AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31568

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31568.t1 MTR_2g089210 97.391 115 3 0 1 115 1 115 7.44e-75 217
MS.gene31568.t1 MTR_1g052885 84.762 105 16 0 10 114 6 110 1.09e-59 179
MS.gene31568.t1 MTR_2g081580 63.478 115 42 0 1 115 1 115 7.86e-46 144
MS.gene31568.t1 MTR_2g011400 65.347 101 35 0 10 110 14 114 1.77e-42 135
MS.gene31568.t1 MTR_8g466250 63.810 105 38 0 10 114 11 115 1.95e-42 135
MS.gene31568.t1 MTR_8g027180 51.852 108 52 0 9 116 18 125 1.65e-35 118
MS.gene31568.t1 MTR_2g081300 59.783 92 36 1 9 100 4 94 4.10e-34 114
MS.gene31568.t1 MTR_2g081440 59.783 92 36 1 9 100 8 98 1.37e-32 110
MS.gene31568.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.gene31568.t1 AT4G27280 59.813 107 42 1 9 114 18 124 1.72e-40 131
MS.gene31568.t1 AT5G54490 57.407 108 45 1 10 116 19 126 6.75e-40 129
MS.gene31568.t1 AT2G46600 52.381 105 50 0 10 114 22 126 3.02e-34 115

