AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83139

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83139.t1 MTR_1g030630 98.969 97 1 0 4 100 51 147 4.49e-68 201
MS.gene83139.t1 MTR_5g025150 70.408 98 29 0 3 100 48 145 6.57e-50 154
MS.gene83139.t1 MTR_3g087770 61.224 98 36 2 4 100 56 152 4.59e-39 127
MS.gene83139.t1 MTR_6g003990 60.000 100 37 2 4 100 19 118 3.31e-37 122
MS.gene83139.t1 MTR_6g003990 60.000 100 37 2 4 100 56 155 3.47e-37 123
MS.gene83139.t1 MTR_8g091420 59.000 100 39 1 3 100 54 153 3.81e-37 122
MS.gene83139.t1 MTR_7g083060 59.184 98 38 2 4 100 50 146 6.48e-36 119
MS.gene83139.t1 MTR_5g022620 53.398 103 42 2 4 100 55 157 2.15e-34 115
MS.gene83139.t1 MTR_3g073670 55.102 98 43 1 4 100 52 149 2.04e-32 110
MS.gene83139.t1 MTR_3g117890 50.476 105 44 2 4 100 52 156 3.08e-32 110
MS.gene83139.t1 MTR_4g073040 49.515 103 46 2 4 100 54 156 1.13e-31 108
MS.gene83139.t1 MTR_5g055020 47.423 97 51 0 4 100 51 147 8.84e-31 106
MS.gene83139.t1 MTR_1g078090 32.710 107 62 2 4 100 79 185 1.78e-15 68.2
MS.gene83139.t1 MTR_6g026890 32.743 113 54 4 4 100 42 148 4.79e-15 66.2
MS.gene83139.t1 MTR_6g045203 37.838 111 55 4 4 100 30 140 7.69e-15 65.5
MS.gene83139.t1 MTR_2g091235 32.500 120 53 4 4 100 28 142 1.68e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83139.t1 AT1G22990 61.224 98 37 1 4 100 50 147 5.90e-41 132
MS.gene83139.t1 AT1G22990 61.224 98 37 1 4 100 55 152 7.89e-41 132
MS.gene83139.t1 AT1G71050 60.606 99 37 1 4 100 54 152 6.54e-38 124
MS.gene83139.t1 AT5G17450 55.556 99 43 1 3 100 7 105 7.06e-38 123
MS.gene83139.t1 AT5G17450 56.122 98 42 1 4 100 52 149 3.55e-37 122
MS.gene83139.t1 AT4G39700 60.396 101 36 1 4 100 58 158 1.23e-31 108
MS.gene83139.t1 AT5G66110 48.544 103 47 2 4 100 19 121 1.51e-30 105
MS.gene83139.t1 AT4G08570 52.041 98 46 1 4 100 53 150 3.30e-30 105
MS.gene83139.t1 AT5G66110 48.544 103 47 2 4 100 45 147 4.17e-30 104
MS.gene83139.t1 AT5G66110 48.544 103 47 2 4 100 45 147 4.17e-30 104
MS.gene83139.t1 AT4G38580 45.098 102 51 2 4 100 52 153 2.62e-27 97.8
MS.gene83139.t1 AT4G38580 45.098 102 51 2 4 100 52 153 2.62e-27 97.8
MS.gene83139.t1 AT4G35060 41.748 103 54 2 4 100 51 153 2.23e-25 92.8
MS.gene83139.t1 AT2G18196 34.579 107 60 2 4 100 19 125 4.13e-16 68.6
MS.gene83139.t1 AT2G18196 34.579 107 60 2 4 100 72 178 1.57e-15 68.2
MS.gene83139.t1 AT4G10465 32.710 107 62 2 4 100 77 183 3.04e-13 62.4

