AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81219

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81219.t1 AT5G22250 60.650 277 102 4 3 272 1 277 3.56e-114 330
MS.gene81219.t1 AT3G44260 56.667 270 112 3 7 272 11 279 1.72e-106 310
MS.gene81219.t1 AT5G10960 47.037 270 139 4 4 272 1 267 1.21e-85 257
MS.gene81219.t1 AT2G32070 48.473 262 130 4 13 272 10 268 9.08e-83 250
MS.gene81219.t1 AT1G80780 47.126 261 134 4 13 272 10 267 4.21e-80 243
MS.gene81219.t1 AT1G80780 47.126 261 134 4 13 272 10 267 4.21e-80 243
MS.gene81219.t1 AT1G80780 47.126 261 134 4 13 272 10 267 6.72e-80 243
MS.gene81219.t1 AT1G15920 46.886 273 133 7 7 271 8 276 2.31e-77 236
MS.gene81219.t1 AT1G15920 46.886 273 133 7 7 271 8 276 2.31e-77 236
MS.gene81219.t1 AT1G61470 36.364 242 137 6 14 251 1 229 1.93e-40 141
MS.gene81219.t1 AT1G06450 34.426 244 147 6 14 254 8 241 6.39e-38 137
MS.gene81219.t1 AT3G44240 34.934 229 136 6 28 254 2 219 7.87e-35 125
MS.gene81219.t1 AT1G27820 33.600 250 141 9 11 251 2 235 1.33e-33 124
MS.gene81219.t1 AT1G27890 33.471 242 140 8 17 251 3 230 9.37e-32 119

Find 58 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTACTCTAATGCACTTTA+TGG 0.122182 5.2:+81760128 MS.gene81219:CDS
TTCCACAGTGCGTATGATTT+TGG 0.151783 5.2:+81759993 MS.gene81219:CDS
CTCAATGGATACTGAATTTC+CGG 0.195961 5.2:+81759626 MS.gene81219:CDS
AATTGTATCCCCACACTTTA+CGG 0.267621 5.2:-81759551 None:intergenic
TATTGACTTGCTCCGCCGTC+AGG 0.317248 5.2:+81759863 MS.gene81219:CDS
CAAGTAACTGTATTGCTCAT+TGG 0.320243 5.2:-81759688 None:intergenic
TCAGATCGGTCTTACCTTAT+CGG 0.320555 5.2:+81759740 MS.gene81219:CDS
AAGTAACTGTATTGCTCATT+GGG 0.348772 5.2:-81759687 None:intergenic
ATGAGAACAGTCGCTACATC+TGG 0.354062 5.2:+81759787 MS.gene81219:CDS
TCCGTGACTTTAATGTCAAC+AGG 0.355418 5.2:+81759820 MS.gene81219:CDS
TTCTTTCGCAACACTGTTCA+AGG 0.358495 5.2:+81759894 MS.gene81219:CDS
ATTCAGTCTCATTCGTCAAT+TGG 0.380629 5.2:+81759584 MS.gene81219:CDS
TAAATACAATTTCATCTCAA+TGG 0.399234 5.2:+81759611 MS.gene81219:CDS
CACACTTTACGGATCATGAT+TGG 0.401574 5.2:-81759540 None:intergenic
AACTGTCGGATCCAGCTTGA+TGG 0.430459 5.2:-81760205 None:intergenic
GCTACGCTGATGCGGTGGTC+TGG 0.430872 5.2:+81759936 MS.gene81219:CDS
AAGCACGCTGGATCAATATT+CGG 0.452737 5.2:+81760290 MS.gene81219:CDS
CGAGTATTCTTCAAGTGGAT+CGG 0.453450 5.2:+81760168 MS.gene81219:CDS
