AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26337

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26337.t1 MTR_1g085590 53.778 225 56 12 7 201 15 221 5.77e-54 174
MS.gene26337.t1 MTR_1g063150 51.892 185 57 5 13 197 18 170 5.40e-51 163
MS.gene26337.t1 MTR_1g046810 37.398 246 78 11 23 203 82 316 8.17e-31 115
MS.gene26337.t1 MTR_1g063140 48.837 129 40 5 81 199 2 114 4.93e-21 86.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 29 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGCGCCTGCCGTTTCT+TGG 0.204971 4.1:-21319145 None:intergenic
GAAAGAGAAAGAAGGGTATT+TGG 0.272932 4.1:-21318887 None:intergenic
TGAATCACAGCGGCGCTAAA+AGG 0.334747 4.1:+21319271 MS.gene26337:CDS
CTGAGCGCCTGCCGTTTCTT+GGG 0.339758 4.1:-21319144 None:intergenic
GGGTATTTGGCATTGGTTGT+TGG 0.420713 4.1:-21318874 None:intergenic
AAGCATTGAATGAACATAAG+AGG 0.452841 4.1:+21319049 MS.gene26337:CDS
CTGGAAAACAAAAGATTACA+TGG 0.458402 4.1:+21318929 MS.gene26337:CDS
GAAAGAAGGGTATTTGGCAT+TGG 0.461253 4.1:-21318881 None:intergenic
GCTGTGATTCACATCGATAT+TGG 0.466791 4.1:-21319259 None:intergenic
ATTGATGATACTAATCATGC+TGG 0.481384 4.1:+21318910 MS.gene26337:CDS
TGGTAGAAACTGATCATCAA+TGG 0.511864 4.1:-21319121 None:intergenic
CTCATGTGATGTTTGCAACA+AGG 0.514548 4.1:+21319011 MS.gene26337:CDS
AGCGCCTGCCGTTTCTTGGG+TGG 0.517316 4.1:-21319141 None:intergenic
ACTCATAATCACAATGATGT+TGG 0.520742 4.1:+21318973 MS.gene26337:CDS
TCATCTTCAAAATCATCACT+TGG 0.534322 4.1:-21319429 None:intergenic
ATATCTCGCGAGGGTTATGA+AGG 0.547888 4.1:+21319228 MS.gene26337:CDS
AGTTTCTACCACCCAAGAAA+CGG 0.549777 4.1:+21319133 MS.gene26337:CDS
AACTGATCATCAATGGAAGA+TGG 0.551680 4.1:-21319114 None:intergenic
AAGAGGTGTCACTCTCAAAA+CGG 0.554314 4.1:+21319066 MS.gene26337:CDS
TCATCAATGAAAGAGAAAGA+AGG 0.554768 4.1:-21318895 None:intergenic
TAATCTTCAAAATCATCACT+TGG 0.555048 4.1:-21319330 None:intergenic
TCGTTCAAATCCATATTGCT+TGG 0.555538 4.1:-21319303 None:intergenic
CATCAATGAAAGAGAAAGAA+GGG 0.566832 4.1:-21318894 None:intergenic
ATGGAAGATGGTGCTGCAGT+TGG 0.597422 4.1:-21319102 None:intergenic
TCTGTTGCATATATCTCGCG+AGG 0.625752 4.1:+21319218 MS.gene26337:CDS
ACATCATTGTGATTATGAGT+AGG 0.629484 4.1:-21318970 None:intergenic
TCTACCACCCAAGAAACGGC+AGG 0.631682 4.1:+21319137 MS.gene26337:CDS
CTGTTGCATATATCTCGCGA+GGG 0.697431 4.1:+21319219 MS.gene26337:CDS
AATATCGATGTGAATCACAG+CGG 0.782933 4.1:+21319261 MS.gene26337:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TAATCTTCAAAATCATCACT+TGG - chr4.1:21319333-21319352 None:intergenic 25.0%
!!! TGATGATTTTGAAGATTATG+AGG + chr4.1:21319335-21319354 MS.gene26337:CDS 25.0%
ACATCATTGTGATTATGAGT+AGG - chr4.1:21318973-21318992 None:intergenic 30.0%
ACTCATAATCACAATGATGT+TGG + chr4.1:21318973-21318992 MS.gene26337:CDS 30.0%
CATCAATGAAAGAGAAAGAA+GGG - chr4.1:21318897-21318916 None:intergenic 30.0%
CTGGAAAACAAAAGATTACA+TGG + chr4.1:21318929-21318948 MS.gene26337:CDS 30.0%
GCAAAAAATTCCAAGCAATA+TGG + chr4.1:21319293-21319312 MS.gene26337:CDS 30.0%
GCTCAGAAGAAAAAGATATA+TGG + chr4.1:21319161-21319180 MS.gene26337:CDS 30.0%
TCATCAATGAAAGAGAAAGA+AGG - chr4.1:21318898-21318917 None:intergenic 30.0%
TCATCTTCAAAATCATCACT+TGG - chr4.1:21319432-21319451 None:intergenic 30.0%
! ATTGATGATACTAATCATGC+TGG + chr4.1:21318910-21318929 MS.gene26337:CDS 30.0%
!! AAGCATTGAATGAACATAAG+AGG + chr4.1:21319049-21319068 MS.gene26337:CDS 30.0%
AACTGATCATCAATGGAAGA+TGG - chr4.1:21319117-21319136 None:intergenic 35.0%
AATATCGATGTGAATCACAG+CGG + chr4.1:21319261-21319280 MS.gene26337:CDS 35.0%
TCGTTCAAATCCATATTGCT+TGG - chr4.1:21319306-21319325 None:intergenic 35.0%
TGGTAGAAACTGATCATCAA+TGG - chr4.1:21319124-21319143 None:intergenic 35.0%
!! GAAAGAGAAAGAAGGGTATT+TGG - chr4.1:21318890-21318909 None:intergenic 35.0%
AGTTTCTACCACCCAAGAAA+CGG + chr4.1:21319133-21319152 MS.gene26337:CDS 40.0%
CTCATGTGATGTTTGCAACA+AGG + chr4.1:21319011-21319030 MS.gene26337:CDS 40.0%
GCTGTGATTCACATCGATAT+TGG - chr4.1:21319262-21319281 None:intergenic 40.0%
!! AAGAGGTGTCACTCTCAAAA+CGG + chr4.1:21319066-21319085 MS.gene26337:CDS 40.0%
!! GAAAGAAGGGTATTTGGCAT+TGG - chr4.1:21318884-21318903 None:intergenic 40.0%
ATATCTCGCGAGGGTTATGA+AGG + chr4.1:21319228-21319247 MS.gene26337:CDS 45.0%
CTGTTGCATATATCTCGCGA+GGG + chr4.1:21319219-21319238 MS.gene26337:CDS 45.0%
TCTGTTGCATATATCTCGCG+AGG + chr4.1:21319218-21319237 MS.gene26337:CDS 45.0%
!! GGGTATTTGGCATTGGTTGT+TGG - chr4.1:21318877-21318896 None:intergenic 45.0%
TGAATCACAGCGGCGCTAAA+AGG + chr4.1:21319271-21319290 MS.gene26337:CDS 50.0%
!! ATGGAAGATGGTGCTGCAGT+TGG - chr4.1:21319105-21319124 None:intergenic 50.0%
TCTACCACCCAAGAAACGGC+AGG + chr4.1:21319137-21319156 MS.gene26337:CDS 55.0%
! CTGAGCGCCTGCCGTTTCTT+GGG - chr4.1:21319147-21319166 None:intergenic 60.0%
! TCTGAGCGCCTGCCGTTTCT+TGG - chr4.1:21319148-21319167 None:intergenic 60.0%
! AGCGCCTGCCGTTTCTTGGG+TGG - chr4.1:21319144-21319163 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 21318850 21319461 21318850 ID=MS.gene26337
chr4.1 mRNA 21318850 21319461 21318850 ID=MS.gene26337.t1;Parent=MS.gene26337
chr4.1 exon 21318850 21319461 21318850 ID=MS.gene26337.t1.exon1;Parent=MS.gene26337.t1
chr4.1 CDS 21318850 21319461 21318850 ID=cds.MS.gene26337.t1;Parent=MS.gene26337.t1
Gene Sequence

