AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35762

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35762.t1 MTR_2g089210 97.391 115 3 0 1 115 1 115 7.44e-75 217
MS.gene35762.t1 MTR_1g052885 84.762 105 16 0 10 114 6 110 1.09e-59 179
MS.gene35762.t1 MTR_2g081580 63.478 115 42 0 1 115 1 115 7.86e-46 144
MS.gene35762.t1 MTR_2g011400 65.347 101 35 0 10 110 14 114 1.77e-42 135
MS.gene35762.t1 MTR_8g466250 63.810 105 38 0 10 114 11 115 1.95e-42 135
MS.gene35762.t1 MTR_8g027180 51.852 108 52 0 9 116 18 125 1.65e-35 118
MS.gene35762.t1 MTR_2g081300 59.783 92 36 1 9 100 4 94 4.10e-34 114
MS.gene35762.t1 MTR_2g081440 59.783 92 36 1 9 100 8 98 1.37e-32 110
MS.gene35762.t1 MTR_2g081350 58.696 92 37 1 9 100 8 98 2.49e-32 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35762.t1 AT4G27280 59.813 107 42 1 9 114 18 124 1.72e-40 131
MS.gene35762.t1 AT5G54490 57.407 108 45 1 10 116 19 126 6.75e-40 129
MS.gene35762.t1 AT2G46600 52.381 105 50 0 10 114 22 126 3.02e-34 115