AACTGTATTGCTCATTGGGT+TGG 0.457601 5.2:-81759683 None:intergenic
CTTACCTTATCGGATGCAAT+AGG 0.458429 5.2:+81759750 MS.gene81219:CDS
TTGGAGGCGACGACGGATTG+TGG 0.464331 5.2:-81759664 None:intergenic
TGTATTGCTCATTGGGTTGG+AGG 0.469216 5.2:-81759680 None:intergenic
CTTCAAGTGGATCGGGCCAT+TGG 0.478735 5.2:+81760176 MS.gene81219:CDS
TGGAGGCGACGACGGATTGT+GGG 0.482460 5.2:-81759663 None:intergenic
TCAATGGATACTGAATTTCC+GGG 0.489209 5.2:+81759627 MS.gene81219:CDS
GAGTATTCTTCAAGTGGATC+GGG 0.498516 5.2:+81760169 MS.gene81219:CDS
AGTCTCATTCGTCAATTGGT+TGG 0.509621 5.2:+81759588 MS.gene81219:CDS
TGAGCAATACAGTTACTTGA+AGG 0.514649 5.2:+81759692 MS.gene81219:CDS
GTTACCTATTGCATCCGATA+AGG 0.524193 5.2:-81759754 None:intergenic
ATTGGTAAGTGCCATCAAGC+TGG 0.527440 5.2:+81760194 MS.gene81219:CDS
ATTGACTTGCTCCGCCGTCA+GGG 0.527736 5.2:+81759864 MS.gene81219:CDS
GACCACAATGATAATGATGA+AGG 0.545956 5.2:+81759500 None:intergenic
GACGACGGATTGTGGGTGAA+TGG 0.565974 5.2:-81759656 None:intergenic
GTGGGTGAATGGACGATGCC+CGG 0.568102 5.2:-81759645 None:intergenic
CCCTGTTGACATTAAAGTCA+CGG 0.568328 5.2:-81759821 None:intergenic
CAATAGAGTCTTTGTTGTGG+AGG 0.575807 5.2:-81759845 None:intergenic
CATTGGGTTGGAGGCGACGA+CGG 0.576634 5.2:-81759671 None:intergenic
AATCATGATCCGTAAAGTGT+GGG 0.578633 5.2:+81759542 MS.gene81219:CDS
AGTTGCGAGTATTCTTCAAG+TGG 0.590018 5.2:+81760163 MS.gene81219:CDS
CAATCATGATCCGTAAAGTG+TGG 0.590475 5.2:+81759541 MS.gene81219:CDS
TGAGAACAGTCGCTACATCT+GGG 0.592809 5.2:+81759788 MS.gene81219:CDS
TAGCGACTGTTCTCATCATG+AGG 0.601877 5.2:-81759780 None:intergenic
TTTCAACAACTCAGTGACAT+GGG 0.602278 5.2:+81759965 MS.gene81219:CDS
TACTCTAATGCACTTTATGG+CGG 0.605426 5.2:+81760131 MS.gene81219:CDS
CCGTGACTTTAATGTCAACA+GGG 0.617178 5.2:+81759821 MS.gene81219:CDS
AGCTTGATGGCACTTACCAA+TGG 0.623590 5.2:-81760192 None:intergenic
AGTCAATAGAGTCTTTGTTG+TGG 0.637942 5.2:-81759848 None:intergenic
CATAAAGTGCATTAGAGTAG+CGG 0.649775 5.2:-81760127 None:intergenic
GACTGTTCTCATCATGAGGG+AGG 0.654467 5.2:-81759776 None:intergenic
GATATTGAGAGCGTCAACGT+TGG 0.662239 5.2:-81759715 None:intergenic
ATCATGATCCGTAAAGTGTG+GGG 0.662913 5.2:+81759543 MS.gene81219:CDS
AGCGACTGTTCTCATCATGA+GGG 0.665310 5.2:-81759779 None:intergenic
ATCCAAAATCATACGCACTG+TGG 0.668840 5.2:-81759995 None:intergenic
