AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054636

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054636.t1 MTR_3g101600 70.635 126 10 1 1 126 1 99 8.58e-58 174
MS.gene054636.t1 MTR_3g101610 59.350 123 22 1 1 123 1 95 2.24e-43 137
MS.gene054636.t1 MTR_1g019720 59.756 82 33 0 42 123 12 93 2.66e-31 107
MS.gene054636.t1 MTR_1g019715 58.537 82 34 0 42 123 12 93 6.58e-31 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAGGACTCTTTGCCTCTT+GGG 0.371849 3.4:-89463086 MS.gene054636:CDS
CAAGAGGACTCTTTGCCTCT+TGG 0.391233 3.4:-89463087 MS.gene054636:CDS
AAATTCAGGTATGCCGTTCA+TGG 0.405667 3.4:-89463332 None:intergenic
CGGTGGAGCAATTCAAACTA+TGG 0.422285 3.4:-89463183 MS.gene054636:CDS
TGTCAAAATCAAACAATCCT+AGG 0.458275 3.4:-89462963 None:intergenic
GAATTTGACACAAGCAATGA+TGG 0.502729 3.4:-89463151 MS.gene054636:CDS
GTGTCTGCAGCGTAAAAGTC+AGG 0.503300 3.4:+89463055 None:intergenic
AGGCAAAGAGTCCTCTTGTA+TGG 0.503649 3.4:+89463092 None:intergenic
TGCCGTTCATGGAGCACAAA+GGG 0.513317 3.4:-89463321 MS.gene054636:CDS
CTCAGTTGAATGATCGTCAT+GGG 0.514849 3.4:-89463219 MS.gene054636:CDS
ATCAATGAAACCGTTATGAT+TGG 0.516247 3.4:+89463033 None:intergenic
GGGTTCAGTGATCATCATCA+TGG 0.528333 3.4:-89463301 MS.gene054636:CDS
AACCCTTTGTGCTCCATGAA+CGG 0.532058 3.4:+89463319 None:intergenic
AGAGGACTCTTTGCCTCTTG+GGG 0.549979 3.4:-89463085 MS.gene054636:CDS
GCTTGTCTGCAAAGTGAACA+AGG 0.563870 3.4:+89462993 None:intergenic
CATGCTGTGCGCCATACAAG+AGG 0.583294 3.4:-89463103 MS.gene054636:CDS
AACTGAGAAACGTGTGATGA+TGG 0.584393 3.4:+89463235 None:intergenic
GGTTCAGTGATCATCATCAT+GGG 0.589943 3.4:-89463300 MS.gene054636:CDS
GCTGCAGACACCAATCATAA+CGG 0.590481 3.4:-89463043 MS.gene054636:CDS
TCTCAGTTGAATGATCGTCA+TGG 0.593062 3.4:-89463220 MS.gene054636:CDS
TCATGGGAAGCACGTGATGA+CGG 0.598511 3.4:-89463203 MS.gene054636:CDS
TGTGATGATGGTGATGGAGT+CGG 0.625434 3.4:+89463247 None:intergenic
GAAACGTGTGATGATGGTGA+TGG 0.634663 3.4:+89463241 None:intergenic
ATGCCGTTCATGGAGCACAA+AGG 0.642777 3.4:-89463322 MS.gene054636:CDS
GTCAGGACATATACCCCAAG+AGG 0.657672 3.4:+89463072 None:intergenic
TGATGGCAAAATCAGCAAAG+AGG 0.664740 3.4:-89463134 MS.gene054636:CDS
TGGGAAGCACGTGATGACGG+TGG 0.691060 3.4:-89463200 MS.gene054636:CDS
TGGGAAACATGTGACAACTG+TGG 0.743823 3.4:-89463281 MS.gene054636:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCAATGAAACCGTTATGAT+TGG + chr3.4:89463256-89463275 None:intergenic 30.0%
GAATTTGACACAAGCAATGA+TGG - chr3.4:89463135-89463154 MS.gene054636:CDS 35.0%
AACTGAGAAACGTGTGATGA+TGG + chr3.4:89463054-89463073 None:intergenic 40.0%
CTCAGTTGAATGATCGTCAT+GGG - chr3.4:89463067-89463086 MS.gene054636:CDS 40.0%
