AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07746

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07746.t1 MTR_2g037760 99.454 183 1 0 1 183 1 183 6.16e-135 375
MS.gene07746.t1 MTR_4g127530 58.378 185 69 4 1 182 1 180 1.74e-66 201
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 40 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCACTTGGTTAACTGAAAT+TGG 0.230756 2.4:+52007202 None:intergenic
AAGATGCTTTGAGCAGTATT+TGG 0.233848 2.4:-52006928 MS.gene07746:CDS
CGATGTTTCGCCTGTGGATT+TGG 0.273838 2.4:-52007041 MS.gene07746:CDS
AAAGCATCTTGGTTTGATAA+AGG 0.331144 2.4:+52006941 None:intergenic
GCACATGTAGAGGGCGGTTA+TGG 0.354136 2.4:-52006835 MS.gene07746:CDS
TCGGCTTGTAGAATTGAATA+AGG 0.390315 2.4:+52007061 None:intergenic
AGCATGAAGTAAACATTTCC+AGG 0.399077 2.4:+52007085 None:intergenic
TTCGGCCACTGCAACTCTGC+CGG 0.411739 2.4:+52006886 None:intergenic
CACATCAAAGAAAATCCGTT+TGG 0.427399 2.4:-52007260 MS.gene07746:CDS
GCGGTTATGGAGACCTCTAT+TGG 0.447733 2.4:-52006822 MS.gene07746:CDS
ATCCGTTTGGTTCATCTAAG+TGG 0.450947 2.4:-52007247 MS.gene07746:CDS
AAATACTGCTCAAAGCATCT+TGG 0.454917 2.4:+52006930 None:intergenic
AGTTGTGTATCTCCTTTCAA+TGG 0.456894 2.4:+52007112 None:intergenic
TCATTGATATTCTTTCAAAT+CGG 0.458020 2.4:+52006760 None:intergenic
AAGAAGATGAAAGAAGTTGA+AGG 0.463012 2.4:+52007140 None:intergenic
GATTTCTACTATTGATCACT+TGG 0.465741 2.4:+52007188 None:intergenic
TCGGCCACTGCAACTCTGCC+GGG 0.472425 2.4:+52006887 None:intergenic
ATTTGGCTTCGCTTGCGAAA+AGG 0.473956 2.4:-52007024 MS.gene07746:CDS
TGCGAAAAGGCTCACTGCAA+AGG 0.520433 2.4:-52007011 MS.gene07746:CDS
ACAAGCCGATGTTTCGCCTG+TGG 0.520762 2.4:-52007047 MS.gene07746:CDS
TCTTCTTCAAAACCATTGAA+AGG 0.529265 2.4:-52007124 MS.gene07746:CDS
ATACGTCATACCGTATTGTT+CGG 0.544090 2.4:+52006868 None:intergenic
GAACAATACGGTATGACGTA+TGG 0.550185 2.4:-52006866 MS.gene07746:CDS
AGAAGATGAAAGAAGTTGAA+GGG 0.551501 2.4:+52007141 None:intergenic
AGTTCGCCTTCGATGAGTCC+CGG 0.573481 2.4:-52006905 MS.gene07746:CDS
GTTGCAGTGGCCGAACAATA+CGG 0.575627 2.4:-52006878 MS.gene07746:CDS
ACTCTGCCGGGACTCATCGA+AGG 0.577322 2.4:+52006899 None:intergenic
CAAATCCACAGGCGAAACAT+CGG 0.579625 2.4:+52007042 None:intergenic
GAGTCCCGGCAGAGTTGCAG+TGG 0.594628 2.4:-52006891 MS.gene07746:CDS
TCTCTGATAGTATCCAATAG+AGG 0.601725 2.4:+52006809 None:intergenic
AACCACTTAGATGAACCAAA+CGG 0.602554 2.4:+52007245 None:intergenic
GTACAAACAAAGTGAGTAGG+TGG 0.603098 2.4:+52007166 None:intergenic
GCAAGCGAAGCCAAATCCAC+AGG 0.607715 2.4:+52007031 None:intergenic
AGATGAAAGAAGTTGAAGGG+AGG 0.610782 2.4:+52007144 None:intergenic
GAGGTACAAACAAAGTGAGT+AGG 0.613139 2.4:+52007163 None:intergenic
GGAGGACGAAGCACATGTAG+AGG 0.624245 2.4:-52006845 MS.gene07746:CDS
GGAGATACACAACTTCAACC+TGG 0.635302 2.4:-52007103 MS.gene07746:CDS
GAGGACGAAGCACATGTAGA+GGG 0.636486 2.4:-52006844 MS.gene07746:CDS
CAATACGGTATGACGTATGG+AGG 0.653418 2.4:-52006863 MS.gene07746:CDS
GACGAAGCACATGTAGAGGG+CGG 0.686792 2.4:-52006841 MS.gene07746:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCATTGATATTCTTTCAAAT+CGG + chr2.4:52007295-52007314 None:intergenic 20.0%
AAGAAGATGAAAGAAGTTGA+AGG + chr2.4:52006915-52006934 None:intergenic 30.0%
AGAAGATGAAAGAAGTTGAA+GGG + chr2.4:52006914-52006933 None:intergenic 30.0%
