AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52697

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52697.t1 MTR_1g064570 72.340 188 47 2 1 185 184 369 2.06e-88 265
MS.gene52697.t1 MTR_5g038260 50.794 189 81 4 1 185 172 352 3.10e-57 184
MS.gene52697.t1 MTR_5g038230 45.699 186 69 5 1 185 170 324 2.34e-45 153
MS.gene52697.t1 MTR_5g082780 41.081 185 86 4 1 183 67 230 2.38e-39 134
MS.gene52697.t1 MTR_1g108740 39.024 164 80 3 4 163 167 314 1.65e-28 108
MS.gene52697.t1 MTR_6g023955 87.234 47 6 0 1 47 105 151 8.42e-24 93.6
MS.gene52697.t1 MTR_5g082770 41.259 143 66 4 1 140 163 290 2.86e-23 94.0
MS.gene52697.t1 MTR_7g077660 35.233 193 91 7 2 185 172 339 9.88e-23 93.6
MS.gene52697.t1 MTR_7g076100 38.824 170 86 4 3 165 101 259 2.33e-22 91.7
MS.gene52697.t1 MTR_7g077620 33.523 176 95 4 2 168 172 334 2.33e-22 92.8
MS.gene52697.t1 MTR_7g076110 36.628 172 83 8 2 161 111 268 7.25e-20 85.1
MS.gene52697.t1 MTR_7g077650 33.516 182 91 6 2 168 171 337 1.09e-19 85.5
MS.gene52697.t1 MTR_7g076130 35.338 133 62 5 2 123 29 148 6.07e-13 63.5
MS.gene52697.t1 MTR_1g016150 44.156 77 28 2 76 152 175 236 1.22e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 35 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGTTAAGGCTTGATAGTT+TGG 0.251290 7.2:-15699618 MS.gene52697:CDS
TGAAAGCCGGACAAAAGTTT+TGG 0.292929 7.2:-15699985 MS.gene52697:CDS
TTCATATCAAATGGTCCATT+CGG 0.350533 7.2:+15699467 None:intergenic
CGAAGTGTATAAGTTGGAAT+TGG 0.356208 7.2:-15699666 MS.gene52697:CDS
ATGTTAAGGCTTGATAGTTT+GGG 0.380504 7.2:-15699617 MS.gene52697:CDS
TCTTGATCGTCGTCGTCATC+AGG 0.386056 7.2:+15699722 None:intergenic
ATATCTAGTAGTGGTGCTAT+AGG 0.404207 7.2:-15699692 MS.gene52697:CDS
TCATATCAAATGGTCCATTC+GGG 0.418206 7.2:+15699468 None:intergenic
CCCAATGTTGTTTCATCGCT+AGG 0.428873 7.2:-15699830 MS.gene52697:CDS
TTGGAATTGGATCTTCAAAC+TGG 0.428934 7.2:-15699653 MS.gene52697:CDS
AGCATATCTAGTTAAATCAT+TGG 0.430606 7.2:-15699783 MS.gene52697:CDS
TGGCTTGTAAGAAAAGCTAT+TGG 0.434695 7.2:-15699749 MS.gene52697:CDS
GTAAGCTTATACAAATGTTA+AGG 0.439309 7.2:-15699631 MS.gene52697:CDS
AATGATTTAACTAGATATGC+TGG 0.470766 7.2:+15699785 None:intergenic
GGTCCATTCGGGTAAGGATG+TGG 0.500949 7.2:+15699479 None:intergenic
CAACTCGAAGGATTGTGAAA+AGG 0.503350 7.2:-15699858 MS.gene52697:CDS
CCAATGTTGTTTCATCGCTA+GGG 0.508245 7.2:-15699829 MS.gene52697:CDS
GTTCTTGCTTTCATGAAAGC+CGG 0.509682 7.2:-15699998 None:intergenic
TGGTCTATGCCGTGGGACGT+TGG 0.518643 7.2:-15699907 MS.gene52697:CDS
TCAAATGGTCCATTCGGGTA+AGG 0.521367 7.2:+15699473 None:intergenic
AGGATTCGAAGTGTATAAGT+TGG 0.528528 7.2:-15699672 MS.gene52697:CDS
CCCTAGCGATGAAACAACAT+TGG 0.541359 7.2:+15699829 None:intergenic
CCTAGCGATGAAACAACATT+GGG 0.565603 7.2:+15699830 None:intergenic
TAAAGGCCTGGTCTATGCCG+TGG 0.566400 7.2:-15699915 MS.gene52697:CDS
AACGTCCCACGGCATAGACC+AGG 0.566682 7.2:+15699909 None:intergenic
TTTAGACATTTGCAACTCGA+AGG 0.569913 7.2:-15699870 MS.gene52697:CDS
TATCTAGTTAAATCATTGGA+GGG 0.592285 7.2:-15699779 MS.gene52697:CDS
ATATCTAGTTAAATCATTGG+AGG 0.599911 7.2:-15699780 MS.gene52697:CDS
AAAGGCCTGGTCTATGCCGT+GGG 0.605272 7.2:-15699914 MS.gene52697:CDS
GATGTTATTCCAACGTCCCA+CGG 0.615721 7.2:+15699898 None:intergenic
AATCATTGGAGGGAGACTTG+TGG 0.628442 7.2:-15699769 MS.gene52697:CDS
GATAGTCATATATCTAGTAG+TGG 0.628701 7.2:-15699701 MS.gene52697:CDS
TGTCCACATCCTTACCCGAA+TGG 0.630695 7.2:-15699482 MS.gene52697:CDS
ACAGTCTTCATAGAAATCAT+CGG 0.647279 7.2:+15699502 None:intergenic