GGTTCAGTGATCATCATCAT+GGG - chr3.4:89462986-89463005 MS.gene054636:CDS 40.0%
TCTCAGTTGAATGATCGTCA+TGG - chr3.4:89463066-89463085 MS.gene054636:CDS 40.0%
TGATGGCAAAATCAGCAAAG+AGG - chr3.4:89463152-89463171 MS.gene054636:CDS 40.0%
AACCCTTTGTGCTCCATGAA+CGG + chr3.4:89462970-89462989 None:intergenic 45.0%
AAGAGGACTCTTTGCCTCTT+GGG - chr3.4:89463200-89463219 MS.gene054636:CDS 45.0%
AGGCAAAGAGTCCTCTTGTA+TGG + chr3.4:89463197-89463216 None:intergenic 45.0%
CGGTGGAGCAATTCAAACTA+TGG - chr3.4:89463103-89463122 MS.gene054636:CDS 45.0%
GCTGCAGACACCAATCATAA+CGG - chr3.4:89463243-89463262 MS.gene054636:CDS 45.0%
GCTTGTCTGCAAAGTGAACA+AGG + chr3.4:89463296-89463315 None:intergenic 45.0%
GGGTTCAGTGATCATCATCA+TGG - chr3.4:89462985-89463004 MS.gene054636:CDS 45.0%
TGGGAAACATGTGACAACTG+TGG - chr3.4:89463005-89463024 MS.gene054636:CDS 45.0%
!! GAAACGTGTGATGATGGTGA+TGG + chr3.4:89463048-89463067 None:intergenic 45.0%
!! TGTGATGATGGTGATGGAGT+CGG + chr3.4:89463042-89463061 None:intergenic 45.0%
AGAGGACTCTTTGCCTCTTG+GGG - chr3.4:89463201-89463220 MS.gene054636:CDS 50.0%
ATGCCGTTCATGGAGCACAA+AGG - chr3.4:89462964-89462983 MS.gene054636:CDS 50.0%
CAAGAGGACTCTTTGCCTCT+TGG - chr3.4:89463199-89463218 MS.gene054636:CDS 50.0%
GTCAGGACATATACCCCAAG+AGG + chr3.4:89463217-89463236 None:intergenic 50.0%
GTGTCTGCAGCGTAAAAGTC+AGG + chr3.4:89463234-89463253 None:intergenic 50.0%
TGCCGTTCATGGAGCACAAA+GGG - chr3.4:89462965-89462984 MS.gene054636:CDS 50.0%
! TCATGGGAAGCACGTGATGA+CGG - chr3.4:89463083-89463102 MS.gene054636:CDS 50.0%
CATGCTGTGCGCCATACAAG+AGG - chr3.4:89463183-89463202 MS.gene054636:CDS 55.0%
!! TGGGAAGCACGTGATGACGG+TGG - chr3.4:89463086-89463105 MS.gene054636:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 89462964 89463344 89462964 ID=MS.gene054636
chr3.4 mRNA 89462964 89463344 89462964 ID=MS.gene054636.t1;Parent=MS.gene054636
chr3.4 exon 89462964 89463344 89462964 ID=MS.gene054636.t1.exon1;Parent=MS.gene054636.t1
chr3.4 CDS 89462964 89463344 89462964 ID=cds.MS.gene054636.t1;Parent=MS.gene054636.t1
Gene Sequence

>MS.gene054636

ATGCCGTTCATGGAGCACAAAGGGTTCAGTGATCATCATCATGGGAAACATGTGACAACTGTGGAGCACAAAAGACCGACTCCATCACCATCATCACACGTTTCTCAGTTGAATGATCGTCATGGGAAGCACGTGATGACGGTGGAGCAATTCAAACTATGGTTGAAGAAAGAATTTGACACAAGCAATGATGGCAAAATCAGCAAAGAGGAACTGCGACATGCTGTGCGCCATACAAGAGGACTCTTTGCCTCTTGGGGTATATGTCCTGACTTTTACGCTGCAGACACCAATCATAACGGTTTCATTGATGACAATGAATTCAAAAACCTTGTTCACTTTGCAGACAAGCATTTCAATGTCAAAATCAAACAATCCTAG
Protein sequence

>MS.gene054636.t1

MPFMEHKGFSDHHHGKHVTTVEHKRPTPSPSSHVSQLNDRHGKHVMTVEQFKLWLKKEFDTSNDGKISKEELRHAVRHTRGLFASWGICPDFYAADTNHNGFIDDNEFKNLVHFADKHFNVKIKQS