Find 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATGGTTTCAAGTTACTTA+TGG 0.223278 2.1:+12812397 MS.gene35762:CDS
TTACTTATGGATAAAGAAAA+AGG 0.317552 2.1:+12812410 MS.gene35762:CDS
CCTAGCTTATTCGCGATTAC+CGG 0.325047 2.1:-12812347 None:intergenic
TGACTTTGAGGATTTGTTAC+CGG 0.390507 2.1:+12812328 MS.gene35762:CDS
TATTAAGGGATGGCTGGAAT+TGG 0.414579 2.1:+12812296 None:intergenic
GATGGGTTTGCAAGATTTGA+AGG 0.430571 2.1:+12812472 MS.gene35762:CDS
CTCAATTGATGGAGGAATCA+TGG 0.432128 2.1:+12812591 MS.gene35762:CDS
TAGATTAAGTCCTCAATTGA+TGG 0.434068 2.1:+12812580 MS.gene35762:CDS
TATTGATATTAAGGGATGGC+TGG 0.438532 2.1:+12812290 None:intergenic
TGGCAAAGGATTTGACTTTG+AGG 0.471191 2.1:+12812316 MS.gene35762:CDS
TTAATGAAGGAACTATGTAA+TGG 0.484282 2.1:+12812380 MS.gene35762:CDS
CCGGTAATCGCGAATAAGCT+AGG 0.499968 2.1:+12812347 MS.gene35762:CDS
ATGAGAGAAGGTGATCTTGA+TGG 0.531831 2.1:+12812515 MS.gene35762:CDS
CATGATTCCTCCATCAATTG+AGG 0.540274 2.1:-12812590 None:intergenic
GCGAATAAGCTAGGTGGTGA+AGG 0.544267 2.1:+12812356 MS.gene35762:CDS
AGGTGGTGAAGGTTTAATGA+AGG 0.579836 2.1:+12812367 MS.gene35762:CDS
GGGATGGCTGGAATTGGCAA+AGG 0.596106 2.1:+12812302 None:intergenic
GAAGGTGATCTTGATGGTGA+TGG 0.603548 2.1:+12812521 MS.gene35762:CDS
TGATGGTTCACTCACTGAGA+TGG 0.625733 2.1:+12812538 MS.gene35762:CDS
ATTAAGTCCTCAATTGATGG+AGG 0.629347 2.1:+12812583 MS.gene35762:CDS
CTTGTGAGTATGATGAGAGA+AGG 0.670057 2.1:+12812503 MS.gene35762:CDS
GTAATCGCGAATAAGCTAGG+TGG 0.759004 2.1:+12812350 MS.gene35762:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTACTTATGGATAAAGAAAA+AGG + chr2.1:12812410-12812429 MS.gene35762:CDS 20.0%
! TTAATGAAGGAACTATGTAA+TGG + chr2.1:12812380-12812399 MS.gene35762:CDS 25.0%
!!! TAATGGTTTCAAGTTACTTA+TGG + chr2.1:12812397-12812416 MS.gene35762:CDS 25.0%
TAGATTAAGTCCTCAATTGA+TGG + chr2.1:12812580-12812599 MS.gene35762:CDS 30.0%
! AAGAAAAAACTCAGCATTGA+TGG + chr2.1:12812454-12812473 MS.gene35762:CDS 30.0%
!! AGAAAAAACTCAGCATTGAT+GGG + chr2.1:12812455-12812474 MS.gene35762:CDS 30.0%
ATTAAGTCCTCAATTGATGG+AGG + chr2.1:12812583-12812602 MS.gene35762:CDS 35.0%
! AGAAAAAGGTGTGATCACTT+TGG + chr2.1:12812424-12812443 MS.gene35762:CDS 35.0%
!! GTTTTTGCTTGAAGAAGCAT+TGG + chr2.1:12812613-12812632 MS.gene35762:CDS 35.0%
!! TGACTTTGAGGATTTGTTAC+CGG + chr2.1:12812328-12812347 MS.gene35762:CDS 35.0%
AGGTGGTGAAGGTTTAATGA+AGG + chr2.1:12812367-12812386 MS.gene35762:CDS 40.0%
ATGAGAGAAGGTGATCTTGA+TGG + chr2.1:12812515-12812534 MS.gene35762:CDS 40.0%
CATGATTCCTCCATCAATTG+AGG - chr2.1:12812593-12812612 None:intergenic 40.0%
CTCAATTGATGGAGGAATCA+TGG + chr2.1:12812591-12812610 MS.gene35762:CDS 40.0%
CTTGTGAGTATGATGAGAGA+AGG + chr2.1:12812503-12812522 MS.gene35762:CDS 40.0%
! GATGGGTTTGCAAGATTTGA+AGG + chr2.1:12812472-12812491 MS.gene35762:CDS 40.0%
! TGGCAAAGGATTTGACTTTG+AGG + chr2.1:12812316-12812335 MS.gene35762:CDS 40.0%
CCTAGCTTATTCGCGATTAC+CGG - chr2.1:12812350-12812369 None:intergenic 45.0%
GTAATCGCGAATAAGCTAGG+TGG + chr2.1:12812350-12812369 MS.gene35762:CDS 45.0%
TGATGGTTCACTCACTGAGA+TGG + chr2.1:12812538-12812557 MS.gene35762:CDS 45.0%
!! GAAGGTGATCTTGATGGTGA+TGG + chr2.1:12812521-12812540 MS.gene35762:CDS 45.0%
CCGGTAATCGCGAATAAGCT+AGG + chr2.1:12812347-12812366 MS.gene35762:CDS 50.0%
GCGAATAAGCTAGGTGGTGA+AGG + chr2.1:12812356-12812375 MS.gene35762:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 12812305 12812655 12812305 ID=MS.gene35762
chr2.1 mRNA 12812305 12812655 12812305 ID=MS.gene35762.t1;Parent=MS.gene35762
chr2.1 exon 12812305 12812655 12812305 ID=MS.gene35762.t1.exon1;Parent=MS.gene35762.t1
chr2.1 CDS 12812305 12812655 12812305 ID=cds.MS.gene35762.t1;Parent=MS.gene35762.t1
Gene Sequence

>MS.gene35762

ATGGCTGGAATTGGCAAAGGATTTGACTTTGAGGATTTGTTACCGGTAATCGCGAATAAGCTAGGTGGTGAAGGTTTAATGAAGGAACTATGTAATGGTTTCAAGTTACTTATGGATAAAGAAAAAGGTGTGATCACTTTGGAGAGTTTAAGAAAAAACTCAGCATTGATGGGTTTGCAAGATTTGAAGGAAGACGAGCTTGTGAGTATGATGAGAGAAGGTGATCTTGATGGTGATGGTTCACTCACTGAGATGGAGTTTTGTGTTTTGATGTTTAGATTAAGTCCTCAATTGATGGAGGAATCATGGTTTTTGCTTGAAGAAGCATTGGATCATGAACTCAAACAATAG
Protein sequence

>MS.gene35762.t1

MAGIGKGFDFEDLLPVIANKLGGEGLMKELCNGFKLLMDKEKGVITLESLRKNSALMGLQDLKEDELVSMMREGDLDGDGSLTEMEFCVLMFRLSPQLMEESWFLLEEALDHELKQ