AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063575

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063575.t1 MTR_5g076500 93.519 108 7 0 1 108 601 708 9.54e-66 212
MS.gene063575.t1 MTR_5g076440 86.111 108 15 0 1 108 615 722 3.11e-60 197
MS.gene063575.t1 MTR_5g076310 80.734 109 20 1 1 108 581 689 8.13e-55 182
MS.gene063575.t1 MTR_5g076320 81.132 106 20 0 1 106 629 734 1.10e-54 182
MS.gene063575.t1 MTR_5g076380 76.636 107 25 0 1 107 604 710 2.02e-52 176
MS.gene063575.t1 MTR_5g076330 69.444 108 33 0 1 108 601 708 6.09e-46 157
MS.gene063575.t1 MTR_3g064190 65.741 108 37 0 1 108 605 712 1.17e-44 154
MS.gene063575.t1 MTR_5g076300 65.741 108 37 0 1 108 626 733 2.34e-43 150
MS.gene063575.t1 MTR_3g064210 56.481 108 47 0 1 108 683 790 1.33e-37 134
MS.gene063575.t1 MTR_3g436400 52.427 103 47 2 7 108 622 723 2.67e-28 107
MS.gene063575.t1 MTR_0189s0030 52.000 100 47 1 7 105 601 700 8.90e-27 103
MS.gene063575.t1 MTR_1g052700 39.000 100 59 2 1 99 78 176 2.29e-14 67.4
MS.gene063575.t1 MTR_5g053930 38.000 100 60 2 1 99 524 622 4.66e-14 67.0
MS.gene063575.t1 MTR_8g020390 33.962 106 62 3 7 108 540 641 9.92e-12 60.5
MS.gene063575.t1 MTR_8g020390 33.962 106 62 3 7 108 828 929 1.24e-11 60.1
MS.gene063575.t1 MTR_8g020390 33.962 106 62 3 7 108 1045 1146 1.54e-11 59.7
MS.gene063575.t1 MTR_2g105760 36.937 111 65 2 1 108 1835 1943 1.55e-11 59.7
MS.gene063575.t1 MTR_5g013820 29.268 123 72 2 1 108 668 790 3.22e-11 58.9
MS.gene063575.t1 MTR_5g013820 29.268 123 72 2 1 108 668 790 3.22e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063575.t1 AT5G37165 62.264 106 40 0 3 108 160 265 2.74e-43 146
MS.gene063575.t1 AT5G37140 63.889 108 39 0 1 108 426 533 3.53e-43 149
MS.gene063575.t1 AT5G52090 62.963 108 40 0 1 108 409 516 1.21e-41 145
MS.gene063575.t1 AT5G37150 62.037 108 41 0 1 108 572 679 2.45e-41 144
MS.gene063575.t1 AT5G37030 62.385 109 38 1 3 108 392 500 2.98e-41 143
MS.gene063575.t1 AT4G05540 62.037 108 41 0 1 108 476 583 3.56e-41 143
MS.gene063575.t1 AT1G65810 58.491 106 44 0 1 106 598 703 2.91e-37 133
MS.gene063575.t1 AT1G65810 58.491 106 44 0 1 106 598 703 3.26e-37 132
MS.gene063575.t1 AT1G65810 58.491 106 44 0 1 106 598 703 3.70e-37 132
MS.gene063575.t1 AT1G65780 61.538 78 30 0 1 78 609 686 1.46e-26 102
MS.gene063575.t1 AT4G15570 33.663 101 64 2 1 99 439 538 1.21e-12 62.8
MS.gene063575.t1 AT4G15570 33.663 101 64 2 1 99 439 538 1.21e-12 62.8
MS.gene063575.t1 AT4G15570 33.663 101 64 2 1 99 528 627 1.23e-12 62.8
MS.gene063575.t1 AT4G15570 33.663 101 64 2 1 99 528 627 1.23e-12 62.8
MS.gene063575.t1 AT2G19120 39.080 87 45 3 7 90 825 906 2.45e-11 59.3
MS.gene063575.t1 AT1G16800 36.000 100 61 2 10 108 1772 1869 3.68e-11 58.9
MS.gene063575.t1 AT1G16800 36.000 100 61 2 10 108 1702 1799 4.09e-11 58.5
MS.gene063575.t1 AT1G16800 36.000 100 61 2 10 108 1660 1757 4.21e-11 58.5

