AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051810


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051810.t1 MTR_4g125600 95.868 121 1 1 1 121 1 117 4.33e-74 216
MS.gene051810.t1 MTR_3g104950 57.724 123 45 5 1 120 1 119 1.51e-35 118
MS.gene051810.t1 MTR_1g015290 58.730 126 44 5 1 120 1 124 3.46e-34 115
MS.gene051810.t1 MTR_2g041260 65.289 121 39 3 1 120 1 119 7.10e-33 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051810.t1 AT2G06520 57.724 123 41 4 1 120 1 115 3.85e-29 102

Find 27 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTGCTCAGCATCGTTTC+TGG 0.146677 8.2:+7173080 MS.gene051810:CDS
GCTATTCTTGGTGCTGTTAT+TGG 0.188543 8.2:+7173119 MS.gene051810:CDS
TTCTTGCTGGCACAAGTTAA+TGG 0.260311 8.2:-7172843 None:intergenic
TCGCTTAACAGGATCGAAAT+TGG 0.294106 8.2:-7173147 None:intergenic
GTTGTGGTTACTGCTATTCT+TGG 0.319417 8.2:+7173107 MS.gene051810:CDS
ATTCATCAACCTCGCTTAAC+AGG 0.324240 8.2:-7173158 None:intergenic
TGGTGCCTCTAGCTTCTTGC+TGG 0.342131 8.2:-7172856 None:intergenic
TGTCACAAGTTTCTCTTTCA+AGG 0.346815 8.2:-7172973 None:intergenic
GTTGCTGCCACAGACTTTGA+TGG 0.351954 8.2:-7172918 None:intergenic
TTCAACTTCCACAATTTCAA+TGG 0.410680 8.2:+7172815 MS.gene051810:CDS
AACCTCTCAAGCATTCTTGA+AGG 0.466332 8.2:+7172878 MS.gene051810:CDS
TTTGATGGCTTCAAAGTCAA+TGG 0.476094 8.2:-7172903 None:intergenic
TTGAAAGAGAAACTTGTGAC+AGG 0.488854 8.2:+7172975 MS.gene051810:CDS
GTAGCAGCTTCAGCCACGTC+AGG 0.500301 8.2:-7173035 None:intergenic
TTCAAGAATGCTTGAGAGGT+TGG 0.501532 8.2:-7172876 None:intergenic
TCACTACAAACCTTGCGTTA+CGG 0.517131 8.2:-7172944 None:intergenic
TGGCACAGCCATTGAAATTG+TGG 0.527378 8.2:-7172823 None:intergenic
TTCAATGATTTCTCCTGACG+TGG 0.557151 8.2:+7173022 MS.gene051810:CDS
CATCGTTTCTGGTGGTGTTG+TGG 0.559998 8.2:+7173091 MS.gene051810:CDS
AGCAAGAAATTCTTGAGAGA+AGG 0.566334 8.2:-7173065 None:intergenic
TTGCTCAGCATCGTTTCTGG+TGG 0.567414 8.2:+7173083 MS.gene051810:CDS
AATTTCGATCCTGTTAAGCG+AGG 0.632764 8.2:+7173149 MS.gene051810:CDS
CAGCAACAAACCGTAACGCA+AGG 0.648127 8.2:+7172934 MS.gene051810:CDS
TGAAAGAGAAACTTGTGACA+GGG 0.650173 8.2:+7172976 MS.gene051810:CDS
TTTGAAGCCATCAAAGTCTG+TGG 0.657555 8.2:+7172911 MS.gene051810:CDS
TGCCTTCAAGAATGCTTGAG+AGG 0.659518 8.2:-7172880 None:intergenic
TTGTGCCAGCAAGAAGCTAG+AGG 0.660281 8.2:+7172851 MS.gene051810:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTCAACTTCCACAATTTCAA+TGG + chr8.2:7172815-7172834 MS.gene051810:CDS 30.0%
AGCAAGAAATTCTTGAGAGA+AGG - chr8.2:7173068-7173087 None:intergenic 35.0%
TGAAAGAGAAACTTGTGACA+GGG + chr8.2:7172976-7172995 MS.gene051810:CDS 35.0%
