AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068037


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068037.t1 MTR_4g093950 91.150 113 9 1 1 113 1 112 3.37e-47 148
MS.gene068037.t1 MTR_4g093940 91.818 110 8 1 1 110 1 109 5.22e-47 148
MS.gene068037.t1 MTR_4g093910 90.265 113 10 1 1 113 1 112 3.39e-46 146
MS.gene068037.t1 MTR_4g093920 89.091 110 10 2 1 110 1 108 5.30e-45 142
MS.gene068037.t1 MTR_5g064530 66.013 153 25 5 1 129 1 150 7.06e-39 128
MS.gene068037.t1 MTR_5g064510 66.129 124 21 5 1 106 1 121 9.39e-34 115
MS.gene068037.t1 MTR_4g094678 74.684 79 3 2 17 93 1 64 3.64e-26 93.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 48 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATTTCCCTGAGGCATATT+TGG 0.193132 4.3:-20775890 None:intergenic
CTTCATCACAACTTTACTTC+TGG 0.286471 4.3:+20775745 MS.gene068037:CDS
CAATAGATGGCGAGCTTCTA+AGG 0.329667 4.3:-20775789 None:intergenic
GGTGGCAGTGTTGTTGGTTT+TGG 0.339241 4.3:-20775854 None:intergenic
GTGTTGTTGTTTGCAATAGA+TGG 0.376065 4.3:-20775802 None:intergenic
AGATGGAAGTGTTGGAATAT+TGG 0.377492 4.3:-20775981 None:intergenic
GTGGGAATGGTTGGTAAGTT+TGG 0.380014 4.3:-20775827 None:intergenic
GAAGGTGGTGGGGAGAGAAA+TGG 0.390913 4.3:-20776079 None:intergenic
TGGGGAGAGAAATGGGATGG+AGG 0.398214 4.3:-20776071 None:intergenic
AAGGTGGTGGGGAGAGAAAT+GGG 0.410900 4.3:-20776078 None:intergenic
GGGAAAGTGGTTGGAATTGA+AGG 0.421474 4.3:-20776049 None:intergenic
GTTGGAATTGAAGGAAGGTT+TGG 0.423898 4.3:-20776040 None:intergenic
GTTTAAGGGTTAGATGTTGA+AGG 0.433760 4.3:-20776097 None:intergenic
TGAGGCATATTTGGAATTGA+AGG 0.434332 4.3:-20775881 None:intergenic
GGGTTAGATGTTGAAGGTGG+TGG 0.435481 4.3:-20776091 None:intergenic
AAATGGGATGGAGGGGAAAG+TGG 0.438380 4.3:-20776062 None:intergenic
GGAAGAGATGGAATAGTAGT+AGG 0.448399 4.3:-20775923 None:intergenic
GGAATATTGGTAGGAAAGCT+AGG 0.453482 4.3:-20775968 None:intergenic
TTCAATTCCAAATATGCCTC+AGG 0.454801 4.3:+20775883 MS.gene068037:CDS
GGTTAGATGTTGAAGGTGGT+GGG 0.459567 4.3:-20776090 None:intergenic
GGAATAGTAGTAGGCAATGG+AGG 0.463605 4.3:-20775914 None:intergenic
GGCAAAGGTGGCAGTGTTGT+TGG 0.469747 4.3:-20775860 None:intergenic
AGTGAAGTGGCTGCTGGTAG+TGG 0.486298 4.3:-20776016 None:intergenic
AGTGGTGGCATGGTGAGCTT+AGG 0.486837 4.3:-20775944 None:intergenic
GGGATGGAGGGGAAAGTGGT+TGG 0.490688 4.3:-20776058 None:intergenic
GGGAGAGAAATGGGATGGAG+GGG 0.491154 4.3:-20776069 None:intergenic
GATGGAATAGTAGTAGGCAA+TGG 0.491406 4.3:-20775917 None:intergenic
CAGAAGTAAAGTTGTGATGA+AGG 0.498572 4.3:-20775744 None:intergenic
TTTGGCAAAGTGGGAATGGT+TGG 0.502089 4.3:-20775836 None:intergenic
GGGGAGAGAAATGGGATGGA+GGG 0.504818 4.3:-20776070 None:intergenic
TTGGTAGGAAAGCTAGGAAG+TGG 0.544726 4.3:-20775962 None:intergenic
AAGTGGTTGGAATTGAAGGA+AGG 0.558344 4.3:-20776045 None:intergenic
GGAAGTGTTGGAATATTGGT+AGG 0.561176 4.3:-20775977 None:intergenic