ATCACTTGGTTAACTGAAAT+TGG + chr2.4:52006853-52006872 None:intergenic 30.0%
GATGAGAAAAAGTCATTGAA+AGG - chr2.4:52007081-52007100 MS.gene07746:CDS 30.0%
GATTTCTACTATTGATCACT+TGG + chr2.4:52006867-52006886 None:intergenic 30.0%
TCTTCTTCAAAACCATTGAA+AGG - chr2.4:52006928-52006947 MS.gene07746:CDS 30.0%
! AAAGCATCTTGGTTTGATAA+AGG + chr2.4:52007114-52007133 None:intergenic 30.0%
AACCACTTAGATGAACCAAA+CGG + chr2.4:52006810-52006829 None:intergenic 35.0%
AGCATGAAGTAAACATTTCC+AGG + chr2.4:52006970-52006989 None:intergenic 35.0%
AGTTGTGTATCTCCTTTCAA+TGG + chr2.4:52006943-52006962 None:intergenic 35.0%
ATACGTCATACCGTATTGTT+CGG + chr2.4:52007187-52007206 None:intergenic 35.0%
CACATCAAAGAAAATCCGTT+TGG - chr2.4:52006792-52006811 MS.gene07746:CDS 35.0%
TCTCTGATAGTATCCAATAG+AGG + chr2.4:52007246-52007265 None:intergenic 35.0%
! AAATACTGCTCAAAGCATCT+TGG + chr2.4:52007125-52007144 None:intergenic 35.0%
! AAGATGCTTTGAGCAGTATT+TGG - chr2.4:52007124-52007143 MS.gene07746:CDS 35.0%
! TCGGCTTGTAGAATTGAATA+AGG + chr2.4:52006994-52007013 None:intergenic 35.0%
AGATGAAAGAAGTTGAAGGG+AGG + chr2.4:52006911-52006930 None:intergenic 40.0%
GAACAATACGGTATGACGTA+TGG - chr2.4:52007186-52007205 MS.gene07746:CDS 40.0%
GAGGTACAAACAAAGTGAGT+AGG + chr2.4:52006892-52006911 None:intergenic 40.0%
GTACAAACAAAGTGAGTAGG+TGG + chr2.4:52006889-52006908 None:intergenic 40.0%
! ATCCGTTTGGTTCATCTAAG+TGG - chr2.4:52006805-52006824 MS.gene07746:CDS 40.0%
CAAATCCACAGGCGAAACAT+CGG + chr2.4:52007013-52007032 None:intergenic 45.0%
CAATACGGTATGACGTATGG+AGG - chr2.4:52007189-52007208 MS.gene07746:CDS 45.0%
GGAGATACACAACTTCAACC+TGG - chr2.4:52006949-52006968 MS.gene07746:CDS 45.0%
! ATTTGGCTTCGCTTGCGAAA+AGG - chr2.4:52007028-52007047 MS.gene07746:CDS 45.0%
CGATGTTTCGCCTGTGGATT+TGG - chr2.4:52007011-52007030 MS.gene07746:CDS 50.0%
GAGGACGAAGCACATGTAGA+GGG - chr2.4:52007208-52007227 MS.gene07746:CDS 50.0%
GCGGTTATGGAGACCTCTAT+TGG - chr2.4:52007230-52007249 MS.gene07746:CDS 50.0%
GTTGCAGTGGCCGAACAATA+CGG - chr2.4:52007174-52007193 MS.gene07746:CDS 50.0%
TGCGAAAAGGCTCACTGCAA+AGG - chr2.4:52007041-52007060 MS.gene07746:CDS 50.0%
ACAAGCCGATGTTTCGCCTG+TGG - chr2.4:52007005-52007024 MS.gene07746:CDS 55.0%
AGTTCGCCTTCGATGAGTCC+CGG - chr2.4:52007147-52007166 MS.gene07746:CDS 55.0%
GACGAAGCACATGTAGAGGG+CGG - chr2.4:52007211-52007230 MS.gene07746:CDS 55.0%
GCAAGCGAAGCCAAATCCAC+AGG + chr2.4:52007024-52007043 None:intergenic 55.0%
GCACATGTAGAGGGCGGTTA+TGG - chr2.4:52007217-52007236 MS.gene07746:CDS 55.0%
GGAGGACGAAGCACATGTAG+AGG - chr2.4:52007207-52007226 MS.gene07746:CDS 55.0%
ACTCTGCCGGGACTCATCGA+AGG + chr2.4:52007156-52007175 None:intergenic 60.0%
TTCGGCCACTGCAACTCTGC+CGG + chr2.4:52007169-52007188 None:intergenic 60.0%
GAGTCCCGGCAGAGTTGCAG+TGG - chr2.4:52007161-52007180 MS.gene07746:CDS 65.0%
TCGGCCACTGCAACTCTGCC+GGG + chr2.4:52007168-52007187 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 52006760 52007314 52006760 ID=MS.gene07746
chr2.4 mRNA 52006760 52007314 52006760 ID=MS.gene07746.t1;Parent=MS.gene07746
chr2.4 exon 52006760 52007314 52006760 ID=MS.gene07746.t1.exon1;Parent=MS.gene07746.t1
chr2.4 CDS 52006760 52007314 52006760 ID=cds.MS.gene07746.t1;Parent=MS.gene07746.t1
Gene Sequence

