AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37681


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37681.t1 MTR_1g102780 94.500 200 7 2 1 196 1 200 1.01e-132 370
MS.gene37681.t1 MTR_1g102800 90.000 180 13 2 20 196 20 197 2.60e-106 303
MS.gene37681.t1 MTR_1g102570 85.556 180 21 2 20 196 21 198 1.91e-103 296
MS.gene37681.t1 MTR_1g102810 79.592 196 26 2 1 196 1 182 1.64e-96 278
MS.gene37681.t1 MTR_1g102830 80.000 180 19 3 20 196 21 186 1.82e-96 278
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37681.t1 AT3G22840 55.276 199 82 5 1 196 1 195 2.36e-62 192
MS.gene37681.t1 AT4G14690 52.261 199 86 4 1 196 1 193 1.54e-57 180

Find 54 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGCTGATGGTGGTGTAAT+TGG 0.245963 1.1:+73602654 None:intergenic
TGGTGGAATTCCATGGTTCT+TGG 0.288858 1.1:-73602344 MS.gene37681:CDS
GGTGGAATTCCATGGTTCTT+GGG 0.299911 1.1:-73602343 MS.gene37681:CDS
GGTTTGTTTGATCAAATATC+TGG 0.314167 1.1:-73602367 MS.gene37681:CDS
GTTGGTTGTGGTTGTGGTGG+TGG 0.344690 1.1:+73602627 None:intergenic
TGTGGTTGTGGTGGTGGAGT+TGG 0.352890 1.1:+73602633 None:intergenic
ATTGGGTCTACAGGCACCTT+TGG 0.360861 1.1:+73602672 None:intergenic
TATGTTGGGTTTGATTGCTT+TGG 0.370659 1.1:-73602203 MS.gene37681:CDS
AATGGAAGGTTGGCTATGAT+TGG 0.393839 1.1:-73602430 MS.gene37681:CDS
CCATTGATTCTCTCAGGTGC+TGG 0.411549 1.1:+73602448 None:intergenic
CAAGCATTTCTTCTCAAGCT+TGG 0.413181 1.1:+73602911 None:intergenic
GGTGGTGGAGTTGGTGCTGA+TGG 0.417357 1.1:+73602642 None:intergenic
CACCTTTGGTGAACGAGTAT+AGG 0.424707 1.1:+73602605 None:intergenic
AACCTTCCATTGATTCTCTC+AGG 0.436061 1.1:+73602442 None:intergenic
GTGCTGATGGTGGTGTAATT+GGG 0.440700 1.1:+73602655 None:intergenic
GAATGGTAGAATTGCTATGT+TGG 0.450278 1.1:-73602218 MS.gene37681:CDS
GTATAGGTTGGTTGTGGTTG+TGG 0.452125 1.1:+73602621 None:intergenic
GTGGAATTCCATGGTTCTTG+GGG 0.468120 1.1:-73602342 MS.gene37681:CDS
GGTGGAGTTGGTGCTGATGG+TGG 0.468618 1.1:+73602645 None:intergenic
GAAATGCTTGCCTCAAAGTT+CGG 0.480582 1.1:-73602898 MS.gene37681:CDS
CGGATTTGATGGCATTTGGT+GGG 0.485102 1.1:-73602471 MS.gene37681:CDS
TCGGATTTGATGGCATTTGG+TGG 0.487791 1.1:-73602472 MS.gene37681:CDS
AATGGTAGAATTGCTATGTT+GGG 0.492247 1.1:-73602217 MS.gene37681:CDS
TCTAGGCCTGCTAGAAATGC+TGG 0.515845 1.1:+73602961 None:intergenic
GGTGGTGTAATTGGGTCTAC+AGG 0.516474 1.1:+73602663 None:intergenic
CCAGCACCTGAGAGAATCAA+TGG 0.516939 1.1:-73602448 MS.gene37681:CDS