ATGTTGAGAGATGGAAGTGT+TGG 0.563754 4.3:-20775989 None:intergenic
TGGTGGGGAGAGAAATGGGA+TGG 0.578876 4.3:-20776074 None:intergenic
TTTGGAATTGAAGGCAAAGG+TGG 0.587593 4.3:-20775872 None:intergenic
AGTGGTGGAATGTTGAGAGA+TGG 0.592158 4.3:-20775998 None:intergenic
GTTAGATGTTGAAGGTGGTG+GGG 0.597019 4.3:-20776089 None:intergenic
TTTGGAAGTGAAGTGGCTGC+TGG 0.597234 4.3:-20776022 None:intergenic
AAAGCTAGGAAGTGGTGGCA+TGG 0.597500 4.3:-20775954 None:intergenic
ATGGTGAGCTTAGGAAGAGA+TGG 0.610060 4.3:-20775935 None:intergenic
ATATTTGGAATTGAAGGCAA+AGG 0.615183 4.3:-20775875 None:intergenic
GAAGTGGCTGCTGGTAGTGG+TGG 0.615993 4.3:-20776013 None:intergenic
AGGAAGGTTTGGAAGTGAAG+TGG 0.622568 4.3:-20776029 None:intergenic
TCAATTCCAAATATGCCTCA+GGG 0.633758 4.3:+20775884 MS.gene068037:CDS
TAAGGGTTAGATGTTGAAGG+TGG 0.638529 4.3:-20776094 None:intergenic
GTAGGAAAGCTAGGAAGTGG+TGG 0.642479 4.3:-20775959 None:intergenic
AATGGAGGAAGATTTCCCTG+AGG 0.807544 4.3:-20775899 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATTTGGAATTGAAGGCAA+AGG - chr4.3:20775878-20775897 None:intergenic 30.0%
CAGAAGTAAAGTTGTGATGA+AGG - chr4.3:20775747-20775766 None:intergenic 35.0%
CTTCATCACAACTTTACTTC+TGG + chr4.3:20775745-20775764 MS.gene068037:CDS 35.0%
TCAATTCCAAATATGCCTCA+GGG + chr4.3:20775884-20775903 MS.gene068037:CDS 35.0%
TTCAATTCCAAATATGCCTC+AGG + chr4.3:20775883-20775902 MS.gene068037:CDS 35.0%
! TGAGGCATATTTGGAATTGA+AGG - chr4.3:20775884-20775903 None:intergenic 35.0%
!! AGATGGAAGTGTTGGAATAT+TGG - chr4.3:20775984-20776003 None:intergenic 35.0%
!! GTGTTGTTGTTTGCAATAGA+TGG - chr4.3:20775805-20775824 None:intergenic 35.0%
AAGTGGTTGGAATTGAAGGA+AGG - chr4.3:20776048-20776067 None:intergenic 40.0%
AGATTTCCCTGAGGCATATT+TGG - chr4.3:20775893-20775912 None:intergenic 40.0%
GATGGAATAGTAGTAGGCAA+TGG - chr4.3:20775920-20775939 None:intergenic 40.0%
GGAAGAGATGGAATAGTAGT+AGG - chr4.3:20775926-20775945 None:intergenic 40.0%
GGAATATTGGTAGGAAAGCT+AGG - chr4.3:20775971-20775990 None:intergenic 40.0%
GTTGGAATTGAAGGAAGGTT+TGG - chr4.3:20776043-20776062 None:intergenic 40.0%
TAAGGGTTAGATGTTGAAGG+TGG - chr4.3:20776097-20776116 None:intergenic 40.0%
! ATGTTGAGAGATGGAAGTGT+TGG - chr4.3:20775992-20776011 None:intergenic 40.0%
! TTTGGAATTGAAGGCAAAGG+TGG - chr4.3:20775875-20775894 None:intergenic 40.0%
!! GGAAGTGTTGGAATATTGGT+AGG - chr4.3:20775980-20775999 None:intergenic 40.0%
!!! GTTGTTGGTTTTGGCAAAGT+GGG - chr4.3:20775848-20775867 None:intergenic 40.0%
!!! TGTTGTTGGTTTTGGCAAAG+TGG - chr4.3:20775849-20775868 None:intergenic 40.0%
AATGGAGGAAGATTTCCCTG+AGG - chr4.3:20775902-20775921 None:intergenic 45.0%
AGGAAGGTTTGGAAGTGAAG+TGG - chr4.3:20776032-20776051 None:intergenic 45.0%
ATGGTGAGCTTAGGAAGAGA+TGG - chr4.3:20775938-20775957 None:intergenic 45.0%
CAATAGATGGCGAGCTTCTA+AGG - chr4.3:20775792-20775811 None:intergenic 45.0%
