AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene61210

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61210.t1 MTR_2g102080 98.077 156 3 0 1 156 1 156 4.00e-111 314
MS.gene61210.t1 MTR_4g012450 39.744 156 91 2 1 154 34 188 2.74e-38 129
MS.gene61210.t1 MTR_6g086455 36.943 157 94 2 1 156 78 230 3.35e-32 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61210.t1 AT1G52330 54.902 153 69 0 1 153 59 211 4.46e-63 193
MS.gene61210.t1 AT1G52330 52.985 134 63 0 1 134 59 192 6.27e-51 162
MS.gene61210.t1 AT4G13270 43.791 153 86 0 1 153 60 212 2.50e-44 145

Find 50 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAAAATGATTTACCTTAA+TGG 0.212531 2.1:-3221958 None:intergenic
AGAAAATGATTTACCTTAAT+GGG 0.264332 2.1:-3221957 None:intergenic
TAAACTATCATGTGCGGTTT+TGG 0.284881 2.1:+3222102 MS.gene61210:CDS
TAGTCAAGTTAGGGGCAAAA+TGG 0.292543 2.1:+3221914 MS.gene61210:CDS
TTGATACGGTTAGTCAAGTT+AGG 0.332171 2.1:+3221904 MS.gene61210:CDS
GTTGAAGCTGAAGAAGATTA+AGG 0.365406 2.1:+3221614 MS.gene61210:CDS
AGTCAAGTTAGGGGCAAAAT+GGG 0.396713 2.1:+3221915 MS.gene61210:CDS
GAATGGGCACGTGAGGGCTA+TGG 0.456284 2.1:+3221782 MS.gene61210:CDS
TGATACGGTTAGTCAAGTTA+GGG 0.457996 2.1:+3221905 MS.gene61210:CDS
GGCTATGGGATCTTCATTTG+TGG 0.458085 2.1:+3221797 MS.gene61210:CDS
CCTCATGAAGACAGTGTTGA+CGG 0.462375 2.1:-3222150 None:intergenic
TCCAACAACAACACTATCTC+AGG 0.473538 2.1:-3221855 None:intergenic
GGCACGTGACTTCGAAGAAT+GGG 0.476369 2.1:+3221766 MS.gene61210:CDS
ACCTGAGATAGTGTTGTTGT+TGG 0.476726 2.1:+3221854 MS.gene61210:CDS
AATGGGCACGTGAGGGCTAT+GGG 0.477387 2.1:+3221783 MS.gene61210:CDS
AAATGTTGACGTTTATTCCA+TGG 0.481008 2.1:+3221695 MS.gene61210:CDS
GGGCACGTGACTTCGAAGAA+TGG 0.502859 2.1:+3221765 MS.gene61210:CDS
GTTGTTGGAGGACCTTGCTA+AGG 0.507070 2.1:+3221869 MS.gene61210:CDS
GATGCAGAATTCAGTGGTAT+TGG 0.514947 2.1:+3221825 MS.gene61210:CDS
GACGTTTATTCCATGGACTT+TGG 0.517964 2.1:+3221702 MS.gene61210:CDS
AACCGTACGATCTTGAGGTA+TGG 0.521084 2.1:-3221594 None:intergenic
TCTTATAGAGGGAAACCACT+TGG 0.536597 2.1:+3221744 MS.gene61210:CDS
GGGTATGATACCCTTTGATA+CGG 0.543076 2.1:+3221890 MS.gene61210:CDS
TGAGATAGTGTTGTTGTTGG+AGG 0.545985 2.1:+3221857 MS.gene61210:CDS
CTTCGAAGAATGGGCACGTG+AGG 0.549210 2.1:+3221775 MS.gene61210:CDS
TTGTTGGAGGACCTTGCTAA+GGG 0.551961 2.1:+3221870 MS.gene61210:CDS