GCCTTTATAAAATATAACAT+CGG 0.655155 7.2:+15699931 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAAAGATTTTCATATCAAA+TGG + chr7.2:15699982-15700001 None:intergenic 15.0%
!! GCCTTTATAAAATATAACAT+CGG + chr7.2:15699509-15699528 None:intergenic 20.0%
!!! ACCGATGTTATATTTTATAA+AGG - chr7.2:15699505-15699524 MS.gene52697:CDS 20.0%
! AATGATTTAACTAGATATGC+TGG + chr7.2:15699655-15699674 None:intergenic 25.0%
! AGCATATCTAGTTAAATCAT+TGG - chr7.2:15699654-15699673 MS.gene52697:CDS 25.0%
! ATATCTAGTTAAATCATTGG+AGG - chr7.2:15699657-15699676 MS.gene52697:CDS 25.0%
! GTAAGCTTATACAAATGTTA+AGG - chr7.2:15699806-15699825 MS.gene52697:CDS 25.0%
! TATCTAGTTAAATCATTGGA+GGG - chr7.2:15699658-15699677 MS.gene52697:CDS 25.0%
!! TGTTATATTTTATAAAGGCC+TGG - chr7.2:15699510-15699529 MS.gene52697:CDS 25.0%
!!! GGAGACAATGTTTTATTTAT+GGG - chr7.2:15699841-15699860 MS.gene52697:CDS 25.0%
ACAGTCTTCATAGAAATCAT+CGG + chr7.2:15699938-15699957 None:intergenic 30.0%
GATAGTCATATATCTAGTAG+TGG - chr7.2:15699736-15699755 MS.gene52697:CDS 30.0%
TTCATATCAAATGGTCCATT+CGG + chr7.2:15699973-15699992 None:intergenic 30.0%
! AATGTTAAGGCTTGATAGTT+TGG - chr7.2:15699819-15699838 MS.gene52697:CDS 30.0%
! ATAAGTCCAAAACTTTTGTC+CGG + chr7.2:15699461-15699480 None:intergenic 30.0%
! ATGTTAAGGCTTGATAGTTT+GGG - chr7.2:15699820-15699839 MS.gene52697:CDS 30.0%
!!! GGGAGACAATGTTTTATTTA+TGG - chr7.2:15699840-15699859 MS.gene52697:CDS 30.0%
AGGATTCGAAGTGTATAAGT+TGG - chr7.2:15699765-15699784 MS.gene52697:CDS 35.0%
TCATATCAAATGGTCCATTC+GGG + chr7.2:15699972-15699991 None:intergenic 35.0%
TTGGAATTGGATCTTCAAAC+TGG - chr7.2:15699784-15699803 MS.gene52697:CDS 35.0%
TTTAGACATTTGCAACTCGA+AGG - chr7.2:15699567-15699586 MS.gene52697:CDS 35.0%
! CGAAGTGTATAAGTTGGAAT+TGG - chr7.2:15699771-15699790 MS.gene52697:CDS 35.0%
! TGGCTTGTAAGAAAAGCTAT+TGG - chr7.2:15699688-15699707 MS.gene52697:CDS 35.0%
!! ATATCTAGTAGTGGTGCTAT+AGG - chr7.2:15699745-15699764 MS.gene52697:CDS 35.0%
CAACTCGAAGGATTGTGAAA+AGG - chr7.2:15699579-15699598 MS.gene52697:CDS 40.0%
CCTAGCGATGAAACAACATT+GGG + chr7.2:15699610-15699629 None:intergenic 40.0%
! TGAAAGCCGGACAAAAGTTT+TGG - chr7.2:15699452-15699471 MS.gene52697:CDS 40.0%
!! CCAATGTTGTTTCATCGCTA+GGG - chr7.2:15699608-15699627 MS.gene52697:CDS 40.0%
AATCATTGGAGGGAGACTTG+TGG - chr7.2:15699668-15699687 MS.gene52697:CDS 45.0%
CCCTAGCGATGAAACAACAT+TGG + chr7.2:15699611-15699630 None:intergenic 45.0%
GATGTTATTCCAACGTCCCA+CGG + chr7.2:15699542-15699561 None:intergenic 45.0%
TCAAATGGTCCATTCGGGTA+AGG + chr7.2:15699967-15699986 None:intergenic 45.0%
!! CCCAATGTTGTTTCATCGCT+AGG - chr7.2:15699607-15699626 MS.gene52697:CDS 45.0%
TCTTGATCGTCGTCGTCATC+AGG + chr7.2:15699718-15699737 None:intergenic 50.0%
TGTCCACATCCTTACCCGAA+TGG - chr7.2:15699955-15699974 MS.gene52697:CDS 50.0%
AAAGGCCTGGTCTATGCCGT+GGG - chr7.2:15699523-15699542 MS.gene52697:CDS 55.0%
GGTCCATTCGGGTAAGGATG+TGG + chr7.2:15699961-15699980 None:intergenic 55.0%
TAAAGGCCTGGTCTATGCCG+TGG - chr7.2:15699522-15699541 MS.gene52697:CDS 55.0%
AACGTCCCACGGCATAGACC+AGG + chr7.2:15699531-15699550 None:intergenic 60.0%
TGGTCTATGCCGTGGGACGT+TGG - chr7.2:15699530-15699549 MS.gene52697:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 15699451 15700008 15699451 ID=MS.gene52697
chr7.2 mRNA 15699451 15700008 15699451 ID=MS.gene52697.t1;Parent=MS.gene52697
chr7.2 exon 15699451 15700008 15699451 ID=MS.gene52697.t1.exon1;Parent=MS.gene52697.t1
chr7.2 CDS 15699451 15700008 15699451 ID=cds.MS.gene52697.t1;Parent=MS.gene52697.t1
Gene Sequence