Find 16 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGAAACAAGCTTATTGA+TGG 0.334295 5.2:-11176801 None:intergenic
ATTGCGGACAATTGTCGATT+TGG 0.348564 5.2:+11176705 MS.gene063575:CDS
TATAATAAGAGCTTTCTTGA+AGG 0.419051 5.2:+11176879 MS.gene063575:CDS
AAGAAGTATGTTTGAGAGAC+TGG 0.461971 5.2:+11176728 MS.gene063575:CDS
ACCAAATGTCTCCTCACCCT+TGG 0.492957 5.2:-11176937 None:intergenic
TCCAAGGGTGAGGAGACATT+TGG 0.494736 5.2:+11176936 MS.gene063575:CDS
AGCTTTCATCCTTGACAGCT+AGG 0.496236 5.2:-11176857 None:intergenic
AGCTTATTGATGGATGCATT+CGG 0.510495 5.2:-11176791 None:intergenic
GCTTTCATCCTTGACAGCTA+GGG 0.513960 5.2:-11176856 None:intergenic
TTTAATCATCTCAGAAATGA+CGG 0.516197 5.2:-11176994 None:intergenic
TATTAATATATCCAAGGGTG+AGG 0.528313 5.2:+11176926 MS.gene063575:CDS
TTCGGATGCCCTAGCTGTCA+AGG 0.542296 5.2:+11176848 MS.gene063575:CDS
CGGACATAGCTTGAAGAACA+TGG 0.553176 5.2:+11176962 MS.gene063575:CDS
TCATCATAGAACTCTTTGCA+AGG 0.575937 5.2:-11176819 None:intergenic
TTTGAGAGACTGGTGATGCT+AGG 0.620623 5.2:+11176738 MS.gene063575:CDS
GGTGAGGAGACATTTGGTCG+CGG 0.639719 5.2:+11176942 MS.gene063575:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCTTTTATTAATATATCCAA+GGG + chr5.2:11176921-11176940 MS.gene063575:CDS 15.0%
!!! TTCTTTTATTAATATATCCA+AGG + chr5.2:11176920-11176939 MS.gene063575:CDS 15.0%
!! GTTCTATGATGAAAAAATTT+CGG + chr5.2:11176830-11176849 MS.gene063575:CDS 20.0%
! TATAATAAGAGCTTTCTTGA+AGG + chr5.2:11176879-11176898 MS.gene063575:CDS 25.0%
! TTTAATCATCTCAGAAATGA+CGG - chr5.2:11176997-11177016 None:intergenic 25.0%
TATTAATATATCCAAGGGTG+AGG + chr5.2:11176926-11176945 MS.gene063575:CDS 30.0%
CAAGGAAACAAGCTTATTGA+TGG - chr5.2:11176804-11176823 None:intergenic 35.0%
TCATCATAGAACTCTTTGCA+AGG - chr5.2:11176822-11176841 None:intergenic 35.0%
! AAGAAGTATGTTTGAGAGAC+TGG + chr5.2:11176728-11176747 MS.gene063575:CDS 35.0%
! AGCTTATTGATGGATGCATT+CGG - chr5.2:11176794-11176813 None:intergenic 35.0%
! ATTGCGGACAATTGTCGATT+TGG + chr5.2:11176705-11176724 MS.gene063575:CDS 40.0%
AGCTTTCATCCTTGACAGCT+AGG - chr5.2:11176860-11176879 None:intergenic 45.0%
CGGACATAGCTTGAAGAACA+TGG + chr5.2:11176962-11176981 MS.gene063575:CDS 45.0%
GCTTTCATCCTTGACAGCTA+GGG - chr5.2:11176859-11176878 None:intergenic 45.0%
! TTTGAGAGACTGGTGATGCT+AGG + chr5.2:11176738-11176757 MS.gene063575:CDS 45.0%
ACCAAATGTCTCCTCACCCT+TGG - chr5.2:11176940-11176959 None:intergenic 50.0%
TCCAAGGGTGAGGAGACATT+TGG + chr5.2:11176936-11176955 MS.gene063575:CDS 50.0%
GGTGAGGAGACATTTGGTCG+CGG + chr5.2:11176942-11176961 MS.gene063575:CDS 55.0%
TTCGGATGCCCTAGCTGTCA+AGG + chr5.2:11176848-11176867 MS.gene063575:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 11176705 11177029 11176705 ID=MS.gene063575
chr5.2 mRNA 11176705 11177029 11176705 ID=MS.gene063575.t1;Parent=MS.gene063575
chr5.2 exon 11176705 11177029 11176705 ID=MS.gene063575.t1.exon1;Parent=MS.gene063575.t1
chr5.2 CDS 11176705 11177029 11176705 ID=cds.MS.gene063575.t1;Parent=MS.gene063575.t1
Gene Sequence

>MS.gene063575

ATTGCGGACAATTGTCGATTTGGAAGAAGTATGTTTGAGAGACTGGTGATGCTAGGATACAAGAAGCATATGCTTAATGTTCAGTACCGAATGCATCCATCAATAAGCTTGTTTCCTTGCAAAGAGTTCTATGATGAAAAAATTTCGGATGCCCTAGCTGTCAAGGATGAAAGCTATAATAAGAGCTTTCTTGAAGGAGAAATGTATTCTTCTTATTCTTTTATTAATATATCCAAGGGTGAGGAGACATTTGGTCGCGGACATAGCTTGAAGAACATGGTTGAAGTTGCCGTCATTTCTGAGATGATTAAAAACCTAAGAAAAG
Protein sequence

>MS.gene063575.t1

IADNCRFGRSMFERLVMLGYKKHMLNVQYRMHPSISLFPCKEFYDEKISDALAVKDESYNKSFLEGEMYSSYSFINISKGEETFGRGHSLKNMVEVAVISEMIKNLRK