AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0908360


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
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 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTTTACGCCCAATCATTC+CGG 0.287091 6_2:+9558145 None:intergenic
CAATGCCGCGTGGAGGTAAA+AGG 0.308793 6_2:-9558282 Msa0908360:CDS
ACCTGTCCAGGGTTGAGCCC+TGG 0.327938 6_2:+9558088 None:intergenic
CTCTGTCTTACCGCGGCTGC+TGG 0.335301 6_2:+9558182 None:intergenic
CCTGTCCAGGGTTGAGCCCT+GGG 0.363036 6_2:+9558089 None:intergenic
CAAGCGTTATCCGGAATGAT+TGG 0.365557 6_2:-9558155 Msa0908360:CDS
ACCGTCATTGTTTCTTCTCC+AGG 0.384151 6_2:+9558236 None:intergenic
CAGAGGATGCAAGCGTTATC+CGG 0.442617 6_2:-9558164 Msa0908360:CDS
GGTTGAGCCCTGGGATTTGA+CGG 0.443812 6_2:+9558098 None:intergenic
TAAGTTCGCCGTCAAATCCC+AGG 0.467544 6_2:-9558106 Msa0908360:CDS
CCACGCGGCATTGCTCCGTC+AGG 0.484232 6_2:+9558292 None:intergenic
CCCAGGGCTCAACCCTGGAC+AGG 0.508220 6_2:-9558089 Msa0908360:CDS
AAGCGTTATCCGGAATGATT+GGG 0.511219 6_2:-9558154 Msa0908360:CDS
CGCAATGGGCGAAAGCCTGA+CGG 0.536266 6_2:-9558307 None:intergenic
TAACTCTGTGCCAGCAGCCG+CGG 0.544469 6_2:-9558192 Msa0908360:CDS
CAAATCCCAGGGCTCAACCC+TGG 0.557720 6_2:-9558094 Msa0908360:CDS
GCGTGGAGGTAAAAGGCCTA+CGG 0.560249 6_2:-9558275 Msa0908360:CDS
AAGTTCGCCGTCAAATCCCA+GGG 0.564420 6_2:-9558105 Msa0908360:CDS
AGGGCTCAACCCTGGACAGG+TGG 0.567008 6_2:-9558086 Msa0908360:CDS
CGTGGAGGTAAAAGGCCTAC+GGG 0.570032 6_2:-9558274 Msa0908360:CDS
GGGCGTAAAGCGTCTGTAGG+TGG 0.587281 6_2:-9558134 Msa0908360:CDS
TCCTGGAGAAGAAACAATGA+CGG 0.628601 6_2:-9558237 Msa0908360:intron
ATTGGGCGTAAAGCGTCTGT+AGG 0.632255 6_2:-9558137 Msa0908360:CDS
GACGGAGCAATGCCGCGTGG+AGG 0.640730 6_2:-9558289 Msa0908360:CDS
CAGCAGCCGCGGTAAGACAG+AGG 0.650015 6_2:-9558181 Msa0908360:CDS
AAAAGAAGTTCATGACCCGT+AGG 0.653857 6_2:+9558259 None:intergenic
CCTGACGGAGCAATGCCGCG+TGG 0.711882 6_2:-9558292 Msa0908360:CDS
TTGCATCCTCTGTCTTACCG+CGG 0.760348 6_2:+9558175 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAACAATGACGGTATCT+GGG - chr6_2:9558147-9558166 Msa0908360:CDS 35.0%
AAAAGAAGTTCATGACCCGT+AGG + chr6_2:9558120-9558139 None:intergenic 40.0%
TCCTGGAGAAGAAACAATGA+CGG - chr6_2:9558139-9558158 Msa0908360:CDS 40.0%
GAAGAAACAATGACGGTATC+TGG - chr6_2:9558146-9558165 Msa0908360:CDS 40.0%
AGAAACAATGACGGTATCTG+GGG - chr6_2:9558148-9558167 Msa0908360:CDS 40.0%
AAGCGTTATCCGGAATGATT+GGG - chr6_2:9558222-9558241 Msa0908360:intron 40.0%
! GGGTCATGAACTTCTTTTCC+TGG - chr6_2:9558122-9558141 Msa0908360:CDS 45.0%
! ACCGTCATTGTTTCTTCTCC+AGG + chr6_2:9558143-9558162 None:intergenic 45.0%
GGTATCTGGGGAATAAGCAT+CGG - chr6_2:9558160-9558179 Msa0908360:CDS 45.0%
CAAGCGTTATCCGGAATGAT+TGG - chr6_2:9558221-9558240 Msa0908360:intron 45.0%
