AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050563


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050563.t1 MTR_7g115700 97.647 170 3 1 1 169 1 170 3.97e-124 346
MS.gene050563.t1 MTR_5g072510 72.263 137 31 4 26 158 36 169 1.07e-67 205
MS.gene050563.t1 MTR_4g094428 68.571 140 37 4 25 160 44 180 2.87e-64 197
MS.gene050563.t1 MTR_1g442860 73.438 128 28 3 27 151 65 189 4.07e-64 196
MS.gene050563.t1 MTR_2g016110 71.318 129 31 3 25 150 33 158 9.05e-63 191
MS.gene050563.t1 MTR_1g080210 73.288 146 33 3 27 169 40 182 2.10e-62 191
MS.gene050563.t1 MTR_2g092950 65.306 147 45 3 16 159 12 155 4.38e-62 189
MS.gene050563.t1 MTR_2g076400 68.217 129 35 3 25 150 31 156 5.15e-60 184
MS.gene050563.t1 MTR_1g075990 70.213 141 36 3 19 156 45 182 9.17e-60 184
MS.gene050563.t1 MTR_4g079930 66.667 129 37 3 25 150 27 152 1.79e-59 183
MS.gene050563.t1 MTR_7g097030 72.263 137 32 3 23 156 60 193 4.58e-59 183
MS.gene050563.t1 MTR_1g069825 73.684 133 29 3 27 156 52 181 1.49e-58 182
MS.gene050563.t1 MTR_3g031830 68.276 145 39 4 27 167 42 183 1.46e-56 177
MS.gene050563.t1 MTR_8g086350 64.865 148 43 5 25 167 29 172 3.45e-48 154
MS.gene050563.t1 MTR_1g114020 65.385 52 17 1 20 71 64 114 6.02e-17 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050563.t1 AT5G58500 70.423 142 36 4 26 163 18 157 1.64e-67 203
MS.gene050563.t1 AT1G07090 65.493 142 43 3 26 164 30 168 1.49e-64 196
MS.gene050563.t1 AT5G28490 76.471 136 26 3 27 159 25 157 1.61e-62 191
MS.gene050563.t1 AT3G04510 70.714 140 35 3 27 163 33 169 8.56e-60 184
MS.gene050563.t1 AT2G42610 67.969 128 35 3 26 150 24 148 2.55e-59 182
MS.gene050563.t1 AT2G42610 67.969 128 35 3 26 150 24 148 2.55e-59 182
MS.gene050563.t1 AT2G31160 75.556 135 26 4 27 157 54 185 4.54e-58 181
MS.gene050563.t1 AT4G18610 65.116 129 38 3 26 150 36 161 2.18e-57 178
MS.gene050563.t1 AT3G23290 75.573 131 26 3 23 150 44 171 2.69e-57 178
MS.gene050563.t1 AT1G78815 63.566 129 41 3 25 150 38 163 2.96e-55 173
MS.gene050563.t1 AT1G16910 58.955 134 49 3 25 155 21 151 3.23e-52 164

