AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09203

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09203.t1 MTR_8g080380 91.398 93 8 0 1 93 92 184 1.05e-60 183
MS.gene09203.t1 MTR_3g085510 77.419 93 21 0 1 93 1 93 3.48e-50 153
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09203.t1 AT4G40042 77.215 79 18 0 1 79 1 79 3.42e-42 133
MS.gene09203.t1 AT2G22425 72.043 93 25 1 1 93 1 92 6.01e-42 132
MS.gene09203.t1 AT2G22425 72.043 93 25 1 1 93 1 92 6.01e-42 132

Find 28 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATTTGCTGTGATTGCATT+TGG 0.297854 4.1:+15284085 MS.gene09203:CDS
GCCCCATTCACAGATGGTTC+TGG 0.371797 4.1:-15284262 None:intergenic
CATATGTGAGGATCATTGTT+TGG 0.377646 4.1:-15284132 None:intergenic
TTCACAGATGGTTCTGGCTT+AGG 0.396810 4.1:-15284256 None:intergenic
CTTTGCTTGATTAGATGGAT+TGG 0.415898 4.1:+15284017 None:intergenic
ATGGTTGAAGAAGGGCCAAT+TGG 0.421141 4.1:-15284191 None:intergenic
AGCCAGAACCATCTGTGAAT+GGG 0.423930 4.1:+15284260 MS.gene09203:CDS
CTCGGGTCCAACCACTTAAG+AGG 0.441788 4.1:-15284217 None:intergenic
TCAACCATCACCCTCTTAAG+TGG 0.455788 4.1:+15284206 MS.gene09203:CDS
CATTAGTCACTATTCCCAAT+TGG 0.473943 4.1:+15284176 MS.gene09203:CDS
TTTGCTTGATTAGATGGATT+GGG 0.484747 4.1:+15284018 None:intergenic
TGGTTGAAGAAGGGCCAATT+GGG 0.491266 4.1:-15284190 None:intergenic
AAGCCAGAACCATCTGTGAA+TGG 0.495835 4.1:+15284259 MS.gene09203:CDS
GCTGTGATTGCATTTGGAGC+TGG 0.523448 4.1:+15284091 MS.gene09203:CDS
AAGAGGGTGATGGTTGAAGA+AGG 0.527062 4.1:-15284200 None:intergenic
TTTGTAGCCCCATTCACAGA+TGG 0.528383 4.1:-15284268 None:intergenic
ACAATGATCCTCACATATGC+TGG 0.532761 4.1:+15284136 MS.gene09203:CDS
CCATCACCCTCTTAAGTGGT+TGG 0.557168 4.1:+15284210 MS.gene09203:CDS
ATTTGGAGCTGGATATCTCA+CGG 0.563264 4.1:+15284102 MS.gene09203:CDS
CTTGATTAGATGGATTGGGA+AGG 0.597000 4.1:+15284022 None:intergenic
TCGGGTCCAACCACTTAAGA+GGG 0.612466 4.1:-15284216 None:intergenic
GCCAGAACCATCTGTGAATG+GGG 0.614435 4.1:+15284261 MS.gene09203:CDS
AGAGGGTGATGGTTGAAGAA+GGG 0.639069 4.1:-15284199 None:intergenic
CCAACCACTTAAGAGGGTGA+TGG 0.648150 4.1:-15284210 None:intergenic
GTGGTTGGACCCGAGCGAAG+CGG 0.659606 4.1:+15284225 MS.gene09203:CDS
CAACACCACCAGCATATGTG+AGG 0.672885 4.1:-15284144 None:intergenic
ATGATCCTCACATATGCTGG+TGG 0.731619 4.1:+15284139 MS.gene09203:CDS
ATTGGGAATAGTGACTAATG+TGG 0.776405 4.1:-15284173 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTGGGAATAGTGACTAATG+TGG - chr4.1:15284176-15284195 None:intergenic 35.0%
CATATGTGAGGATCATTGTT+TGG - chr4.1:15284135-15284154 None:intergenic 35.0%
CATTAGTCACTATTCCCAAT+TGG + chr4.1:15284176-15284195 MS.gene09203:CDS 35.0%