CAGCCATGGACCGAACTTTG+AGG 0.520058 1.1:+73602888 None:intergenic
TAGGTTGGTTGTGGTTGTGG+TGG 0.523841 1.1:+73602624 None:intergenic
CGAAAACATTACCTCAGCCA+TGG 0.528935 1.1:+73602874 None:intergenic
CAAAGTTCGGTCCATGGCTG+AGG 0.533870 1.1:-73602885 MS.gene37681:intron
AGTGTGGAGTCTAAGTCAAA+AGG 0.538159 1.1:-73602268 MS.gene37681:CDS
TTGCCTCAAAGTTCGGTCCA+TGG 0.544126 1.1:-73602891 MS.gene37681:CDS
GGTGGAGATAGCAAATGGAC+AGG 0.547189 1.1:-73602389 MS.gene37681:CDS
CCATGACCAGCATTTCTAGC+AGG 0.549312 1.1:-73602967 MS.gene37681:CDS
CCTGCTAGAAATGCTGGTCA+TGG 0.550870 1.1:+73602967 None:intergenic
TTTGATCAAATATCTGGTGG+TGG 0.559193 1.1:-73602361 MS.gene37681:CDS
TGAGAGAATCAATGGAAGGT+TGG 0.560259 1.1:-73602440 MS.gene37681:CDS
GAACGAGTATAGGTTGGTTG+TGG 0.560878 1.1:+73602615 None:intergenic
TAGACTCCACACTAACCCCT+TGG 0.562091 1.1:+73602278 None:intergenic
GAAGGTATGTTGTTAACTCT+AGG 0.563861 1.1:+73602944 None:intergenic
TTGTTTGATCAAATATCTGG+TGG 0.570609 1.1:-73602364 MS.gene37681:CDS
TTTGGTGAACGAGTATAGGT+TGG 0.589396 1.1:+73602609 None:intergenic
CTATAGAAATCTATTACACA+AGG 0.595515 1.1:+73602152 None:intergenic
AACCTATACTCGTTCACCAA+AGG 0.597244 1.1:-73602607 MS.gene37681:intron
TGTCCTCAGATGCTGAGTTG+TGG 0.599794 1.1:-73602240 MS.gene37681:CDS
ATTCCACAACTCAGCATCTG+AGG 0.606044 1.1:+73602237 None:intergenic
TATCTGGTGGTGGAATTCCA+TGG 0.624337 1.1:-73602351 MS.gene37681:CDS
AAGCTTGGCATATACACAGA+AGG 0.629885 1.1:+73602926 None:intergenic
AGGGCAGAAAGAGCAACCAA+AGG 0.630670 1.1:-73602688 MS.gene37681:CDS
ACACTTGTCCCCAAGAACCA+TGG 0.633615 1.1:+73602334 None:intergenic
TCAGATGCTGAGTTGTGGAA+TGG 0.641735 1.1:-73602235 MS.gene37681:CDS
GTGGAGATAGCAAATGGACA+GGG 0.645295 1.1:-73602388 MS.gene37681:CDS
CACCTGAGAGAATCAATGGA+AGG 0.646646 1.1:-73602444 MS.gene37681:CDS
TATAGAAATCTATTACACAA+GGG 0.717921 1.1:+73602153 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTAATAATGATGAAAATA+TGG - chr1.1:73602656-73602675 MS.gene37681:CDS 15.0%
!!! AGTTTTTCATTACATTTATC+AGG - chr1.1:73602457-73602476 MS.gene37681:CDS 20.0%
! TTCATTACATTTATCAGGAA+GGG - chr1.1:73602462-73602481 MS.gene37681:CDS 25.0%
! TTTCATTACATTTATCAGGA+AGG - chr1.1:73602461-73602480 MS.gene37681:CDS 25.0%
!! CGAAAACAGATTTAACTTTA+AGG - chr1.1:73602316-73602335 MS.gene37681:CDS 25.0%
!! GCTTTTACAGAATATGTTAA+GGG - chr1.1:73602988-73603007 MS.gene37681:CDS 25.0%