GCTCTCAATATCATTCAGAT+CGG 0.674471 5.2:+81759726 MS.gene81219:CDS
CTGCGACGTCAACAAACTGT+CGG 0.689188 5.2:-81760219 None:intergenic
ATCTGGTGAAAATCTTAACG+CGG 0.719522 5.2:+81760018 MS.gene81219:CDS
GAAAGAAGTCGATACCCTGA+CGG 0.733589 5.2:-81759878 None:intergenic
AGAAGTCGATACCCTGACGG+CGG 0.736815 5.2:-81759875 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAATACAATTTCATCTCAA+TGG + chr5.2:81759611-81759630 MS.gene81219:CDS 20.0%
!!! CATGTTTTGAGAAAATTATT+TGG + chr5.2:81760074-81760093 MS.gene81219:CDS 20.0%
AAGTAACTGTATTGCTCATT+GGG - chr5.2:81759690-81759709 None:intergenic 30.0%
!!! ATCATGATTGGTTTTGAACT+AGG - chr5.2:81759531-81759550 None:intergenic 30.0%
AAAAACTCTTTCAAGCTACG+AGG - chr5.2:81760053-81760072 None:intergenic 35.0%
AATCATGATCCGTAAAGTGT+GGG + chr5.2:81759542-81759561 MS.gene81219:CDS 35.0%
AATTGTATCCCCACACTTTA+CGG - chr5.2:81759554-81759573 None:intergenic 35.0%
AGTCAATAGAGTCTTTGTTG+TGG - chr5.2:81759851-81759870 None:intergenic 35.0%
ATCTGGTGAAAATCTTAACG+CGG + chr5.2:81760018-81760037 MS.gene81219:CDS 35.0%
ATTCAGTCTCATTCGTCAAT+TGG + chr5.2:81759584-81759603 MS.gene81219:CDS 35.0%
CAAGTAACTGTATTGCTCAT+TGG - chr5.2:81759691-81759710 None:intergenic 35.0%
CATAAAGTGCATTAGAGTAG+CGG - chr5.2:81760130-81760149 None:intergenic 35.0%
CTCAATGGATACTGAATTTC+CGG + chr5.2:81759626-81759645 MS.gene81219:CDS 35.0%
GCTCTCAATATCATTCAGAT+CGG + chr5.2:81759726-81759745 MS.gene81219:CDS 35.0%
TACTCTAATGCACTTTATGG+CGG + chr5.2:81760131-81760150 MS.gene81219:CDS 35.0%
TCAATGGATACTGAATTTCC+GGG + chr5.2:81759627-81759646 MS.gene81219:CDS 35.0%
TGAGCAATACAGTTACTTGA+AGG + chr5.2:81759692-81759711 MS.gene81219:CDS 35.0%
TTTCAACAACTCAGTGACAT+GGG + chr5.2:81759965-81759984 MS.gene81219:CDS 35.0%
! TGCGTATGATTTTGGATATC+TGG + chr5.2:81760001-81760020 MS.gene81219:CDS 35.0%
! TTTTCAACAACTCAGTGACA+TGG + chr5.2:81759964-81759983 MS.gene81219:CDS 35.0%
AACTGTATTGCTCATTGGGT+TGG - chr5.2:81759686-81759705 None:intergenic 40.0%
AAGCACGCTGGATCAATATT+CGG + chr5.2:81760290-81760309 MS.gene81219:CDS 40.0%
AGTCTCATTCGTCAATTGGT+TGG + chr5.2:81759588-81759607 MS.gene81219:CDS 40.0%
AGTTGCGAGTATTCTTCAAG+TGG + chr5.2:81760163-81760182 MS.gene81219:CDS 40.0%
ATCATGATCCGTAAAGTGTG+GGG + chr5.2:81759543-81759562 MS.gene81219:CDS 40.0%
ATCCAAAATCATACGCACTG+TGG - chr5.2:81759998-81760017 None:intergenic 40.0%