CACTCTCAACGTGAAGAGCA+TGG 0.555106 2.1:-3221670 None:intergenic
GTCAACAGCACCAAAGTCCA+TGG 0.556982 2.1:-3221712 None:intergenic
AACTTGACTAACCGTATCAA+AGG 0.559559 2.1:-3221901 None:intergenic
ACTTGACTAACCGTATCAAA+GGG 0.561858 2.1:-3221900 None:intergenic
ATCCATACCTCAAGATCGTA+CGG 0.564124 2.1:+3221592 MS.gene61210:CDS
GCTTCAACCGTACGATCTTG+AGG 0.564157 2.1:-3221599 None:intergenic
ATCTTGAGGTATGGATCTGA+CGG 0.564383 2.1:-3221585 None:intergenic
CATGCTCTTCACGTTGAGAG+TGG 0.566163 2.1:+3221671 MS.gene61210:CDS
GACGTGGCGGTATCTTATAG+AGG 0.568477 2.1:+3221732 MS.gene61210:CDS
TTCGAAGTCACGTGCCCAAG+TGG 0.585354 2.1:-3221759 None:intergenic
CTTATAGAGGGAAACCACTT+GGG 0.598189 2.1:+3221745 MS.gene61210:CDS
TTCGAAGAATGGGCACGTGA+GGG 0.610158 2.1:+3221776 MS.gene61210:CDS
GAAGAGCATGGAGATATCTA+CGG 0.612242 2.1:-3221658 None:intergenic
GATACGGTTAGTCAAGTTAG+GGG 0.618576 2.1:+3221906 MS.gene61210:CDS
GGACTTTGGTGCTGTTGACG+TGG 0.632167 2.1:+3221716 MS.gene61210:CDS
AGGGTATCATACCCTTAGCA+AGG 0.651835 2.1:-3221881 None:intergenic
CCGTCAACACTGTCTTCATG+AGG 0.652674 2.1:+3222150 MS.gene61210:CDS
GAGATATCTACGGTGATATG+CGG 0.652943 2.1:-3221648 None:intergenic
ACGTGGCGGTATCTTATAGA+GGG 0.653035 2.1:+3221733 MS.gene61210:CDS
GTCAAGTTAGGGGCAAAATG+GGG 0.655267 2.1:+3221916 MS.gene61210:CDS
ATAGGCTAAACTATCATGTG+CGG 0.659678 2.1:+3222096 MS.gene61210:intron
TGACGGATAGAAAATATACA+TGG 0.674941 2.1:-3221568 None:intergenic
CTTTGGTGCTGTTGACGTGG+CGG 0.678358 2.1:+3221719 MS.gene61210:CDS
GATGCTGATGCAGAATTCAG+TGG 0.701186 2.1:+3221819 MS.gene61210:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTTTAATAATTTGAGTT+AGG + chr2.1:3222033-3222052 MS.gene61210:intron 10.0%
!! AAGAAAATGATTTACCTTAA+TGG - chr2.1:3221961-3221980 None:intergenic 20.0%
!! ACATATGATTATGAATAACT+TGG - chr2.1:3221988-3222007 None:intergenic 20.0%
!! AGAAAATGATTTACCTTAAT+GGG - chr2.1:3221960-3221979 None:intergenic 20.0%
!!! ATGATAATTTTCCCAATAAT+AGG + chr2.1:3222078-3222097 MS.gene61210:intron 20.0%
! ATGATAGTTTAGCCTATTAT+TGG - chr2.1:3222093-3222112 None:intergenic 25.0%
! TGATAGTTTAGCCTATTATT+GGG - chr2.1:3222092-3222111 None:intergenic 25.0%
! TTGAGTTAGGTTATAGTTTA+TGG + chr2.1:3222046-3222065 MS.gene61210:intron 25.0%
!! ATTCTTTTACTTTCCCATTA+AGG + chr2.1:3221944-3221963 MS.gene61210:CDS 25.0%