AATGGTAGAATTGCTATGTT+GGG - chr1.1:73602952-73602971 MS.gene37681:CDS 30.0%
TGCATAATGCAACAAGTTAA+TGG - chr1.1:73602372-73602391 MS.gene37681:CDS 30.0%
TTGTTTGATCAAATATCTGG+TGG - chr1.1:73602805-73602824 MS.gene37681:intron 30.0%
! GGCTTTTACAGAATATGTTA+AGG - chr1.1:73602987-73603006 MS.gene37681:CDS 30.0%
! GGTTTGTTTGATCAAATATC+TGG - chr1.1:73602802-73602821 MS.gene37681:intron 30.0%
!! CTTTGATTCCATTTTTCCAA+GGG - chr1.1:73602875-73602894 MS.gene37681:intron 30.0%
!! TCTTTGATTCCATTTTTCCA+AGG - chr1.1:73602874-73602893 MS.gene37681:intron 30.0%
!! TTTGATTCCATTTTTCCAAG+GGG - chr1.1:73602876-73602895 MS.gene37681:intron 30.0%
GAATGGTAGAATTGCTATGT+TGG - chr1.1:73602951-73602970 MS.gene37681:CDS 35.0%
TATGTTGGGTTTGATTGCTT+TGG - chr1.1:73602966-73602985 MS.gene37681:CDS 35.0%
TTTACTACTATGCTCACCTT+TGG + chr1.1:73602581-73602600 None:intergenic 35.0%
TTTGATCAAATATCTGGTGG+TGG - chr1.1:73602808-73602827 MS.gene37681:intron 35.0%
! CACAAAGTTTTCGGATTTGA+TGG - chr1.1:73602687-73602706 MS.gene37681:CDS 35.0%
! GAAGGTATGTTGTTAACTCT+AGG + chr1.1:73602228-73602247 None:intergenic 35.0%
!! TTTTCGGATTTGATGGCATT+TGG - chr1.1:73602694-73602713 MS.gene37681:intron 35.0%
!!! ATTGGTTTTGTAGCTGCTAT+GGG - chr1.1:73602757-73602776 MS.gene37681:intron 35.0%
AACCTATACTCGTTCACCAA+AGG - chr1.1:73602562-73602581 MS.gene37681:intron 40.0%
AAGCTTGGCATATACACAGA+AGG + chr1.1:73602246-73602265 None:intergenic 40.0%
ACACTAACCCCTTGGAAAAA+TGG + chr1.1:73602886-73602905 None:intergenic 40.0%
AGTGTGGAGTCTAAGTCAAA+AGG - chr1.1:73602901-73602920 MS.gene37681:CDS 40.0%
CAAGCATTTCTTCTCAAGCT+TGG + chr1.1:73602261-73602280 None:intergenic 40.0%
GAAATGCTTGCCTCAAAGTT+CGG - chr1.1:73602271-73602290 MS.gene37681:CDS 40.0%
TGAGAGAATCAATGGAAGGT+TGG - chr1.1:73602729-73602748 MS.gene37681:intron 40.0%
TTTGGTGAACGAGTATAGGT+TGG + chr1.1:73602563-73602582 None:intergenic 40.0%
! AATGGAAGGTTGGCTATGAT+TGG - chr1.1:73602739-73602758 MS.gene37681:intron 40.0%
! GCAGATGAGCACAAAGTTTT+CGG - chr1.1:73602678-73602697 MS.gene37681:CDS 40.0%
!! AACCTTCCATTGATTCTCTC+AGG + chr1.1:73602730-73602749 None:intergenic 40.0%
!! ATTTTTCCAAGGGGTTAGTG+TGG - chr1.1:73602885-73602904 MS.gene37681:intron 40.0%
!!! GATTGGTTTTGTAGCTGCTA+TGG - chr1.1:73602756-73602775 MS.gene37681:intron 40.0%
!!! TTGGTTTTGTAGCTGCTATG+GGG - chr1.1:73602758-73602777 MS.gene37681:intron 40.0%
ATTCCACAACTCAGCATCTG+AGG + chr1.1:73602935-73602954 None:intergenic 45.0%