CAATCATGATCCGTAAAGTG+TGG + chr5.2:81759541-81759560 MS.gene81219:CDS 40.0%
CACACTTTACGGATCATGAT+TGG - chr5.2:81759543-81759562 None:intergenic 40.0%
CCCTGTTGACATTAAAGTCA+CGG - chr5.2:81759824-81759843 None:intergenic 40.0%
CCGTGACTTTAATGTCAACA+GGG + chr5.2:81759821-81759840 MS.gene81219:CDS 40.0%
CGAGTATTCTTCAAGTGGAT+CGG + chr5.2:81760168-81760187 MS.gene81219:CDS 40.0%
CGCTACTCTAATGCACTTTA+TGG + chr5.2:81760128-81760147 MS.gene81219:CDS 40.0%
CTTACCTTATCGGATGCAAT+AGG + chr5.2:81759750-81759769 MS.gene81219:CDS 40.0%
GAGTATTCTTCAAGTGGATC+GGG + chr5.2:81760169-81760188 MS.gene81219:CDS 40.0%
GTTACCTATTGCATCCGATA+AGG - chr5.2:81759757-81759776 None:intergenic 40.0%
TCAGATCGGTCTTACCTTAT+CGG + chr5.2:81759740-81759759 MS.gene81219:CDS 40.0%
TCCGTGACTTTAATGTCAAC+AGG + chr5.2:81759820-81759839 MS.gene81219:CDS 40.0%
TTCTTTCGCAACACTGTTCA+AGG + chr5.2:81759894-81759913 MS.gene81219:CDS 40.0%
! AATGAAGTCAAAAAGCACGC+TGG + chr5.2:81760278-81760297 MS.gene81219:CDS 40.0%
! CAATAGAGTCTTTGTTGTGG+AGG - chr5.2:81759848-81759867 None:intergenic 40.0%
! TTCATTTTGCTACGCTGATG+CGG + chr5.2:81759928-81759947 MS.gene81219:CDS 40.0%
! TTCCACAGTGCGTATGATTT+TGG + chr5.2:81759993-81760012 MS.gene81219:CDS 40.0%
AGCGACTGTTCTCATCATGA+GGG - chr5.2:81759782-81759801 None:intergenic 45.0%
ATGAGAACAGTCGCTACATC+TGG + chr5.2:81759787-81759806 MS.gene81219:CDS 45.0%
ATTGGTAAGTGCCATCAAGC+TGG + chr5.2:81760194-81760213 MS.gene81219:CDS 45.0%
GAAAGAAGTCGATACCCTGA+CGG - chr5.2:81759881-81759900 None:intergenic 45.0%
TAGCGACTGTTCTCATCATG+AGG - chr5.2:81759783-81759802 None:intergenic 45.0%
TGAGAACAGTCGCTACATCT+GGG + chr5.2:81759788-81759807 MS.gene81219:CDS 45.0%
! AGCTTGATGGCACTTACCAA+TGG - chr5.2:81760195-81760214 None:intergenic 45.0%
! GTCGCAGACTTTTCACAAGA+TGG + chr5.2:81760235-81760254 MS.gene81219:CDS 45.0%
!! GATATTGAGAGCGTCAACGT+TGG - chr5.2:81759718-81759737 None:intergenic 45.0%
!! TGTATTGCTCATTGGGTTGG+AGG - chr5.2:81759683-81759702 None:intergenic 45.0%
AACTGTCGGATCCAGCTTGA+TGG - chr5.2:81760208-81760227 None:intergenic 50.0%
CTGCGACGTCAACAAACTGT+CGG - chr5.2:81760222-81760241 None:intergenic 50.0%
GACTGTTCTCATCATGAGGG+AGG - chr5.2:81759779-81759798 None:intergenic 50.0%
! ATTTTGCTACGCTGATGCGG+TGG + chr5.2:81759931-81759950 MS.gene81219:CDS 50.0%
