AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene34371

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34371.t1 MTR_1g103110 95.263 190 9 0 2 191 1 190 6.88e-131 365
MS.gene34371.t1 MTR_1g103150 85.789 190 27 0 2 191 1 190 8.29e-121 340
MS.gene34371.t1 MTR_5g006470 65.263 190 64 1 2 191 1 188 5.08e-89 259
MS.gene34371.t1 MTR_5g006450 65.104 192 63 2 2 191 1 190 4.31e-88 257
MS.gene34371.t1 MTR_5g006520 62.176 193 69 2 1 191 1718 1908 3.58e-78 254
MS.gene34371.t1 MTR_5g006460 61.735 196 66 6 2 191 1 193 1.88e-76 227
MS.gene34371.t1 MTR_5g006510 56.701 194 73 4 1 191 6 191 5.03e-74 221
MS.gene34371.t1 MTR_7g114410 47.953 171 84 2 20 188 4 171 1.18e-50 161
MS.gene34371.t1 MTR_3g463610 43.182 176 92 2 20 190 3 175 6.67e-47 153
MS.gene34371.t1 MTR_7g114410 48.718 156 75 2 20 173 4 156 4.92e-46 149
MS.gene34371.t1 MTR_7g024760 44.578 166 89 3 23 188 7 169 2.40e-41 137
MS.gene34371.t1 MTR_7g024765 43.976 166 90 3 23 188 7 169 2.12e-40 135
MS.gene34371.t1 MTR_7g024780 40.351 171 100 2 18 188 2 170 3.68e-39 132
MS.gene34371.t1 MTR_1g103320 62.136 103 38 1 54 155 11 113 7.39e-37 124
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34371.t1 AT2G32020 53.892 167 72 3 23 188 18 180 3.96e-59 183
MS.gene34371.t1 AT2G32030 48.936 188 90 4 2 188 3 185 4.29e-59 183
MS.gene34371.t1 AT3G22560 42.529 174 93 3 19 188 2 172 5.80e-40 134