CACCTGAGAGAATCAATGGA+AGG - chr1.1:73602725-73602744 MS.gene37681:intron 45.0%
CACCTTTGGTGAACGAGTAT+AGG + chr1.1:73602567-73602586 None:intergenic 45.0%
CGAAAACATTACCTCAGCCA+TGG + chr1.1:73602298-73602317 None:intergenic 45.0%
GGTGGAATTCCATGGTTCTT+GGG - chr1.1:73602826-73602845 MS.gene37681:intron 45.0%
GTGGAATTCCATGGTTCTTG+GGG - chr1.1:73602827-73602846 MS.gene37681:intron 45.0%
GTGGAGATAGCAAATGGACA+GGG - chr1.1:73602781-73602800 MS.gene37681:intron 45.0%
TCAGATGCTGAGTTGTGGAA+TGG - chr1.1:73602934-73602953 MS.gene37681:CDS 45.0%
TGGTGGAATTCCATGGTTCT+TGG - chr1.1:73602825-73602844 MS.gene37681:intron 45.0%
! CGGATTTGATGGCATTTGGT+GGG - chr1.1:73602698-73602717 MS.gene37681:intron 45.0%
! TCGGATTTGATGGCATTTGG+TGG - chr1.1:73602697-73602716 MS.gene37681:intron 45.0%
!! GAACGAGTATAGGTTGGTTG+TGG + chr1.1:73602557-73602576 None:intergenic 45.0%
!! GTATAGGTTGGTTGTGGTTG+TGG + chr1.1:73602551-73602570 None:intergenic 45.0%
!! GTGCTGATGGTGGTGTAATT+GGG + chr1.1:73602517-73602536 None:intergenic 45.0%
!! TATCTGGTGGTGGAATTCCA+TGG - chr1.1:73602818-73602837 MS.gene37681:intron 45.0%
!!! TGGTTTTGTAGCTGCTATGG+GGG - chr1.1:73602759-73602778 MS.gene37681:intron 45.0%
ACACTTGTCCCCAAGAACCA+TGG + chr1.1:73602838-73602857 None:intergenic 50.0%
AGGGCAGAAAGAGCAACCAA+AGG - chr1.1:73602481-73602500 MS.gene37681:CDS 50.0%
ATGGGGGTGGAGATAGCAAA+TGG - chr1.1:73602775-73602794 MS.gene37681:intron 50.0%
ATTGGGTCTACAGGCACCTT+TGG + chr1.1:73602500-73602519 None:intergenic 50.0%
CCAGCACCTGAGAGAATCAA+TGG - chr1.1:73602721-73602740 MS.gene37681:intron 50.0%
CCTGCTAGAAATGCTGGTCA+TGG + chr1.1:73602205-73602224 None:intergenic 50.0%
GGTGGAGATAGCAAATGGAC+AGG - chr1.1:73602780-73602799 MS.gene37681:intron 50.0%
GGTGGTGTAATTGGGTCTAC+AGG + chr1.1:73602509-73602528 None:intergenic 50.0%
TAGACTCCACACTAACCCCT+TGG + chr1.1:73602894-73602913 None:intergenic 50.0%
TCTAGGCCTGCTAGAAATGC+TGG + chr1.1:73602211-73602230 None:intergenic 50.0%
TGTCCTCAGATGCTGAGTTG+TGG - chr1.1:73602929-73602948 MS.gene37681:CDS 50.0%
TTGCCTCAAAGTTCGGTCCA+TGG - chr1.1:73602278-73602297 MS.gene37681:CDS 50.0%
! TTTTGTAGCTGCTATGGGGG+TGG - chr1.1:73602762-73602781 MS.gene37681:intron 50.0%
!! CCATGACCAGCATTTCTAGC+AGG - chr1.1:73602202-73602221 MS.gene37681:CDS 50.0%
!! CCATTGATTCTCTCAGGTGC+TGG + chr1.1:73602724-73602743 None:intergenic 50.0%
!! GGTGCTGATGGTGGTGTAAT+TGG + chr1.1:73602518-73602537 None:intergenic 50.0%