GGAATAGTAGTAGGCAATGG+AGG - chr4.3:20775917-20775936 None:intergenic 45.0%
GGGAAAGTGGTTGGAATTGA+AGG - chr4.3:20776052-20776071 None:intergenic 45.0%
GGTTAGATGTTGAAGGTGGT+GGG - chr4.3:20776093-20776112 None:intergenic 45.0%
GTTAGATGTTGAAGGTGGTG+GGG - chr4.3:20776092-20776111 None:intergenic 45.0%
TTGGTAGGAAAGCTAGGAAG+TGG - chr4.3:20775965-20775984 None:intergenic 45.0%
TTTGGCAAAGTGGGAATGGT+TGG - chr4.3:20775839-20775858 None:intergenic 45.0%
! AGTGGTGGAATGTTGAGAGA+TGG - chr4.3:20776001-20776020 None:intergenic 45.0%
!! GTGGGAATGGTTGGTAAGTT+TGG - chr4.3:20775830-20775849 None:intergenic 45.0%
!!! TGGTTTTGGCAAAGTGGGAA+TGG - chr4.3:20775843-20775862 None:intergenic 45.0%
AAAGCTAGGAAGTGGTGGCA+TGG - chr4.3:20775957-20775976 None:intergenic 50.0%
AAATGGGATGGAGGGGAAAG+TGG - chr4.3:20776065-20776084 None:intergenic 50.0%
GGGTTAGATGTTGAAGGTGG+TGG - chr4.3:20776094-20776113 None:intergenic 50.0%
GTAGGAAAGCTAGGAAGTGG+TGG - chr4.3:20775962-20775981 None:intergenic 50.0%
TTTGGAAGTGAAGTGGCTGC+TGG - chr4.3:20776025-20776044 None:intergenic 50.0%
!! AAGGTGGTGGGGAGAGAAAT+GGG - chr4.3:20776081-20776100 None:intergenic 50.0%
!!! GGTGGCAGTGTTGTTGGTTT+TGG - chr4.3:20775857-20775876 None:intergenic 50.0%
AGTGAAGTGGCTGCTGGTAG+TGG - chr4.3:20776019-20776038 None:intergenic 55.0%
AGTGGTGGCATGGTGAGCTT+AGG - chr4.3:20775947-20775966 None:intergenic 55.0%
GGCAAAGGTGGCAGTGTTGT+TGG - chr4.3:20775863-20775882 None:intergenic 55.0%
GGGAGAGAAATGGGATGGAG+GGG - chr4.3:20776072-20776091 None:intergenic 55.0%
GGGGAGAGAAATGGGATGGA+GGG - chr4.3:20776073-20776092 None:intergenic 55.0%
TGGGGAGAGAAATGGGATGG+AGG - chr4.3:20776074-20776093 None:intergenic 55.0%
TGGTGGGGAGAGAAATGGGA+TGG - chr4.3:20776077-20776096 None:intergenic 55.0%
!! GAAGGTGGTGGGGAGAGAAA+TGG - chr4.3:20776082-20776101 None:intergenic 55.0%
GGGATGGAGGGGAAAGTGGT+TGG - chr4.3:20776061-20776080 None:intergenic 60.0%
!! GAAGTGGCTGCTGGTAGTGG+TGG - chr4.3:20776016-20776035 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 20775728 20776117 20775728 ID=MS.gene068037
chr4.3 mRNA 20775728 20776117 20775728 ID=MS.gene068037.t1;Parent=MS.gene068037
chr4.3 exon 20775728 20776117 20775728 ID=MS.gene068037.t1.exon1;Parent=MS.gene068037.t1
chr4.3 CDS 20775728 20776117 20775728 ID=cds.MS.gene068037.t1;Parent=MS.gene068037.t1
Gene Sequence

>MS.gene068037

ATGGCATCAAGCAAATCCTTCATCACAACTTTACTTCTGGTTGTGACAATGTCAAGCATGACCTTAGAAGCTCGCCATCTATTGCAAACAACAACACAGCCAAACTTACCAACCATTCCCACTTTGCCAAAACCAACAACACTGCCACCTTTGCCTTCAATTCCAAATATGCCTCAGGGAAATCTTCCTCCATTGCCTACTACTATTCCATCTCTTCCTAAGCTCACCATGCCACCACTTCCTAGCTTTCCTACCAATATTCCAACACTTCCATCTCTCAACATTCCACCACTACCAGCAGCCACTTCACTTCCAAACCTTCCTTCAATTCCAACCACTTTCCCCTCCATCCCATTTCTCTCCCCACCACCTTCAACATCTAACCCTTAA

Protein sequence

>MS.gene068037.t1

MASSKSFITTLLLVVTMSSMTLEARHLLQTTTQPNLPTIPTLPKPTTLPPLPSIPNMPQGNLPPLPTTIPSLPKLTMPPLPSFPTNIPTLPSLNIPPLPAATSLPNLPSIPTTFPSIPFLSPPPSTSNP