AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene031332

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031332.t1 MTR_2g081580 99.020 102 1 0 1 102 17 118 1.76e-68 201
MS.gene031332.t1 MTR_8g466250 81.443 97 18 0 1 97 18 114 8.48e-52 158
MS.gene031332.t1 MTR_1g052885 70.408 98 29 0 1 98 13 110 6.04e-43 136
MS.gene031332.t1 MTR_2g089210 68.687 99 31 0 1 99 17 115 6.99e-42 133
MS.gene031332.t1 MTR_2g011400 64.894 94 33 0 1 94 21 114 8.31e-37 120
MS.gene031332.t1 MTR_2g081300 67.045 88 28 1 1 88 12 98 8.94e-35 115
MS.gene031332.t1 MTR_2g081350 65.169 89 30 1 1 89 16 103 4.70e-34 114
MS.gene031332.t1 MTR_2g081440 62.500 88 32 1 1 88 16 102 2.65e-31 107
MS.gene031332.t1 MTR_8g027180 47.000 100 53 0 1 100 26 125 3.59e-31 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031332.t1 AT5G54490 66.327 98 32 1 1 97 26 123 3.71e-41 132
MS.gene031332.t1 AT4G27280 66.327 98 32 1 1 97 26 123 5.16e-41 132
MS.gene031332.t1 AT2G46600 52.041 98 47 0 1 98 29 126 4.05e-33 112