>MS.gene07746

ATGGGAGGGTGTTTTTCTTCAAGATCATCATGCACATCAAAGAAAATCCGTTTGGTTCATCTAAGTGGTTATGTAGAAGATTTTGAGCAACCAATTTCAGTTAACCAAGTGATCAATAGTAGAAATCCACCTACTCACTTTGTTTGTACCTCCCTTCAACTTCTTTCATCTTCTTCAAAACCATTGAAAGGAGATACACAACTTCAACCTGGAAATGTTTACTTCATGCTACCTTATTCAATTCTACAAGCCGATGTTTCGCCTGTGGATTTGGCTTCGCTTGCGAAAAGGCTCACTGCAAAGGCGAAGACTAGTAGATTTGATGAGAAAAAGTCATTGAAAGGTAGTAGTCCTTTATCAAACCAAGATGCTTTGAGCAGTATTTGGAGTTCGCCTTCGATGAGTCCCGGCAGAGTTGCAGTGGCCGAACAATACGGTATGACGTATGGAGGACGAAGCACATGTAGAGGGCGGTTATGGAGACCTCTATTGGATACTATCAGAGAGAAGTCATTCAATAGAAGTAATGAATCCGATTTGAAAGAATATCAATGA
Protein sequence

>MS.gene07746.t1

MGGCFSSRSSCTSKKIRLVHLSGYVEDFEQPISVNQVINSRNPPTHFVCTSLQLLSSSSKPLKGDTQLQPGNVYFMLPYSILQADVSPVDLASLAKRLTAKAKTSRFDEKKSLKGSSPLSNQDALSSIWSSPSMSPGRVAVAEQYGMTYGGRSTCRGRLWRPLLDTIREKSFNRSNESDLKEYQ