!! TAGGTTGGTTGTGGTTGTGG+TGG + chr1.1:73602548-73602567 None:intergenic 50.0%
CAAAGTTCGGTCCATGGCTG+AGG - chr1.1:73602284-73602303 MS.gene37681:CDS 55.0%
CAGCCATGGACCGAACTTTG+AGG + chr1.1:73602284-73602303 None:intergenic 55.0%
GTTGGTTGTGGTTGTGGTGG+TGG + chr1.1:73602545-73602564 None:intergenic 55.0%
!! TGTGGTTGTGGTGGTGGAGT+TGG + chr1.1:73602539-73602558 None:intergenic 55.0%
!! GGTGGAGTTGGTGCTGATGG+TGG + chr1.1:73602527-73602546 None:intergenic 60.0%
!! GGTGGTGGAGTTGGTGCTGA+TGG + chr1.1:73602530-73602549 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 73602165 73603026 73602165 ID=MS.gene37681
chr1.1 mRNA 73602165 73603026 73602165 ID=MS.gene37681.t1;Parent=MS.gene37681
chr1.1 exon 73602886 73603026 73602886 ID=MS.gene37681.t1.exon1;Parent=MS.gene37681.t1
chr1.1 CDS 73602886 73603026 73602886 ID=cds.MS.gene37681.t1;Parent=MS.gene37681.t1
chr1.1 exon 73602608 73602712 73602608 ID=MS.gene37681.t1.exon2;Parent=MS.gene37681.t1
chr1.1 CDS 73602608 73602712 73602608 ID=cds.MS.gene37681.t1;Parent=MS.gene37681.t1
chr1.1 exon 73602165 73602509 73602165 ID=MS.gene37681.t1.exon3;Parent=MS.gene37681.t1
chr1.1 CDS 73602165 73602509 73602165 ID=cds.MS.gene37681.t1;Parent=MS.gene37681.t1
Gene Sequence

>MS.gene37681

ATGGCTGTTTCATCTTATCAATCTATCATGTCAAGCTCCATGACCAGCATTTCTAGCAGGCCTAGAGTTAACAACATACCTTCTGTGTATATGCCAAGCTTGAGAAGAAATGCTTGCCTCAAAGTTCGGTCCATGGCTGAGGTAATGTTTTCGAAAACAGATTTAACTTTAAGGTTGCATATTTATACATATTGTATTTTTTGTACATGCATAATGCAACAAGTTAATGGTATATGCTTTAAGAATCATGTTAATGATATAAAATAGTCATTGCTATTATTTAATAAATTATAGTTTTTCATTACATTTATCAGGAAGGGCAGAAAGAGCAACCAAAGGTGCCTGTAGACCCAATTACACCACCATCAGCACCAACTCCACCACCACAACCACAACCAACCTATACTCGTTCACCAAAGGTGAGCATAGTAGTAAATATAATTATCTTTGTTTTTTCTTAATTATGTGAAAGAAGATTAATTAATTTTGCTAAGTAATAATGATGAAAATATGGCAGATGAGCACAAAGTTTTCGGATTTGATGGCATTTGGTGGGCCAGCACCTGAGAGAATCAATGGAAGGTTGGCTATGATTGGTTTTGTAGCTGCTATGGGGGTGGAGATAGCAAATGGACAGGGTTTGTTTGATCAAATATCTGGTGGTGGAATTCCATGGTTCTTGGGGACAAGTGTGTTGTTGACACTTGCTTCTTTGATTCCATTTTTCCAAGGGGTTAGTGTGGAGTCTAAGTCAAAAGGTGTCATGTCCTCAGATGCTGAGTTGTGGAATGGTAGAATTGCTATGTTGGGTTTGATTGCTTTGGCTTTTACAGAATATGTTAAGGGTACTGCCCTTGTGTAA

Protein sequence

>MS.gene37681.t1

MAVSSYQSIMSSSMTSISSRPRVNNIPSVYMPSLRRNACLKVRSMAEEGQKEQPKVPVDPITPPSAPTPPPQPQPTYTRSPKMSTKFSDLMAFGGPAPERINGRLAMIGFVAAMGVEIANGQGLFDQISGGGIPWFLGTSVLLTLASLIPFFQGVSVESKSKGVMSSDAELWNGRIAMLGLIALAFTEYVKGTALV