Find 50 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCACTACCTTGATCAATT+TGG 0.137888 7.3:-1901821 MS.gene050563:CDS
TGTTCCAGTCCCTCCTCTTT+TGG 0.212846 7.3:+1901924 None:intergenic
AATCCAACTTGTCCTTTCTT+TGG 0.215866 7.3:-1901782 MS.gene050563:CDS
ATCCAACTTGTCCTTTCTTT+GGG 0.324334 7.3:-1901781 MS.gene050563:CDS
TTCACTACCTTGATCAATTT+GGG 0.326576 7.3:-1901820 MS.gene050563:CDS
TTGTCCTCTCCGTCAGGCTT+GGG 0.343185 7.3:-1901732 MS.gene050563:CDS
CTTGTCCTCTCCGTCAGGCT+TGG 0.356689 7.3:-1901733 MS.gene050563:CDS
CATGGTGGAAGTAACCCTTT+TGG 0.395005 7.3:-1901656 MS.gene050563:CDS
GCACATGGAGATGGAGGGTT+TGG 0.411549 7.3:+1901755 None:intergenic
CACTTCCATTGTAGCTGCTA+GGG 0.441671 7.3:+1901984 None:intergenic
GTCGATGGTTTCTTAAGTAC+TGG 0.444811 7.3:+1901894 None:intergenic
ATGTGCTTGTCCTCTCCGTC+AGG 0.459665 7.3:-1901738 MS.gene050563:CDS
TGATCAATTTGGGAAGACTA+AGG 0.465045 7.3:-1901810 MS.gene050563:CDS
GTGGTGGCAACAAGATCAAC+AGG 0.470799 7.3:-1901955 MS.gene050563:CDS
CTAACAGCGCCATCACCAAA+AGG 0.486109 7.3:+1901641 None:intergenic
GAGTTAGCTACCATAAGAAA+AGG 0.502671 7.3:-1901574 MS.gene050563:CDS
TAGTCTTCCCAAATTGATCA+AGG 0.503689 7.3:+1901813 None:intergenic
GTAGTTGTGATGTTGCGGTT+AGG 0.503903 7.3:+1901545 None:intergenic
GCTTATGATCAAGAGATTCA+TGG 0.517251 7.3:-1901674 MS.gene050563:CDS
ATTGAAGCAGAAAGTGGTAC+TGG 0.535622 7.3:+1901872 None:intergenic
TCACTTCCATTGTAGCTGCT+AGG 0.535763 7.3:+1901983 None:intergenic
TTATACAAGAAATATGGCAT+TGG 0.537262 7.3:-1902026 None:intergenic
AGAGCCAAAAGAGGAGGGAC+TGG 0.543509 7.3:-1901928 MS.gene050563:CDS
CTTTCTGCTTCAATGTGCAA+TGG 0.545802 7.3:-1901863 MS.gene050563:CDS
TGTCCTCTCCGTCAGGCTTG+GGG 0.552431 7.3:-1901731 MS.gene050563:CDS
GGTAGCCTTGATGCTCTCAT+CGG 0.556787 7.3:-1901710 MS.gene050563:CDS
AGAGGACAAGCACATGGAGA+TGG 0.557220 7.3:+1901746 None:intergenic
CAAATTGATCAAGGTAGTGA+AGG 0.557585 7.3:+1901822 None:intergenic
GGGTTTGGCATCCCAAAGAA+AGG 0.560750 7.3:+1901770 None:intergenic
ACAAACCCTAGCAGCTACAA+TGG 0.562580 7.3:-1901989 MS.gene050563:CDS
TTGCACATTGAAGCAGAAAG+TGG 0.564133 7.3:+1901866 None:intergenic
TAACAGCGCCATCACCAAAA+GGG 0.569402 7.3:+1901642 None:intergenic
GGTACGAGAGCCAAAAGAGG+AGG 0.572937 7.3:-1901934 MS.gene050563:CDS
CATGACAAATAGAAATCAAG+AGG 0.576026 7.3:+1901511 None:intergenic
GGACAAGCACATGGAGATGG+AGG 0.578694 7.3:+1901749 None:intergenic
ATCCCAAAGAAAGGACAAGT+TGG 0.587746 7.3:+1901779 None:intergenic
CAGAAAGTGGTACTGGTCGA+TGG 0.588396 7.3:+1901879 None:intergenic
GAGAAGTAGTTGTGATGTTG+CGG 0.588969 7.3:+1901540 None:intergenic
CAAGGCTACCCCAAGCCTGA+CGG 0.597531 7.3:+1901723 None:intergenic
ACAGGTACGAGAGCCAAAAG+AGG 0.613687 7.3:-1901937 MS.gene050563:CDS
TGACGGAGAGGACAAGCACA+TGG 0.624357 7.3:+1901740 None:intergenic
AATGGAAGTGATTCAAGTGG+TGG 0.625867 7.3:-1901971 MS.gene050563:CDS
GGCGACCGATGAGAGCATCA+AGG 0.637841 7.3:+1901705 None:intergenic
GTACGAGAGCCAAAAGAGGA+GGG 0.648371 7.3:-1901933 MS.gene050563:CDS
GACAAGCACATGGAGATGGA+GGG 0.652537 7.3:+1901750 None:intergenic
CTACCCCAAGCCTGACGGAG+AGG 0.655871 7.3:+1901728 None:intergenic
TACAATGGAAGTGATTCAAG+TGG 0.673612 7.3:-1901974 MS.gene050563:CDS
CTTGATCATAAGCAGCGCGG+AGG 0.674942 7.3:+1901684 None:intergenic
TATGATCAAGAGATTCATGG+TGG 0.715975 7.3:-1901671 MS.gene050563:CDS
TCTCTTGATCATAAGCAGCG+CGG 0.775865 7.3:+1901681 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTCACTACCTTGATCAATTT+GGG - chr7.3:1901719-1901738 MS.gene050563:CDS 30.0%
AATCCAACTTGTCCTTTCTT+TGG - chr7.3:1901757-1901776 MS.gene050563:CDS 35.0%
ATCCAACTTGTCCTTTCTTT+GGG - chr7.3:1901758-1901777 MS.gene050563:CDS 35.0%
CAAATTGATCAAGGTAGTGA+AGG + chr7.3:1901720-1901739 None:intergenic 35.0%
CTTCACTACCTTGATCAATT+TGG - chr7.3:1901718-1901737 MS.gene050563:CDS 35.0%
GAGTTAGCTACCATAAGAAA+AGG - chr7.3:1901965-1901984 MS.gene050563:CDS 35.0%