Find 18 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTTCTCATCCATTGCATT+AGG 0.260018 1.2:-16104897 None:intergenic
TCATATGCTTGTGATATATA+AGG 0.307329 1.2:-16104822 None:intergenic
ACCAAGTTGTATGGAATATA+TGG 0.307606 1.2:-16104792 None:intergenic
ACATGATGGAACATGCATTA+GGG 0.381741 1.2:-16104944 None:intergenic
TACATGATGGAACATGCATT+AGG 0.394368 1.2:-16104945 None:intergenic
GTTTCTCATCCATTGCATTA+GGG 0.401204 1.2:-16104896 None:intergenic
CAAAGCAAAGTAACTGTTAG+TGG 0.418002 1.2:+16104705 MS.gene83139:CDS
GGATAAGCCACCAAGTTGTA+TGG 0.438268 1.2:-16104801 None:intergenic
TTGCTTCACACCTGCATGCA+TGG 0.471923 1.2:-16104664 None:intergenic
GCCATATATTCCATACAACT+TGG 0.516330 1.2:+16104791 MS.gene83139:CDS
CATATTTGGACCATGCATGC+AGG 0.549988 1.2:+16104654 None:intergenic
ATATATTCCATACAACTTGG+TGG 0.560676 1.2:+16104794 MS.gene83139:CDS
TATGACAAGAAAGCACCAGC+TGG 0.601918 1.2:+16104840 MS.gene83139:CDS
TTAAAGAAAATACAGAACAC+TGG 0.609096 1.2:+16104750 MS.gene83139:CDS
ATGAATGCATGGTTACATGA+TGG 0.610735 1.2:-16104958 None:intergenic
ACTATCTAGCCCTAATGCAA+TGG 0.620354 1.2:+16104887 MS.gene83139:CDS
GCATGCAGGTGTGAAGCAAG+TGG 0.652347 1.2:+16104668 MS.gene83139:CDS
TGCAGGTGTGAAGCAAGTGG+AGG 0.726031 1.2:+16104671 MS.gene83139:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCTTTAACACTCTATTT+CGG - chr1.2:16104740-16104759 None:intergenic 20.0%
! TCATATGCTTGTGATATATA+AGG - chr1.2:16104825-16104844 None:intergenic 25.0%
! TTAAAGAAAATACAGAACAC+TGG + chr1.2:16104750-16104769 MS.gene83139:CDS 25.0%
ACCAAGTTGTATGGAATATA+TGG - chr1.2:16104795-16104814 None:intergenic 30.0%
ATATATTCCATACAACTTGG+TGG + chr1.2:16104794-16104813 MS.gene83139:CDS 30.0%
! GTTTTCATCACTAAACATGT+TGG - chr1.2:16104925-16104944 None:intergenic 30.0%
AGTTTCTCATCCATTGCATT+AGG - chr1.2:16104900-16104919 None:intergenic 35.0%
CAAAGCAAAGTAACTGTTAG+TGG + chr1.2:16104705-16104724 MS.gene83139:CDS 35.0%
GCCATATATTCCATACAACT+TGG + chr1.2:16104791-16104810 MS.gene83139:CDS 35.0%
GTTTCTCATCCATTGCATTA+GGG - chr1.2:16104899-16104918 None:intergenic 35.0%
! ACATGATGGAACATGCATTA+GGG - chr1.2:16104947-16104966 None:intergenic 35.0%
! TACATGATGGAACATGCATT+AGG - chr1.2:16104948-16104967 None:intergenic 35.0%
ACTATCTAGCCCTAATGCAA+TGG + chr1.2:16104887-16104906 MS.gene83139:CDS 40.0%
! CTGGAAAAAGAGCAGAGTTT+TGG + chr1.2:16104769-16104788 MS.gene83139:CDS 40.0%
! GAGTTTTTCACATAACCAGC+TGG - chr1.2:16104858-16104877 None:intergenic 40.0%
GGATAAGCCACCAAGTTGTA+TGG - chr1.2:16104804-16104823 None:intergenic 45.0%
!! TATGACAAGAAAGCACCAGC+TGG + chr1.2:16104840-16104859 MS.gene83139:CDS 45.0%
GCATGCAGGTGTGAAGCAAG+TGG + chr1.2:16104668-16104687 MS.gene83139:CDS 55.0%
TGCAGGTGTGAAGCAAGTGG+AGG + chr1.2:16104671-16104690 MS.gene83139:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 16104666 16104968 16104666 ID=MS.gene83139
chr1.2 mRNA 16104666 16104968 16104666 ID=MS.gene83139.t1;Parent=MS.gene83139
chr1.2 exon 16104666 16104968 16104666 ID=MS.gene83139.t1.exon1;Parent=MS.gene83139.t1
chr1.2 CDS 16104666 16104968 16104666 ID=cds.MS.gene83139.t1;Parent=MS.gene83139.t1
Gene Sequence

>MS.gene83139

ATGCATGCAGGTGTGAAGCAAGTGGAGGTAAATAGAAAGCAAAGCAAAGTAACTGTTAGTGGTAATGTTGACCGAAATAGAGTGTTAAAGAAAATACAGAACACTGGAAAAAGAGCAGAGTTTTGGCCATATATTCCATACAACTTGGTGGCTTATCCTTATATATCACAAGCATATGACAAGAAAGCACCAGCTGGTTATGTGAAAAACTCAATTCAAGCACTATCTAGCCCTAATGCAATGGATGAGAAACTCACCAACATGTTTAGTGATGAAAACCCTAATGCATGTTCCATCATGTAA
Protein sequence

>MS.gene83139.t1

MHAGVKQVEVNRKQSKVTVSGNVDRNRVLKKIQNTGKRAEFWPYIPYNLVAYPYISQAYDKKAPAGYVKNSIQALSSPNAMDEKLTNMFSDENPNACSIM