None:intergenic 45.0%
! GTTTCTGGAGAAAGCACAGA+GGG + chr3.1:83789970-83789989 MS.gene32704:CDS 45.0%
! TGGTTTATTGCTTCTAGGGG+TGG + chr3.1:83789744-83789763 MS.gene32704:intron 45.0%
!! GGGTAGAAGTGATTTTGGAG+AGG - chr3.1:83788996-83789015 None:intergenic 45.0%
ACTGAATCCATCACCGCTTC+GGG - chr3.1:83788853-83788872 None:intergenic 50.0%
AGGAACTTAAGTAGCGGCGA+GGG + chr3.1:83789854-83789873 MS.gene32704:CDS 50.0%
CACGTTCAAGAGGTGGAAGT+TGG - chr3.1:83788957-83788976 None:intergenic 50.0%
CAGAACAACGGCAGAGAATG+AGG + chr3.1:83789834-83789853 MS.gene32704:intron 50.0%
GAAGAGGAAACATCAGGAGC+AGG + chr3.1:83789880-83789899 MS.gene32704:CDS 50.0%
GACTGAATCCATCACCGCTT+CGG - chr3.1:83788854-83788873 None:intergenic 50.0%
GCAGTGAAATTGAGGTGCAG+TGG + chr3.1:83789123-83789142 MS.gene32704:intron 50.0%
GGAAGTTGGGAGAGAGTTTG+AGG - chr3.1:83788943-83788962 None:intergenic 50.0%
GGAGAGGAGAAAGAGAGAGT+GGG - chr3.1:83788980-83788999 None:intergenic 50.0%
TGGAGAGGAGAAAGAGAGAG+TGG - chr3.1:83788981-83789000 None:intergenic 50.0%
TTAACAACCCACCTGGAGTG+AGG - chr3.1:83789722-83789741 None:intergenic 50.0%
TTCTGTTCAAGCTGCTGCTC+AGG + chr3.1:83789946-83789965 MS.gene32704:CDS 50.0%
! GCACAGAGGGAACTTTTTGG+TGG + chr3.1:83789983-83790002 MS.gene32704:CDS 50.0%
!! CTCCAGGTGGGTTGTTAACT+TGG + chr3.1:83789724-83789743 MS.gene32704:intron 50.0%
AGAGAGTGGGCACGTTCAAG+AGG - chr3.1:83788967-83788986 None:intergenic 55.0%
AGCTGCTGCTCAGGAGTTTC+TGG + chr3.1:83789955-83789974 MS.gene32704:CDS 55.0%
AGGAAACATCAGGAGCAGGC+TGG + chr3.1:83789884-83789903 MS.gene32704:CDS 55.0%
GAGGAACTTAAGTAGCGGCG+AGG + chr3.1:83789853-83789872 MS.gene32704:CDS 55.0%
TCTTTGCCTGACCTCACTCC+AGG + chr3.1:83789708-83789727 MS.gene32704:CDS 55.0%
! AGGAGCAGGCTGGTCAAAAG+AGG + chr3.1:83789894-83789913 MS.gene32704:CDS 55.0%
AACCCACCTGGAGTGAGGTC+AGG - chr3.1:83789717-83789736 None:intergenic 60.0%
GAGTGGGCACGTTCAAGAGG+TGG - chr3.1:83788964-83788983 None:intergenic 60.0%
GTAGCGGCGAGGGAAAGAAG+AGG + chr3.1:83789864-83789883 MS.gene32704:CDS 60.0%
TGCCTGACCTCACTCCAGGT+GGG + chr3.1:83789712-83789731 MS.gene32704:intron 60.0%
TTGCCTGACCTCACTCCAGG+TGG + chr3.1:83789711-83789730 MS.gene32704:intron 60.0%
!! AGGAGTACCCGAAGCGGTGA+TGG + chr3.1:83788843-83788862 MS.gene32704:CDS 60.0%
!! CTGTGGAGGAGTACCCGAAG+CGG + chr3.1:83788837-83788856 MS.gene32704:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 83788811 83790117 83788811 ID=MS.gene32704
chr3.1 mRNA 83788811 83790117 83788811 ID=MS.gene32704.t1;Parent=MS.gene32704
chr3.1 exon 83788811 83789024 83788811 ID=MS.gene32704.t1.exon1;Parent=MS.gene32704.t1
chr3.1 CDS 83788811 83789024 83788811 ID=cds.MS.gene32704.t1;Parent=MS.gene32704.t1
chr3.1 exon 83789127 83789182 83789127 ID=MS.gene32704.t1.exon2;Parent=MS.gene32704.t1
chr3.1 CDS 83789127 83789182 83789127 ID=cds.MS.gene32704.t1;Parent=MS.gene32704.t1
chr3.1 exon 83789266 83789320 83789266 ID=MS.gene32704.t1.exon3;Parent=MS.gene32704.t1
chr3.1 CDS 83789266 83789320 83789266 ID=cds.MS.gene32704.t1;Parent=MS.gene32704.t1
chr3.1 exon 83789649 83789729 83789649 ID=MS.gene32704.t1.exon4;Parent=MS.gene32704.t1
chr3.1 CDS 83789649 83789729 83789649 ID=cds.MS.gene32704.t1;Parent=MS.gene32704.t1
chr3.1 exon 83789837 83790117 83789837 ID=MS.gene32704.t1.exon5;Parent=MS.gene32704.t1
chr3.1 CDS 83789837 83790117 83789837 ID=cds.MS.gene32704.t1;Parent=MS.gene32704.t1
Gene Sequence