Find 22 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGACTTAGTCCTGAACTTA+TGG 0.262199 2.1:-19204678 MS.gene031332:CDS
GTTACAAGATTTGACCGATT+TGG 0.326086 2.1:-19204780 MS.gene031332:CDS
CAATGGTTTCAATCTCTTGA+TGG 0.334015 2.1:-19204861 MS.gene031332:CDS
GCAAAGCTGAATTCTTCTTA+AGG 0.386132 2.1:+19204807 None:intergenic
AAGAAGAATTCAGCTTTGCT+TGG 0.435657 2.1:-19204803 MS.gene031332:CDS
AAAATCACCTTCAACAATCA+TGG 0.442153 2.1:+19204748 None:intergenic
AGAAGAATTCAGCTTTGCTT+GGG 0.459246 2.1:-19204802 MS.gene031332:CDS
CTCTTGATGGATTCTACTAA+AGG 0.461618 2.1:-19204848 MS.gene031332:CDS
CTTCAATCCATGATTGTTGA+AGG 0.479434 2.1:-19204755 MS.gene031332:CDS
TTAGACCCATCCATAAGTTC+AGG 0.481132 2.1:+19204668 None:intergenic
GCAAACAAGCTTGGTGGGGA+TGG 0.482564 2.1:-19204902 MS.gene031332:CDS
CCCCTCATGGCAAACAAGCT+TGG 0.492739 2.1:-19204911 None:intergenic
CATGGATTGAAGTTCCAAAT+CGG 0.501160 2.1:+19204766 None:intergenic
CTCATGGCAAACAAGCTTGG+TGG 0.508830 2.1:-19204908 MS.gene031332:CDS
TCATGGCAAACAAGCTTGGT+GGG 0.509220 2.1:-19204907 MS.gene031332:CDS
CTTAGTCCTGAACTTATGGA+TGG 0.521531 2.1:-19204674 MS.gene031332:CDS
TGATGGTGCTCTTAATCAAA+TGG 0.521789 2.1:-19204720 MS.gene031332:CDS
TTAATAGATGAATTATGCAA+TGG 0.547432 2.1:-19204878 MS.gene031332:CDS
GGATGGGTCTAAGATGTGGT+TGG 0.605170 2.1:-19204657 MS.gene031332:CDS
TTAGTCCTGAACTTATGGAT+GGG 0.620182 2.1:-19204673 MS.gene031332:CDS
CATGGCAAACAAGCTTGGTG+GGG 0.632642 2.1:-19204906 MS.gene031332:CDS
TTATGGATGGGTCTAAGATG+TGG 0.687819 2.1:-19204661 MS.gene031332:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATAGATGAATTATGCAA+TGG - chr2.1:19204646-19204665 MS.gene031332:CDS 20.0%
AAAATCACCTTCAACAATCA+TGG + chr2.1:19204779-19204798 None:intergenic 30.0%
! ATTGTTGAAGGTGATTTTGA+TGG - chr2.1:19204781-19204800 MS.gene031332:CDS 30.0%
AAGAAGAATTCAGCTTTGCT+TGG - chr2.1:19204721-19204740 MS.gene031332:CDS 35.0%
AGAAGAATTCAGCTTTGCTT+GGG - chr2.1:19204722-19204741 MS.gene031332:CDS 35.0%
CAATGGTTTCAATCTCTTGA+TGG - chr2.1:19204663-19204682 MS.gene031332:CDS 35.0%
CTTCAATCCATGATTGTTGA+AGG - chr2.1:19204769-19204788 MS.gene031332:CDS 35.0%
GCAAAGCTGAATTCTTCTTA+AGG + chr2.1:19204720-19204739 None:intergenic 35.0%
GTTACAAGATTTGACCGATT+TGG - chr2.1:19204744-19204763 MS.gene031332:CDS 35.0%
TAGACTTAGTCCTGAACTTA+TGG - chr2.1:19204846-19204865 MS.gene031332:CDS 35.0%
TTAGTCCTGAACTTATGGAT+GGG - chr2.1:19204851-19204870 MS.gene031332:CDS 35.0%
! CATGGATTGAAGTTCCAAAT+CGG + chr2.1:19204761-19204780 None:intergenic 35.0%
! TGATGGTGCTCTTAATCAAA+TGG - chr2.1:19204804-19204823 MS.gene031332:CDS 35.0%
!! CTCTTGATGGATTCTACTAA+AGG - chr2.1:19204676-19204695 MS.gene031332:CDS 35.0%
CTTAGTCCTGAACTTATGGA+TGG - chr2.1:19204850-19204869 MS.gene031332:CDS 40.0%
TTAGACCCATCCATAAGTTC+AGG + chr2.1:19204859-19204878 None:intergenic 40.0%
! TTATGGATGGGTCTAAGATG+TGG - chr2.1:19204863-19204882 MS.gene031332:CDS 40.0%
!!! GAAGGTGATTTTGATGGTGA+TGG - chr2.1:19204787-19204806 MS.gene031332:CDS 40.0%
! GGATGGGTCTAAGATGTGGT+TGG - chr2.1:19204867-19204886 MS.gene031332:CDS 50.0%
! GCAAACAAGCTTGGTGGGGA+TGG - chr2.1:19204622-19204641 MS.gene031332:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 19204619 19204927 19204619 ID=MS.gene031332
chr2.1 mRNA 19204619 19204927 19204619 ID=MS.gene031332.t1;Parent=MS.gene031332
chr2.1 exon 19204619 19204927 19204619 ID=MS.gene031332.t1.exon1;Parent=MS.gene031332.t1
chr2.1 CDS 19204619 19204927 19204619 ID=cds.MS.gene031332.t1;Parent=MS.gene031332.t1
Gene Sequence

>MS.gene031332

ATGGCAAACAAGCTTGGTGGGGATGGATTAATAGATGAATTATGCAATGGTTTCAATCTCTTGATGGATTCTACTAAAGGTGTCATCACTTTTGAAAGCCTTAAGAAGAATTCAGCTTTGCTTGGGTTACAAGATTTGACCGATTTGGAACTTCAATCCATGATTGTTGAAGGTGATTTTGATGGTGATGGTGCTCTTAATCAAATGGAGTTTTGTGTTTTGATGTTTAGACTTAGTCCTGAACTTATGGATGGGTCTAAGATGTGGTTGGAACAAATGCTTCAACAAGAAGTCCAAGATTCTTTCTAA
Protein sequence

>MS.gene031332.t1

MANKLGGDGLIDELCNGFNLLMDSTKGVITFESLKKNSALLGLQDLTDLELQSMIVEGDFDGDGALNQMEFCVLMFRLSPELMDGSKMWLEQMLQQEVQDSF