GCTTATGATCAAGAGATTCA+TGG - chr7.3:1901865-1901884 MS.gene050563:CDS 35.0%
TACAATGGAAGTGATTCAAG+TGG - chr7.3:1901565-1901584 MS.gene050563:CDS 35.0%
TAGTCTTCCCAAATTGATCA+AGG + chr7.3:1901729-1901748 None:intergenic 35.0%
TATGATCAAGAGATTCATGG+TGG - chr7.3:1901868-1901887 MS.gene050563:CDS 35.0%
TGATCAATTTGGGAAGACTA+AGG - chr7.3:1901729-1901748 MS.gene050563:CDS 35.0%
! TAGGTCTCTTCCTTTTCTTA+TGG + chr7.3:1901978-1901997 None:intergenic 35.0%
! TGTTCGTGATTTTCAGTCAA+AGG - chr7.3:1901936-1901955 MS.gene050563:CDS 35.0%
AATGGAAGTGATTCAAGTGG+TGG - chr7.3:1901568-1901587 MS.gene050563:CDS 40.0%
ATCCCAAAGAAAGGACAAGT+TGG + chr7.3:1901763-1901782 None:intergenic 40.0%
ATTGAAGCAGAAAGTGGTAC+TGG + chr7.3:1901670-1901689 None:intergenic 40.0%
CTTTCTGCTTCAATGTGCAA+TGG - chr7.3:1901676-1901695 MS.gene050563:CDS 40.0%
GAGAAGTAGTTGTGATGTTG+CGG + chr7.3:1902002-1902021 None:intergenic 40.0%
GTCGATGGTTTCTTAAGTAC+TGG + chr7.3:1901648-1901667 None:intergenic 40.0%
TTGCACATTGAAGCAGAAAG+TGG + chr7.3:1901676-1901695 None:intergenic 40.0%
! GATTTTCAGTCAAAGGCTAG+AGG - chr7.3:1901943-1901962 MS.gene050563:CDS 40.0%
ACAAACCCTAGCAGCTACAA+TGG - chr7.3:1901550-1901569 MS.gene050563:CDS 45.0%
CACTTCCATTGTAGCTGCTA+GGG + chr7.3:1901558-1901577 None:intergenic 45.0%
GTAGTTGTGATGTTGCGGTT+AGG + chr7.3:1901997-1902016 None:intergenic 45.0%
TAACAGCGCCATCACCAAAA+GGG + chr7.3:1901900-1901919 None:intergenic 45.0%
TCACTTCCATTGTAGCTGCT+AGG + chr7.3:1901559-1901578 None:intergenic 45.0%
TCTCTTGATCATAAGCAGCG+CGG + chr7.3:1901861-1901880 None:intergenic 45.0%
! GGAAGTAACCCTTTTGGTGA+TGG - chr7.3:1901889-1901908 MS.gene050563:CDS 45.0%
!! CATGGTGGAAGTAACCCTTT+TGG - chr7.3:1901883-1901902 MS.gene050563:CDS 45.0%
ACAGGTACGAGAGCCAAAAG+AGG - chr7.3:1901602-1901621 MS.gene050563:CDS 50.0%
AGAGGACAAGCACATGGAGA+TGG + chr7.3:1901796-1901815 None:intergenic 50.0%
CTAACAGCGCCATCACCAAA+AGG + chr7.3:1901901-1901920 None:intergenic 50.0%
GACAAGCACATGGAGATGGA+GGG + chr7.3:1901792-1901811 None:intergenic 50.0%
GGGTTTGGCATCCCAAAGAA+AGG + chr7.3:1901772-1901791 None:intergenic 50.0%
GTACGAGAGCCAAAAGAGGA+GGG - chr7.3:1901606-1901625 MS.gene050563:CDS 50.0%
GTGGTGGCAACAAGATCAAC+AGG - chr7.3:1901584-1901603 MS.gene050563:CDS 50.0%
! GGTAGCCTTGATGCTCTCAT+CGG - chr7.3:1901829-1901848 MS.gene050563:CDS 50.0%
! TGTTCCAGTCCCTCCTCTTT+TGG + chr7.3:1901618-1901637 None:intergenic 50.0%
!! CAGAAAGTGGTACTGGTCGA+TGG + chr7.3:1901663-1901682 None:intergenic 50.0%
!!! CTTTTGGTGATGGCGCTGTT+AGG - chr7.3:1901899-1901918 MS.gene050563:CDS 50.0%
AGAGCCAAAAGAGGAGGGAC+TGG - chr7.3:1901611-1901630 MS.gene050563:CDS 55.0%
ATGTGCTTGTCCTCTCCGTC+AGG - chr7.3:1901801-1901820 MS.gene050563:CDS 55.0%
CTTGATCATAAGCAGCGCGG+AGG + chr7.3:1901858-1901877 None:intergenic 55.0%
GCACATGGAGATGGAGGGTT+TGG + chr7.3:1901787-1901806 None:intergenic 55.0%
GGACAAGCACATGGAGATGG+AGG + chr7.3:1901793-1901812 None:intergenic 55.0%
GGTACGAGAGCCAAAAGAGG+AGG - chr7.3:1901605-1901624 MS.gene050563:CDS 55.0%
TGACGGAGAGGACAAGCACA+TGG + chr7.3:1901802-1901821 None:intergenic 55.0%
TTGTCCTCTCCGTCAGGCTT+GGG - chr7.3:1901807-1901826 MS.gene050563:CDS 55.0%
CAAGGCTACCCCAAGCCTGA+CGG + chr7.3:1901819-1901838 None:intergenic 60.0%
CTTGTCCTCTCCGTCAGGCT+TGG - chr7.3:1901806-1901825 MS.gene050563:CDS 60.0%
TGTCCTCTCCGTCAGGCTTG+GGG - chr7.3:1901808-1901827 MS.gene050563:CDS 60.0%
!! GGCGACCGATGAGAGCATCA+AGG + chr7.3:1901837-1901856 None:intergenic 60.0%
CTACCCCAAGCCTGACGGAG+AGG + chr7.3:1901814-1901833 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 1901526 1902035 1901526 ID=MS.gene050563
chr7.3 mRNA 1901526 1902035 1901526 ID=MS.gene050563.t1;Parent=MS.gene050563
chr7.3 exon 1901526 1902035 1901526 ID=MS.gene050563.t1.exon1;Parent=MS.gene050563.t1
chr7.3 CDS 1901526 1902035 1901526 ID=cds.MS.gene050563.t1;Parent=MS.gene050563.t1
Gene Sequence