Find 38 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTCTTTAGCATCTGATT+TGG 0.255230 1.2:+76762001 None:intergenic
CCGTCTTCTTTGTTTGTATA+AGG 0.260514 1.2:+76761864 None:intergenic
TGCTATGAGCTCCAAGTATT+GGG 0.261207 1.2:-76761706 MS.gene34371:CDS
TTCAGATCTTGATGATGTTT+TGG 0.285412 1.2:-76761931 MS.gene34371:CDS
GAGATTTGCTTGCTATGTTT+TGG 0.329625 1.2:+76761829 None:intergenic
TAATGGGTCGAAGAGATATT+TGG 0.336769 1.2:+76761958 None:intergenic
ATCAAGATCTGAAAGACTAA+TGG 0.348689 1.2:+76761941 None:intergenic
TTTAGCATCTGATTTGGAAT+AGG 0.367598 1.2:+76762007 None:intergenic
AATACCTTTGCCCCAATACT+TGG 0.403153 1.2:+76761695 None:intergenic
TGCCTTCGCGATCGAGCAAT+CGG 0.411073 1.2:-76761789 MS.gene34371:CDS
CAGAGGGTGTTGGAGAAGGC+TGG 0.411839 1.2:-76761573 MS.gene34371:CDS
ACATAGCAAGCAAATCTCTA+TGG 0.412043 1.2:-76761824 MS.gene34371:CDS
TATCGATTTCTATTTGTGTT+CGG 0.413486 1.2:-76761763 MS.gene34371:CDS
AGGAACAAATCTGCTGAACT+TGG 0.442081 1.2:-76761732 MS.gene34371:CDS
ATGCTATGAGCTCCAAGTAT+TGG 0.448265 1.2:-76761707 MS.gene34371:CDS
CTTGAGCTTCAAGCCGCTCC+AGG 0.458231 1.2:+76761619 None:intergenic
TCAAGATCTGAAAGACTAAT+GGG 0.460408 1.2:+76761942 None:intergenic
TTCTCAGAGGGTGTTGGAGA+AGG 0.470170 1.2:-76761577 MS.gene34371:CDS
CAGAAAATATCTGTTCATCA+AGG 0.472630 1.2:-76761529 MS.gene34371:CDS
ATTTGTGTTCGGATAGATGC+AGG 0.477028 1.2:-76761752 MS.gene34371:CDS
GCTTCAAGCCGCTCCAGGTA+TGG 0.487071 1.2:+76761624 None:intergenic
AGGTTCCCAAGTGCAATACT+TGG 0.527166 1.2:+76761884 None:intergenic
AGCTCCAAGTATTGGGGCAA+AGG 0.537498 1.2:-76761699 MS.gene34371:CDS
TAGAAAATGTGGCTTCTCAG+AGG 0.540854 1.2:-76761590 MS.gene34371:CDS
ATTTAAAGAGTTTCCATACC+TGG 0.542410 1.2:-76761637 MS.gene34371:CDS
GCCTTCGCGATCGAGCAATC+GGG 0.544699 1.2:-76761788 MS.gene34371:CDS
TGTGGCTTCTCAGAGGGTGT+TGG 0.549890 1.2:-76761583 MS.gene34371:CDS
AGAAAATATCTGTTCATCAA+GGG 0.554840 1.2:-76761528 MS.gene34371:CDS
TCAAGTTGATGTAGAAAATG+TGG 0.572167 1.2:-76761601 MS.gene34371:CDS
AAGAGTTTCCATACCTGGAG+CGG 0.585589 1.2:-76761632 MS.gene34371:CDS
CACACTTGTTGTCAAACAAG+TGG 0.596019 1.2:-76761670 MS.gene34371:CDS
AAGTGGCCAAGTATTGCACT+TGG 0.601796 1.2:-76761890 MS.gene34371:CDS
AGAAAATGTGGCTTCTCAGA+GGG 0.613906 1.2:-76761589 MS.gene34371:CDS
CACTTGTTTGACAACAAGTG+TGG 0.622968 1.2:+76761671 None:intergenic
CCTTATACAAACAAAGAAGA+CGG 0.623002 1.2:-76761864 MS.gene34371:CDS
ACCCGATTGCTCGATCGCGA+AGG 0.639229 1.2:+76761787 None:intergenic
GCTATGAGCTCCAAGTATTG+GGG 0.656803 1.2:-76761705 MS.gene34371:CDS
AGTGGCCAAGTATTGCACTT+GGG 0.670287 1.2:-76761889 MS.gene34371:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAAAATATCTGTTCATCAA+GGG - chr1.2:76761971-76761990 MS.gene34371:CDS 25.0%
!!! TATCGATTTCTATTTGTGTT+CGG - chr1.2:76761736-76761755 MS.gene34371:CDS 25.0%
ATCAAGATCTGAAAGACTAA+TGG + chr1.2:76761561-76761580 None:intergenic 30.0%
ATTTAAAGAGTTTCCATACC+TGG - chr1.2:76761862-76761881 MS.gene34371:CDS 30.0%
CAGAAAATATCTGTTCATCA+AGG - chr1.2:76761970-76761989 MS.gene34371:CDS 30.0%
CCTTATACAAACAAAGAAGA+CGG - chr1.2:76761635-76761654 MS.gene34371:CDS 30.0%
TCAAGATCTGAAAGACTAAT+GGG + chr1.2:76761560-76761579 None:intergenic 30.0%
!! TCAAGTTGATGTAGAAAATG+TGG - chr1.2:76761898-76761917 MS.gene34371:CDS 30.0%
!! TTTAGCATCTGATTTGGAAT+AGG + chr1.2:76761495-76761514 None:intergenic 30.0%
!!! TTCAGATCTTGATGATGTTT+TGG - chr1.2:76761568-76761587 MS.gene34371:CDS 30.0%
ACATAGCAAGCAAATCTCTA+TGG - chr1.2:76761675-76761694 MS.gene34371:CDS 35.0%
CAAGGGAAAAAGTAGAGATA+TGG - chr1.2:76761988-76762007 MS.gene34371:CDS 35.0%
CTCTTCTTTAGCATCTGATT+TGG + chr1.2:76761501-76761520 None:intergenic 35.0%
! CCGTCTTCTTTGTTTGTATA+AGG + chr1.2:76761638-76761657 None:intergenic 35.0%
! TAATGGGTCGAAGAGATATT+TGG + chr1.2:76761544-76761563 None:intergenic 35.0%
!!! ATCTTGATGATGTTTTGGTG+TGG - chr1.2:76761573-76761592 MS.gene34371:CDS 35.0%
!!! GAGATTTGCTTGCTATGTTT+TGG + chr1.2:76761673-76761692 None:intergenic 35.0%
AATACCTTTGCCCCAATACT+TGG + chr1.2:76761807-76761826 None:intergenic 40.0%
AGAAAATGTGGCTTCTCAGA+GGG - chr1.2:76761910-76761929 MS.gene34371:CDS 40.0%
AGGAACAAATCTGCTGAACT+TGG - chr1.2:76761767-76761786 MS.gene34371:CDS 40.0%
ATGCTATGAGCTCCAAGTAT+TGG - chr1.2:76761792-76761811 MS.gene34371:CDS 40.0%
ATTTGTGTTCGGATAGATGC+AGG - chr1.2:76761747-76761766 MS.gene34371:CDS 40.0%
CACTTGTTTGACAACAAGTG+TGG + chr1.2:76761831-76761850 None:intergenic 40.0%
GTGGACAAGTGATGAAAAAG+TGG - chr1.2:76761592-76761611 MS.gene34371:CDS 40.0%
TAGAAAATGTGGCTTCTCAG+AGG - chr1.2:76761909-76761928 MS.gene34371:CDS 40.0%
TGCTATGAGCTCCAAGTATT+GGG - chr1.2:76761793-76761812 MS.gene34371:CDS 40.0%
!! CACACTTGTTGTCAAACAAG+TGG - chr1.2:76761829-76761848 MS.gene34371:CDS 40.0%
AAGAGTTTCCATACCTGGAG+CGG - chr1.2:76761867-76761886 MS.gene34371:CDS 45.0%
AGGTTCCCAAGTGCAATACT+TGG + chr1.2:76761618-76761637 None:intergenic 45.0%
! AAGTGGCCAAGTATTGCACT+TGG - chr1.2:76761609-76761628 MS.gene34371:CDS 45.0%
! AGTGGCCAAGTATTGCACTT+GGG - chr1.2:76761610-76761629 MS.gene34371:CDS 45.0%
! GCTATGAGCTCCAAGTATTG+GGG - chr1.2:76761794-76761813 MS.gene34371:CDS 45.0%
!!! AAGGCTGGTTTTCAAAGGGA+GGG - chr1.2:76761941-76761960 MS.gene34371:CDS 45.0%
!!! GGAGAAGGCTGGTTTTCAAA+GGG - chr1.2:76761937-76761956 MS.gene34371:CDS 45.0%
!!! TGGAGAAGGCTGGTTTTCAA+AGG - chr1.2:76761936-76761955 MS.gene34371:CDS 45.0%
!! AGCTCCAAGTATTGGGGCAA+AGG - chr1.2:76761800-76761819 MS.gene34371:CDS 50.0%
!! TTCTCAGAGGGTGTTGGAGA+AGG - chr1.2:76761922-76761941 MS.gene34371:CDS 50.0%
!!! GAAGGCTGGTTTTCAAAGGG+AGG - chr1.2:76761940-76761959 MS.gene34371:CDS 50.0%
TGCCTTCGCGATCGAGCAAT+CGG - chr1.2:76761710-76761729 MS.gene34371:CDS 55.0%
! TGTGGCTTCTCAGAGGGTGT+TGG - chr1.2:76761916-76761935 MS.gene34371:CDS 55.0%
ACCCGATTGCTCGATCGCGA+AGG + chr1.2:76761715-76761734 None:intergenic 60.0%
CTTGAGCTTCAAGCCGCTCC+AGG + chr1.2:76761883-76761902 None:intergenic 60.0%
GCCTTCGCGATCGAGCAATC+GGG - chr1.2:76761711-76761730 MS.gene34371:CDS 60.0%
GCTTCAAGCCGCTCCAGGTA+TGG + chr1.2:76761878-76761897 None:intergenic 60.0%
!! CAGAGGGTGTTGGAGAAGGC+TGG - chr1.2:76761926-76761945 MS.gene34371:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 76761473 76762048 76761473 ID=MS.gene34371
chr1.2 mRNA 76761473 76762048 76761473 ID=MS.gene34371.t1;Parent=MS.gene34371
chr1.2 exon 76761473 76762048 76761473 ID=MS.gene34371.t1.exon1;Parent=MS.gene34371.t1
chr1.2 CDS 76761473 76762048 76761473 ID=cds.MS.gene34371.t1;Parent=MS.gene34371.t1
Gene Sequence