AAATGTTGACGTTTATTCCA+TGG + chr2.1:3221695-3221714 MS.gene61210:CDS 30.0%
AACTTGACTAACCGTATCAA+AGG - chr2.1:3221904-3221923 None:intergenic 35.0%
ACTTGACTAACCGTATCAAA+GGG - chr2.1:3221903-3221922 None:intergenic 35.0%
ATAGGCTAAACTATCATGTG+CGG + chr2.1:3222096-3222115 MS.gene61210:intron 35.0%
GTTGAAGCTGAAGAAGATTA+AGG + chr2.1:3221614-3221633 MS.gene61210:CDS 35.0%
! TAAACTATCATGTGCGGTTT+TGG + chr2.1:3222102-3222121 MS.gene61210:CDS 35.0%
! TGATACGGTTAGTCAAGTTA+GGG + chr2.1:3221905-3221924 MS.gene61210:CDS 35.0%
! TTGATACGGTTAGTCAAGTT+AGG + chr2.1:3221904-3221923 MS.gene61210:CDS 35.0%
AGTCAAGTTAGGGGCAAAAT+GGG + chr2.1:3221915-3221934 MS.gene61210:CDS 40.0%
ATCCATACCTCAAGATCGTA+CGG + chr2.1:3221592-3221611 MS.gene61210:CDS 40.0%
ATCTTGAGGTATGGATCTGA+CGG - chr2.1:3221588-3221607 None:intergenic 40.0%
CTTATAGAGGGAAACCACTT+GGG + chr2.1:3221745-3221764 MS.gene61210:CDS 40.0%
GACGTTTATTCCATGGACTT+TGG + chr2.1:3221702-3221721 MS.gene61210:CDS 40.0%
GAGATATCTACGGTGATATG+CGG - chr2.1:3221651-3221670 None:intergenic 40.0%
GATGCAGAATTCAGTGGTAT+TGG + chr2.1:3221825-3221844 MS.gene61210:CDS 40.0%
GGGTATGATACCCTTTGATA+CGG + chr2.1:3221890-3221909 MS.gene61210:CDS 40.0%
TAGTCAAGTTAGGGGCAAAA+TGG + chr2.1:3221914-3221933 MS.gene61210:CDS 40.0%
TCCAACAACAACACTATCTC+AGG - chr2.1:3221858-3221877 None:intergenic 40.0%
TCTTATAGAGGGAAACCACT+TGG + chr2.1:3221744-3221763 MS.gene61210:CDS 40.0%
! ACCTGAGATAGTGTTGTTGT+TGG + chr2.1:3221854-3221873 MS.gene61210:CDS 40.0%
! GAAGAGCATGGAGATATCTA+CGG - chr2.1:3221661-3221680 None:intergenic 40.0%
! GATACGGTTAGTCAAGTTAG+GGG + chr2.1:3221906-3221925 MS.gene61210:CDS 40.0%
! TGAGATAGTGTTGTTGTTGG+AGG + chr2.1:3221857-3221876 MS.gene61210:CDS 40.0%
AACCGTACGATCTTGAGGTA+TGG - chr2.1:3221597-3221616 None:intergenic 45.0%
ACGTGGCGGTATCTTATAGA+GGG + chr2.1:3221733-3221752 MS.gene61210:CDS 45.0%
GATGCTGATGCAGAATTCAG+TGG + chr2.1:3221819-3221838 MS.gene61210:CDS 45.0%
GGCTATGGGATCTTCATTTG+TGG + chr2.1:3221797-3221816 MS.gene61210:CDS 45.0%
GTCAAGTTAGGGGCAAAATG+GGG + chr2.1:3221916-3221935 MS.gene61210:CDS 45.0%
TTGTTGGAGGACCTTGCTAA+GGG + chr2.1:3221870-3221889 MS.gene61210:CDS 45.0%
! AGGGTATCATACCCTTAGCA+AGG - chr2.1:3221884-3221903 None:intergenic 45.0%
CACTCTCAACGTGAAGAGCA+TGG - chr2.1:3221673-3221692 None:intergenic 50.0%
CATGCTCTTCACGTTGAGAG+TGG + chr2.1:3221671-3221690 MS.gene61210:CDS 50.0%