>MS.gene32704

ATGGTGAAAGGAAGTGAAAGTGAAAGCTGTGGAGGAGTACCCGAAGCGGTGATGGATTCAGTCAACACCACTCTCTCCAATCTTCGTGAATTCCGTTCACATTTTCAACAGTTTTTACCTCTTATGAACCCTCAAACTCTCTCCCAACTTCCACCTCTTGAACGTGCCCACTCTCTCTTTCTCCTCTCCAAAATCACTTCTACCCTCCTCACACGTAATCATCATCTTCATCTAATTTAATTGTAATTACAATTTTAAGTTTTGTTAATTCCAACTTAATTTTCTTGTTCTATTGTGTTTTTTTATTTTTTTGCAGTGAAATTGAGGTGCAGTGGAGTTCAACCAGATGATAACCCTGTCAAATCAGAGCTTGTGAGTTATTTTACTCTGCTAATTATGTTTTTGTACCTAACCCTTGTTGCTTACTCTGTTTGATTTTTGTTGTGTATTTTCAGGATAGAGTAGAGTTATATCAAGACAAACTTGAACGCCTTCTAGATTTGAATAAGGGTATTTTTTTTTTTTTCTTTCTCTAATTTTTTTATGATTTTATTTTCTCAATGCGCTTTTGTTGAATGTTGAAGTTCAAAATATAAGATGATGGATATTTGAATTGGAAACACATCTTCTTCAAGCTATGAAACATATAAGTCAGATATGATCCTGACACATAGACACTGATGATAATTTAAGAAGGTGTTGGGCACTGAGCACTGACACATGTTAACCTTCAATATGAGGTGTTGGTGCTACTTAGTCTTCCCCTTTTTTATTAGCTTAGACTTGTAGTATTGGTTAAATTGATTGTGTTTTCGTGATTTTGGTTTTGTTTGTGAAGCTCCATTGCGACCTTCTACTATGTTGAATTCTCAAGCAGCTACTCGCTTCATCGAACACTCTTTGCCTGACCTCACTCCAGGTGGGTTGTTAACTTGGTTTATTGCTTCTAGGGGTGGTAAAAAATCTATATGTCTTCCATTTTGATCACATTGCATGTATGTAAAGAAGTGGTTATTTCATATGCAGAACAACGGCAGAGAATGAGGAACTTAAGTAGCGGCGAGGGAAAGAAGAGGAAACATCAGGAGCAGGCTGGTCAAAAGAGGAAGTATCAATCTTCTGAAAAGCCATCTATTTCTGTTCAAGCTGCTGCTCAGGAGTTTCTGGAGAAAGCACAGAGGGAACTTTTTGGTGGTAATAATGGCGGTATTAAGGGGCCACTTCAAATTGACAACATGTCAGAAAGCGACGACGATCAAATTGACAATCTTTCAGAAGATGACGGCGATAAACTACCCATGACCTGA

Protein sequence

>MS.gene32704.t1

MVKGSESESCGGVPEAVMDSVNTTLSNLREFRSHFQQFLPLMNPQTLSQLPPLERAHSLFLLSKITSTLLTLKLRCSGVQPDDNPVKSELDRVELYQDKLERLLDLNKAPLRPSTMLNSQAATRFIEHSLPDLTPEQRQRMRNLSSGEGKKRKHQEQAGQKRKYQSSEKPSISVQAAAQEFLEKAQRELFGGNNGGIKGPLQIDNMSESDDDQIDNLSEDDGDKLPMT