>MS.gene34371

ATGATGGAAAAAACTGCTACCTATTCCAAATCAGATGCTAAAGAAGAGTGTTCTGTTGTTGACTTGAGCCAAATATCTCTTCGACCCATTAGTCTTTCAGATCTTGATGATGTTTTGGTGTGGACAAGTGATGAAAAAGTGGCCAAGTATTGCACTTGGGAACCTTATACAAACAAAGAAGACGGCATTGACTTCATCCAAAACATAGCAAGCAAATCTCTATGGTTCAGAGCAATTTGCCTTCGCGATCGAGCAATCGGGTGTATCGATTTCTATTTGTGTTCGGATAGATGCAGGAACAAATCTGCTGAACTTGGCTATGCTATGAGCTCCAAGTATTGGGGCAAAGGTATTGCCACACTTGTTGTCAAACAAGTGGTTGAAGCTGCATTTAAAGAGTTTCCATACCTGGAGCGGCTTGAAGCTCAAGTTGATGTAGAAAATGTGGCTTCTCAGAGGGTGTTGGAGAAGGCTGGTTTTCAAAGGGAGGGTGTTCTCAGAAAATATCTGTTCATCAAGGGAAAAAGTAGAGATATGGTTATGTTCAGTATTCTCTCAAGTGAAGTTCAAATTTGA
Protein sequence

>MS.gene34371.t1

MMEKTATYSKSDAKEECSVVDLSQISLRPISLSDLDDVLVWTSDEKVAKYCTWEPYTNKEDGIDFIQNIASKSLWFRAICLRDRAIGCIDFYLCSDRCRNKSAELGYAMSSKYWGKGIATLVVKQVVEAAFKEFPYLERLEAQVDVENVASQRVLEKAGFQREGVLRKYLFIKGKSRDMVMFSILSSEVQI