Find 22 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATGGTTTCAAGTTACTTA+TGG 0.230310 2.4:+11684261 MS.gene31568:CDS
CCTAGCTTATTCGCGATTAC+CGG 0.325047 2.4:-11684211 None:intergenic
TTACTTATGGACAAAGAAAA+AGG 0.330590 2.4:+11684274 MS.gene31568:CDS
TGACTTTGAGGATTTGTTAC+CGG 0.390507 2.4:+11684192 MS.gene31568:CDS
TATTAAGGGATGGCTGGAAT+TGG 0.414579 2.4:+11684160 None:intergenic
GATGGGTTTGCAAGATTTGA+AGG 0.430571 2.4:+11684336 MS.gene31568:CDS
CTCAATTGATGGAGGAATCA+TGG 0.432128 2.4:+11684455 MS.gene31568:CDS
TAGATTAAGTCCTCAATTGA+TGG 0.434068 2.4:+11684444 MS.gene31568:CDS
TATTGATATTAAGGGATGGC+TGG 0.438532 2.4:+11684154 None:intergenic
TGGCAAAGGATTTGACTTTG+AGG 0.471191 2.4:+11684180 MS.gene31568:CDS
TTAATGAAGGAACTATGTAA+TGG 0.484282 2.4:+11684244 MS.gene31568:CDS
CCGGTAATCGCGAATAAGCT+AGG 0.499968 2.4:+11684211 MS.gene31568:CDS
ATGAGAGAAGGTGATCTTGA+TGG 0.531831 2.4:+11684379 MS.gene31568:CDS
CATGATTCCTCCATCAATTG+AGG 0.540274 2.4:-11684454 None:intergenic
GCGAATAAGCTAGGTGGTGA+AGG 0.544267 2.4:+11684220 MS.gene31568:CDS
AGGTGGTGAAGGTTTAATGA+AGG 0.579836 2.4:+11684231 MS.gene31568:CDS
GGGATGGCTGGAATTGGCAA+AGG 0.596106 2.4:+11684166 None:intergenic
GAAGGTGATCTTGATGGTGA+TGG 0.603548 2.4:+11684385 MS.gene31568:CDS
TGATGGTTCACTCACTGAGA+TGG 0.625733 2.4:+11684402 MS.gene31568:CDS
ATTAAGTCCTCAATTGATGG+AGG 0.629347 2.4:+11684447 MS.gene31568:CDS
CTTGTGAGTATGATGAGAGA+AGG 0.629683 2.4:+11684367 MS.gene31568:CDS
GTAATCGCGAATAAGCTAGG+TGG 0.759004 2.4:+11684214 MS.gene31568:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTAATGAAGGAACTATGTAA+TGG + chr2.4:11684244-11684263 MS.gene31568:CDS 25.0%
! TTACTTATGGACAAAGAAAA+AGG + chr2.4:11684274-11684293 MS.gene31568:CDS 25.0%
!!! TAATGGTTTCAAGTTACTTA+TGG + chr2.4:11684261-11684280 MS.gene31568:CDS 25.0%
TAGATTAAGTCCTCAATTGA+TGG + chr2.4:11684444-11684463 MS.gene31568:CDS 30.0%
! AAGAAAAAACTCAGCATTGA+TGG + chr2.4:11684318-11684337 MS.gene31568:CDS 30.0%
!! AGAAAAAACTCAGCATTGAT+GGG + chr2.4:11684319-11684338 MS.gene31568:CDS 30.0%
ATTAAGTCCTCAATTGATGG+AGG + chr2.4:11684447-11684466 MS.gene31568:CDS 35.0%
!! GTTTTTGCTTGAAGAAGCAT+TGG + chr2.4:11684477-11684496 MS.gene31568:CDS 35.0%
!! TGACTTTGAGGATTTGTTAC+CGG + chr2.4:11684192-11684211 MS.gene31568:CDS 35.0%
AGGTGGTGAAGGTTTAATGA+AGG + chr2.4:11684231-11684250 MS.gene31568:CDS 40.0%
ATGAGAGAAGGTGATCTTGA+TGG + chr2.4:11684379-11684398 MS.gene31568:CDS 40.0%
CATGATTCCTCCATCAATTG+AGG - chr2.4:11684457-11684476 None:intergenic 40.0%
CTCAATTGATGGAGGAATCA+TGG + chr2.4:11684455-11684474 MS.gene31568:CDS 40.0%
CTTGTGAGTATGATGAGAGA+AGG + chr2.4:11684367-11684386 MS.gene31568:CDS 40.0%
! GATGGGTTTGCAAGATTTGA+AGG + chr2.4:11684336-11684355 MS.gene31568:CDS 40.0%
! TGGCAAAGGATTTGACTTTG+AGG + chr2.4:11684180-11684199 MS.gene31568:CDS 40.0%
CCTAGCTTATTCGCGATTAC+CGG - chr2.4:11684214-11684233 None:intergenic 45.0%
GTAATCGCGAATAAGCTAGG+TGG + chr2.4:11684214-11684233 MS.gene31568:CDS 45.0%
TGATGGTTCACTCACTGAGA+TGG + chr2.4:11684402-11684421 MS.gene31568:CDS 45.0%
!! GAAGGTGATCTTGATGGTGA+TGG + chr2.4:11684385-11684404 MS.gene31568:CDS 45.0%
CCGGTAATCGCGAATAAGCT+AGG + chr2.4:11684211-11684230 MS.gene31568:CDS 50.0%
GCGAATAAGCTAGGTGGTGA+AGG + chr2.4:11684220-11684239 MS.gene31568:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 11684169 11684519 11684169 ID=MS.gene31568
chr2.4 mRNA 11684169 11684519 11684169 ID=MS.gene31568.t1;Parent=MS.gene31568
chr2.4 exon 11684169 11684519 11684169 ID=MS.gene31568.t1.exon1;Parent=MS.gene31568.t1
chr2.4 CDS 11684169 11684519 11684169 ID=cds.MS.gene31568.t1;Parent=MS.gene31568.t1
Gene Sequence

>MS.gene31568

ATGGCTGGAATTGGCAAAGGATTTGACTTTGAGGATTTGTTACCGGTAATCGCGAATAAGCTAGGTGGTGAAGGTTTAATGAAGGAACTATGTAATGGTTTCAAGTTACTTATGGACAAAGAAAAAGGTGTGATCACGTTAGAGAGTTTAAGAAAAAACTCAGCATTGATGGGTTTGCAAGATTTGAAGGAAGATGAGCTTGTGAGTATGATGAGAGAAGGTGATCTTGATGGTGATGGTTCACTCACTGAGATGGAGTTTTGTGTTTTGATGTTTAGATTAAGTCCTCAATTGATGGAGGAATCATGGTTTTTGCTTGAAGAAGCATTGGATCATGAACTCAAACAATAG
Protein sequence

>MS.gene31568.t1

MAGIGKGFDFEDLLPVIANKLGGEGLMKELCNGFKLLMDKEKGVITLESLRKNSALMGLQDLKEDELVSMMREGDLDGDGSLTEMEFCVLMFRLSPQLMEESWFLLEEALDHELKQ