>MS.gene52697

ATGAAAGCCGGACAAAAGTTTTGGACTTATGTTGATCATGACTATTTCTGCTTCACCGATGTTATATTTTATAAAGGCCTGGTCTATGCCGTGGGACGTTGGAATAACATCATCTCTTTAGACATTTGCAACTCGAAGGATTGTGAAAAGGTCATTCCCAATGTTGTTTCATCGCTAGGGAGTGATACTCGTTATGCTCATCCAGCATATCTAGTTAAATCATTGGAGGGAGACTTGTGGCTTGTAAGAAAAGCTATTGGTTTTCCTGATGACGACGACGATCAAGATAGTCATATATCTAGTAGTGGTGCTATAGGATTCGAAGTGTATAAGTTGGAATTGGATCTTCAAACTGGTAAGCTTATACAAATGTTAAGGCTTGATAGTTTGGGAGACAATGTTTTATTTATGGGTGATAGTGATTATGTATCTATGTCAGCTTCGTACTTTGCTAATTATCTACAGAAAGATTCAATTTATTACACCGATGATTTCTATGAAGACTGTCCACATCCTTACCCGAATGGACCATTTGATATGAAAATCTTTAATATGTGA
Protein sequence

>MS.gene52697.t1

MKAGQKFWTYVDHDYFCFTDVIFYKGLVYAVGRWNNIISLDICNSKDCEKVIPNVVSSLGSDTRYAHPAYLVKSLEGDLWLVRKAIGFPDDDDDQDSHISSSGAIGFEVYKLELDLQTGKLIQMLRLDSLGDNVLFMGDSDYVSMSASYFANYLQKDSIYYTDDFYEDCPHPYPNGPFDMKIFNM