>MS.gene26337

ATGAACAAGAAAATGTCTCATAAACCAACAACCAATGCCAAATACCCTTCTTTCTCTTTCATTGATGATACTAATCATGCTGGAAAACAAAAGATTACATGGTTTTTTTCTTATTCTGTTCCTACTCATAATCACAATGATGTTGGAAGACAAAACAAACACTCATGTGATGTTTGCAACAAGGTTTTTACTTCTAACAAAGCATTGAATGAACATAAGAGGTGTCACTCTCAAAACGGTATTACTAACACACCAACTGCAGCACCATCTTCCATTGATGATCAGTTTCTACCACCCAAGAAACGGCAGGCGCTCAGAAGAAAAAGATATATGGATATTGACGATGATGAAGTTACTGCTGCTGAAAGTCTGTTGCATATATCTCGCGAGGGTTATGAAGGATCAACTGCCAATATCGATGTGAATCACAGCGGCGCTAAAAGGCAAAAAATTCCAAGCAATATGGATTTGAACGAGCTTCCAAGTGATGATTTTGAAGATTATGAGGAGAAGAAGATTAACGAAGCTGAAACTGAAGTCGAGTCAAAAGTTGTGAAGAATTTTGATTTGAACGAGCTTCCAAGTGATGATTTTGAAGATGAATTCAATTAG
Protein sequence

>MS.gene26337.t1

MNKKMSHKPTTNAKYPSFSFIDDTNHAGKQKITWFFSYSVPTHNHNDVGRQNKHSCDVCNKVFTSNKALNEHKRCHSQNGITNTPTAAPSSIDDQFLPPKKRQALRRKRYMDIDDDEVTAAESLLHISREGYEGSTANIDVNHSGAKRQKIPSNMDLNELPSDDFEDYEEKKINEAETEVESKVVKNFDLNELPSDDFEDEFN