>MS.gene050563

ATGGCATTGGTTTCAGCTGAATCAACAAACCCTAGCAGCTACAATGGAAGTGATTCAAGTGGTGGCAACAAGATCAACAGGTACGAGAGCCAAAAGAGGAGGGACTGGAACACATTCTGCCAGTACTTAAGAAACCATCGACCAGTACCACTTTCTGCTTCAATGTGCAATGGAACTCATGTTCTTGAATTCCTTCACTACCTTGATCAATTTGGGAAGACTAAGGTTCACAATCCAACTTGTCCTTTCTTTGGGATGCCAAACCCTCCATCTCCATGTGCTTGTCCTCTCCGTCAGGCTTGGGGTAGCCTTGATGCTCTCATCGGTCGCCTCCGCGCTGCTTATGATCAAGAGATTCATGGTGGAAGTAACCCTTTTGGTGATGGCGCTGTTAGGTTTTACTTGCGTGATGTTCGTGATTTTCAGTCAAAGGCTAGAGGAGTTAGCTACCATAAGAAAAGGAAGAGACCTAACCGCAACATCACAACTACTTCTCAATCATCCTCTTGA

Protein sequence

>MS.gene050563.t1

MALVSAESTNPSSYNGSDSSGGNKINRYESQKRRDWNTFCQYLRNHRPVPLSASMCNGTHVLEFLHYLDQFGKTKVHNPTCPFFGMPNPPSPCACPLRQAWGSLDALIGRLRAAYDQEIHGGSNPFGDGAVRFYLRDVRDFQSKARGVSYHKKRKRPNRNITTTSQSSS