! TAGTTTTCACCACCTGTCCA+GGG + chr6_2:9558302-9558321 None:intergenic 45.0%
TTGCATCCTCTGTCTTACCG+CGG + chr6_2:9558204-9558223 None:intergenic 50.0%
CAGAGGATGCAAGCGTTATC+CGG - chr6_2:9558212-9558231 Msa0908360:intron 50.0%
CGCTTTACGCCCAATCATTC+CGG + chr6_2:9558234-9558253 None:intergenic 50.0%
! ATTGGGCGTAAAGCGTCTGT+AGG - chr6_2:9558239-9558258 Msa0908360:CDS 50.0%
TAAGTTCGCCGTCAAATCCC+AGG - chr6_2:9558270-9558289 Msa0908360:CDS 50.0%
AAGTTCGCCGTCAAATCCCA+GGG - chr6_2:9558271-9558290 Msa0908360:CDS 50.0%
! GTAGTTTTCACCACCTGTCC+AGG + chr6_2:9558303-9558322 None:intergenic 50.0%
CAATGCCGCGTGGAGGTAAA+AGG - chr6_2:9558094-9558113 Msa0908360:CDS 55.0%
! GTAGGCCTTTTACCTCCACG+CGG + chr6_2:9558102-9558121 None:intergenic 55.0%
GCGTGGAGGTAAAAGGCCTA+CGG - chr6_2:9558101-9558120 Msa0908360:CDS 55.0%
CGTGGAGGTAAAAGGCCTAC+GGG - chr6_2:9558102-9558121 Msa0908360:CDS 55.0%
GGTTGAGCCCTGGGATTTGA+CGG + chr6_2:9558281-9558300 None:intergenic 55.0%
TAACTCTGTGCCAGCAGCCG+CGG - chr6_2:9558184-9558203 Msa0908360:CDS 60.0%
! GGGCGTAAAGCGTCTGTAGG+TGG - chr6_2:9558242-9558261 Msa0908360:CDS 60.0%
CAAATCCCAGGGCTCAACCC+TGG - chr6_2:9558282-9558301 Msa0908360:CDS 60.0%
CTCTGTCTTACCGCGGCTGC+TGG + chr6_2:9558197-9558216 None:intergenic 65.0%
CAGCAGCCGCGGTAAGACAG+AGG - chr6_2:9558195-9558214 Msa0908360:CDS 65.0%
CCTGTCCAGGGTTGAGCCCT+GGG + chr6_2:9558290-9558309 None:intergenic 65.0%
ACCTGTCCAGGGTTGAGCCC+TGG + chr6_2:9558291-9558310 None:intergenic 65.0%
AGGGCTCAACCCTGGACAGG+TGG - chr6_2:9558290-9558309 Msa0908360:CDS 65.0%
CCACGCGGCATTGCTCCGTC+AGG + chr6_2:9558087-9558106 None:intergenic 70.0%
CCTGACGGAGCAATGCCGCG+TGG - chr6_2:9558084-9558103 Msa0908360:CDS 70.0%
GACGGAGCAATGCCGCGTGG+AGG - chr6_2:9558087-9558106 Msa0908360:CDS 70.0%
CCCAGGGCTCAACCCTGGAC+AGG - chr6_2:9558287-9558306 Msa0908360:CDS 70.0%
Chromosome Type Strat End Strand Name
chr6_2 gene 9558073 9558325 9558073 ID=Msa0908360;Name=Msa0908360
chr6_2 mRNA 9558073 9558325 9558073 ID=Msa0908360-mRNA-1;Parent=Msa0908360;Name=Msa0908360-mRNA-1;_AED=0.42;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|78
chr6_2 exon 9558238 9558325 9558238 ID=Msa0908360-mRNA-1:exon:2300;Parent=Msa0908360-mRNA-1
chr6_2 exon 9558073 9558221 9558073 ID=Msa0908360-mRNA-1:exon:2299;Parent=Msa0908360-mRNA-1
chr6_2 CDS 9558238 9558325 9558238 ID=Msa0908360-mRNA-1:cds;Parent=Msa0908360-mRNA-1
chr6_2 CDS 9558073 9558221 9558073 ID=Msa0908360-mRNA-1:cds;Parent=Msa0908360-mRNA-1
Gene Sequence

>Msa0908360

ATGGGCGAAAGCCTGACGGAGCAATGCCGCGTGGAGGTAAAAGGCCTACGGGTCATGAACTTCTTTTCCTGGAGAAGAAACAATGACGCATCGGCTAACTCTGTGCCAGCAGCCGCGGTAAGACAGAGGATGCAAGCGTTATCCGGAATGATTGGGCGTAAAGCGTCTGTAGGTGGCTTTTTAAGTTCGCCGTCAAATCCCAGGGCTCAACCCTGGACAGGTGGTGAAAACTACTAA

Protein sequence

>Msa0908360

MGESLTEQCRVEVKGLRVMNFFSWRRNNDASANSVPAAAVRQRMQALSGMIGRKASVGGFLSSPSNPRAQPWTGGENY*