AGAAGTCGATACCCTGACGG+CGG - chr5.2:81759878-81759897 None:intergenic 55.0%
CTTCAAGTGGATCGGGCCAT+TGG + chr5.2:81760176-81760195 MS.gene81219:CDS 55.0%
!! ATTGACTTGCTCCGCCGTCA+GGG + chr5.2:81759864-81759883 MS.gene81219:CDS 55.0%
!! GACGACGGATTGTGGGTGAA+TGG - chr5.2:81759659-81759678 None:intergenic 55.0%
!! TATTGACTTGCTCCGCCGTC+AGG + chr5.2:81759863-81759882 MS.gene81219:CDS 55.0%
GTGGGTGAATGGACGATGCC+CGG - chr5.2:81759648-81759667 None:intergenic 60.0%
!! CATTGGGTTGGAGGCGACGA+CGG - chr5.2:81759674-81759693 None:intergenic 60.0%
!! TGGAGGCGACGACGGATTGT+GGG - chr5.2:81759666-81759685 None:intergenic 60.0%
!! TTGGAGGCGACGACGGATTG+TGG - chr5.2:81759667-81759686 None:intergenic 60.0%
GCTACGCTGATGCGGTGGTC+TGG + chr5.2:81759936-81759955 MS.gene81219:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 81759507 81760331 81759507 ID=MS.gene81219
chr5.2 mRNA 81759507 81760331 81759507 ID=MS.gene81219.t1;Parent=MS.gene81219
chr5.2 exon 81759507 81760331 81759507 ID=MS.gene81219.t1.exon1;Parent=MS.gene81219.t1
chr5.2 CDS 81759507 81760331 81759507 ID=cds.MS.gene81219.t1;Parent=MS.gene81219.t1
Gene Sequence

>MS.gene81219

ATGATAATGATGAAGGAAGAGCCTAGTTCAAAACCAATCATGATCCGTAAAGTGTGGGGATACAATTTGTTTTACGAATTCAGTCTCATTCGTCAATTGGTTGGTAAATACAATTTCATCTCAATGGATACTGAATTTCCGGGCATCGTCCATTCACCCACAATCCGTCGTCGCCTCCAACCCAATGAGCAATACAGTTACTTGAAGGCCAACGTTGACGCTCTCAATATCATTCAGATCGGTCTTACCTTATCGGATGCAATAGGTAACCTCCCTCATGATGAGAACAGTCGCTACATCTGGGAATTTAATTTCCGTGACTTTAATGTCAACAGGGACCTCCACAACAAAGACTCTATTGACTTGCTCCGCCGTCAGGGTATCGACTTCTTTCGCAACACTGTTCAAGGTGTAGACTCGTTTCATTTTGCTACGCTGATGCGGTGGTCTGGACTGCTTTTCAACAACTCAGTGACATGGGTGACATTCCACAGTGCGTATGATTTTGGATATCTGGTGAAAATCTTAACGCGGCGTTATCTTCCTCGTAGCTTGAAAGAGTTTTTGCATGTTTTGAGAAAATTATTTGGAAGAAACGTGTATGATATAAAGTATATGATCCGCTACTCTAATGCACTTTATGGCGGTCTCGAGCAAGTTGCGAGTATTCTTCAAGTGGATCGGGCCATTGGTAAGTGCCATCAAGCTGGATCCGACAGTTTGTTGACGTCGCAGACTTTTCACAAGATGGTGAACACATATTTTATCAACAATGAAGTCAAAAAGCACGCTGGATCAATATTCGGATTAGAAGTGACATCTTGA
Protein sequence

>MS.gene81219.t1

MIMMKEEPSSKPIMIRKVWGYNLFYEFSLIRQLVGKYNFISMDTEFPGIVHSPTIRRRLQPNEQYSYLKANVDALNIIQIGLTLSDAIGNLPHDENSRYIWEFNFRDFNVNRDLHNKDSIDLLRRQGIDFFRNTVQGVDSFHFATLMRWSGLLFNNSVTWVTFHSAYDFGYLVKILTRRYLPRSLKEFLHVLRKLFGRNVYDIKYMIRYSNALYGGLEQVASILQVDRAIGKCHQAGSDSLLTSQTFHKMVNTYFINNEVKKHAGSIFGLEVTS