GACGTGGCGGTATCTTATAG+AGG + chr2.1:3221732-3221751 MS.gene61210:CDS 50.0%
GCTTCAACCGTACGATCTTG+AGG - chr2.1:3221602-3221621 None:intergenic 50.0%
GGCACGTGACTTCGAAGAAT+GGG + chr2.1:3221766-3221785 MS.gene61210:CDS 50.0%
GTCAACAGCACCAAAGTCCA+TGG - chr2.1:3221715-3221734 None:intergenic 50.0%
GTTGTTGGAGGACCTTGCTA+AGG + chr2.1:3221869-3221888 MS.gene61210:CDS 50.0%
TTCGAAGAATGGGCACGTGA+GGG + chr2.1:3221776-3221795 MS.gene61210:CDS 50.0%
AATGGGCACGTGAGGGCTAT+GGG + chr2.1:3221783-3221802 MS.gene61210:CDS 55.0%
CTTCGAAGAATGGGCACGTG+AGG + chr2.1:3221775-3221794 MS.gene61210:CDS 55.0%
GGGCACGTGACTTCGAAGAA+TGG + chr2.1:3221765-3221784 MS.gene61210:CDS 55.0%
TTCGAAGTCACGTGCCCAAG+TGG - chr2.1:3221762-3221781 None:intergenic 55.0%
!! CTTTGGTGCTGTTGACGTGG+CGG + chr2.1:3221719-3221738 MS.gene61210:CDS 55.0%
!! GGACTTTGGTGCTGTTGACG+TGG + chr2.1:3221716-3221735 MS.gene61210:CDS 55.0%
GAATGGGCACGTGAGGGCTA+TGG + chr2.1:3221782-3221801 MS.gene61210:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 3221570 3222171 3221570 ID=MS.gene61210
chr2.1 mRNA 3221570 3222171 3221570 ID=MS.gene61210.t1;Parent=MS.gene61210
chr2.1 exon 3221570 3221965 3221570 ID=MS.gene61210.t1.exon1;Parent=MS.gene61210.t1
chr2.1 CDS 3221570 3221965 3221570 ID=cds.MS.gene61210.t1;Parent=MS.gene61210.t1
chr2.1 exon 3222100 3222171 3222100 ID=MS.gene61210.t1.exon2;Parent=MS.gene61210.t1
chr2.1 CDS 3222100 3222171 3222100 ID=cds.MS.gene61210.t1;Parent=MS.gene61210.t1
Gene Sequence

>MS.gene61210

ATGTATATTTTCTATCCGTCAGATCCATACCTCAAGATCGTACGGTTGAAGCTGAAGAAGATTAAGGTACATCGTGTGCCGCATATCACCGTAGATATCTCCATGCTCTTCACGTTGAGAGTGGAAAATGTTGACGTTTATTCCATGGACTTTGGTGCTGTTGACGTGGCGGTATCTTATAGAGGGAAACCACTTGGGCACGTGACTTCGAAGAATGGGCACGTGAGGGCTATGGGATCTTCATTTGTGGATGCTGATGCAGAATTCAGTGGTATTGGTGTGTTACCTGAGATAGTGTTGTTGTTGGAGGACCTTGCTAAGGGTATGATACCCTTTGATACGGTTAGTCAAGTTAGGGGCAAAATGGGGATTCTATTCTTTTACTTTCCCATTAAGGTAAATCATTTTCTTACTTCCAAGTTATTCATAATCATATGTTGCTTTTTAGTGCTTCTCAATTATTATTTTTTAATAATTTGAGTTAGGTTATAGTTTATGGTGCTAATTTATGATAATTTTCCCAATAATAGGCTAAACTATCATGTGCGGTTTTGGTGAGTACGATAAATCAGACAATTATCCGTCAACACTGTCTTCATGAG
Protein sequence

>MS.gene61210.t1

MYIFYPSDPYLKIVRLKLKKIKVHRVPHITVDISMLFTLRVENVDVYSMDFGAVDVAVSYRGKPLGHVTSKNGHVRAMGSSFVDADAEFSGIGVLPEIVLLLEDLAKGMIPFDTVSQVRGKMGILFFYFPIKAKLSCAVLVSTINQTIIRQHCLHE