ACAATGATCCTCACATATGC+TGG + chr4.1:15284136-15284155 MS.gene09203:CDS 40.0%
! ATTTGGAGCTGGATATCTCA+CGG + chr4.1:15284102-15284121 MS.gene09203:CDS 40.0%
!! GCATTTGCTGTGATTGCATT+TGG + chr4.1:15284085-15284104 MS.gene09203:CDS 40.0%
AAGCCAGAACCATCTGTGAA+TGG + chr4.1:15284259-15284278 MS.gene09203:CDS 45.0%
AGCCAGAACCATCTGTGAAT+GGG + chr4.1:15284260-15284279 MS.gene09203:CDS 45.0%
ATGATCCTCACATATGCTGG+TGG + chr4.1:15284139-15284158 MS.gene09203:CDS 45.0%
ATGGTTGAAGAAGGGCCAAT+TGG - chr4.1:15284194-15284213 None:intergenic 45.0%
TCAACCATCACCCTCTTAAG+TGG + chr4.1:15284206-15284225 MS.gene09203:CDS 45.0%
TGGTTGAAGAAGGGCCAATT+GGG - chr4.1:15284193-15284212 None:intergenic 45.0%
TTTGTAGCCCCATTCACAGA+TGG - chr4.1:15284271-15284290 None:intergenic 45.0%
! AAGAGGGTGATGGTTGAAGA+AGG - chr4.1:15284203-15284222 None:intergenic 45.0%
! AGAGGGTGATGGTTGAAGAA+GGG - chr4.1:15284202-15284221 None:intergenic 45.0%
!! TTCACAGATGGTTCTGGCTT+AGG - chr4.1:15284259-15284278 None:intergenic 45.0%
CAACACCACCAGCATATGTG+AGG - chr4.1:15284147-15284166 None:intergenic 50.0%
CCAACCACTTAAGAGGGTGA+TGG - chr4.1:15284213-15284232 None:intergenic 50.0%
CCATCACCCTCTTAAGTGGT+TGG + chr4.1:15284210-15284229 MS.gene09203:CDS 50.0%
GCCAGAACCATCTGTGAATG+GGG + chr4.1:15284261-15284280 MS.gene09203:CDS 50.0%
TCGGGTCCAACCACTTAAGA+GGG - chr4.1:15284219-15284238 None:intergenic 50.0%
! GCTGTGATTGCATTTGGAGC+TGG + chr4.1:15284091-15284110 MS.gene09203:CDS 50.0%
CTCGGGTCCAACCACTTAAG+AGG - chr4.1:15284220-15284239 None:intergenic 55.0%
GCCCCATTCACAGATGGTTC+TGG - chr4.1:15284265-15284284 None:intergenic 55.0%
! GATGCTTTTCCGCTTCGCTC+GGG - chr4.1:15284237-15284256 None:intergenic 55.0%
! GGATGCTTTTCCGCTTCGCT+CGG - chr4.1:15284238-15284257 None:intergenic 55.0%
GTGGTTGGACCCGAGCGAAG+CGG + chr4.1:15284225-15284244 MS.gene09203:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 15284031 15284312 15284031 ID=MS.gene09203
chr4.1 mRNA 15284031 15284312 15284031 ID=MS.gene09203.t1;Parent=MS.gene09203
chr4.1 exon 15284031 15284312 15284031 ID=MS.gene09203.t1.exon1;Parent=MS.gene09203.t1
chr4.1 CDS 15284031 15284312 15284031 ID=cds.MS.gene09203.t1;Parent=MS.gene09203.t1
Gene Sequence

>MS.gene09203

ATGGATTGGGAAGGACAAAAGCTAGCAGAGCAACTGATGCAGATAATGCTGCTTGCATTTGCTGTGATTGCATTTGGAGCTGGATATCTCACGGCTTCTTTCCAAACAATGATCCTCACATATGCTGGTGGTGTTGTTCTCACCACATTAGTCACTATTCCCAATTGGCCCTTCTTCAACCATCACCCTCTTAAGTGGTTGGACCCGAGCGAAGCGGAAAAGCATCCTAAGCCAGAACCATCTGTGAATGGGGCTACAAAGAAAAAATCCGTTAAAAAGTAG
Protein sequence

>MS.gene09203.t1

MDWEGQKLAEQLMQIMLLAFAVIAFGAGYLTASFQTMILTYAGGVVLTTLVTIPNWPFFNHHPLKWLDPSEAEKHPKPEPSVNGATKKKSVKK