TGTCACAAGTTTCTCTTTCA+AGG - chr8.2:7172976-7172995 None:intergenic 35.0%
TTGAAAGAGAAACTTGTGAC+AGG + chr8.2:7172975-7172994 MS.gene051810:CDS 35.0%
! TTTGATGGCTTCAAAGTCAA+TGG - chr8.2:7172906-7172925 None:intergenic 35.0%
AACCTCTCAAGCATTCTTGA+AGG + chr8.2:7172878-7172897 MS.gene051810:CDS 40.0%
AATTTCGATCCTGTTAAGCG+AGG + chr8.2:7173149-7173168 MS.gene051810:CDS 40.0%
GTTGTGGTTACTGCTATTCT+TGG + chr8.2:7173107-7173126 MS.gene051810:CDS 40.0%
TCACTACAAACCTTGCGTTA+CGG - chr8.2:7172947-7172966 None:intergenic 40.0%
TCGCTTAACAGGATCGAAAT+TGG - chr8.2:7173150-7173169 None:intergenic 40.0%
TTCAAGAATGCTTGAGAGGT+TGG - chr8.2:7172879-7172898 None:intergenic 40.0%
TTCAATGATTTCTCCTGACG+TGG + chr8.2:7173022-7173041 MS.gene051810:CDS 40.0%
TTCTTGCTGGCACAAGTTAA+TGG - chr8.2:7172846-7172865 None:intergenic 40.0%
! TTTGAAGCCATCAAAGTCTG+TGG + chr8.2:7172911-7172930 MS.gene051810:CDS 40.0%
!! GCTATTCTTGGTGCTGTTAT+TGG + chr8.2:7173119-7173138 MS.gene051810:CDS 40.0%
TGCCTTCAAGAATGCTTGAG+AGG - chr8.2:7172883-7172902 None:intergenic 45.0%
TGGCACAGCCATTGAAATTG+TGG - chr8.2:7172826-7172845 None:intergenic 45.0%
TTCTTGCTCAGCATCGTTTC+TGG + chr8.2:7173080-7173099 MS.gene051810:CDS 45.0%
CAGCAACAAACCGTAACGCA+AGG + chr8.2:7172934-7172953 MS.gene051810:CDS 50.0%
GTTGCTGCCACAGACTTTGA+TGG - chr8.2:7172921-7172940 None:intergenic 50.0%
TTGTGCCAGCAAGAAGCTAG+AGG + chr8.2:7172851-7172870 MS.gene051810:CDS 50.0%
! TTGCTCAGCATCGTTTCTGG+TGG + chr8.2:7173083-7173102 MS.gene051810:CDS 50.0%
!! CATCGTTTCTGGTGGTGTTG+TGG + chr8.2:7173091-7173110 MS.gene051810:CDS 50.0%
! TGGTGCCTCTAGCTTCTTGC+TGG - chr8.2:7172859-7172878 None:intergenic 55.0%
GTAGCAGCTTCAGCCACGTC+AGG - chr8.2:7173038-7173057 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 7172810 7173175 7172810 ID=MS.gene051810
chr8.2 mRNA 7172810 7173175 7172810 ID=MS.gene051810.t1;Parent=MS.gene051810
chr8.2 exon 7172810 7173175 7172810 ID=MS.gene051810.t1.exon1;Parent=MS.gene051810.t1
chr8.2 CDS 7172810 7173175 7172810 ID=cds.MS.gene051810.t1;Parent=MS.gene051810.t1
Gene Sequence

>MS.gene051810

ATGGCTTCAACTTCCACAATTTCAATGGCTGTGCCATTAACTTGTGCCAGCAAGAAGCTAGAGGCACCAACCTCTCAAGCATTCTTGAAGGCACCATTGACTTTGAAGCCATCAAAGTCTGTGGCAGCAACAAACCGTAACGCAAGGTTTGTAGTGAAAGCATCCTTGAAAGAGAAACTTGTGACAGGGTTAACTGCAGCTGCATTGACAGCTTCAATGATTTCTCCTGACGTGGCTGAAGCTGCTACTGTTTCACCTTCTCTCAAGAATTTCTTGCTCAGCATCGTTTCTGGTGGTGTTGTGGTTACTGCTATTCTTGGTGCTGTTATTGGTGTTTCCAATTTCGATCCTGTTAAGCGAGGTTGA

Protein sequence

>MS.gene051810.t1

MASTSTISMAVPLTCASKKLEAPTSQAFLKAPLTLKPSKSVAATNRNARFVVKASLKEKLVTGLTAAALTASMISPDVAEAATVSPSLKNFLLSIVSGGVVVTAILGAVIGVSNFDPVKRG