AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1014540


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 13 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCGCAACGCACAATTATT+TGG 0.096904 7_1:+23591518 None:intergenic
CTTGCACTATATGGGCAATA+TGG 0.307994 7_1:-23591326 Msa1014540:CDS
AAGAAAGGAATGATGTTATC+TGG 0.336355 7_1:-23591303 Msa1014540:CDS
ATAATTGTGCGTTGCGATAC+AGG 0.378800 7_1:-23591514 Msa1014540:intron
GGTAATTGCCCACAAGAGAT+AGG 0.380914 7_1:-23591565 Msa1014540:CDS
ATCGCAACGCACAATTATTT+GGG 0.397001 7_1:+23591519 None:intergenic
GGTTAGTTAAGAATGGGCTT+TGG 0.475656 7_1:-23591586 None:intergenic
ATCATAAAGCCTATCTCTTG+TGG 0.510827 7_1:+23591556 None:intergenic
TCATAAAGCCTATCTCTTGT+GGG 0.518453 7_1:+23591557 None:intergenic
ATATGGGCAATATGGAAGAA+AGG 0.531001 7_1:-23591318 Msa1014540:CDS
CGATCGCACCACAGCTCTTG+CGG 0.578381 7_1:+23591267 None:intergenic
TGAAACTGCCGCAAGAGCTG+TGG 0.647486 7_1:-23591275 Msa1014540:CDS
AGAGATAGGCTTTATGATCG+AGG 0.654153 7_1:-23591551 Msa1014540:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTGGAATTTTATACTTC+AGG - chr7_1:23591392-23591411 Msa1014540:intron 20.0%
!! TTTTTCTCATGTCAAAATAG+TGG - chr7_1:23591359-23591378 Msa1014540:CDS 25.0%
! CAAGCAAAAACAAAGTTTTG+TGG + chr7_1:23591486-23591505 None:intergenic 30.0%
!!! TTGTTTTTGCTTGCACTATA+TGG - chr7_1:23591493-23591512 Msa1014540:intron 30.0%
!! TGTTTTTGCTTGCACTATAT+GGG - chr7_1:23591494-23591513 Msa1014540:intron 30.0%
AAGAAAGGAATGATGTTATC+TGG - chr7_1:23591525-23591544 Msa1014540:CDS 30.0%
TCATAAAGCCTATCTCTTGT+GGG + chr7_1:23591274-23591293 None:intergenic 35.0%
ATCATAAAGCCTATCTCTTG+TGG + chr7_1:23591275-23591294 None:intergenic 35.0%
ATCGCAACGCACAATTATTT+GGG + chr7_1:23591312-23591331 None:intergenic 35.0%
TATCGCAACGCACAATTATT+TGG + chr7_1:23591313-23591332 None:intergenic 35.0%
TCATGTCAAAATAGTGGCAA+AGG - chr7_1:23591365-23591384 Msa1014540:intron 35.0%
AATCATAGTTCGTTCTTCTG+TGG - chr7_1:23591420-23591439 Msa1014540:intron 35.0%
ATATGGGCAATATGGAAGAA+AGG - chr7_1:23591510-23591529 Msa1014540:intron 35.0%
! AGAGATAGGCTTTATGATCG+AGG - chr7_1:23591277-23591296 Msa1014540:CDS 40.0%
ATAATTGTGCGTTGCGATAC+AGG - chr7_1:23591314-23591333 Msa1014540:CDS 40.0%
!! TAGTGGCAAAGGCTTGTTTT+TGG - chr7_1:23591376-23591395 Msa1014540:intron 40.0%
CTTGCACTATATGGGCAATA+TGG - chr7_1:23591502-23591521 Msa1014540:intron 40.0%
GGTAATTGCCCACAAGAGAT+AGG - chr7_1:23591263-23591282 Msa1014540:CDS 45.0%
TGAAACTGCCGCAAGAGCTG+TGG - chr7_1:23591553-23591572 Msa1014540:CDS 55.0%
CGATCGCACCACAGCTCTTG+CGG + chr7_1:23591564-23591583 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr7_1 gene 23591254 23591596 23591254 ID=Msa1014540;Name=Msa1014540
chr7_1 mRNA 23591254 23591596 23591254 ID=Msa1014540-mRNA-1;Parent=Msa1014540;Name=Msa1014540-mRNA-1;_AED=0.54;_eAED=0.90;_QI=0|0|0|0.5|1|1|2|0|69
chr7_1 exon 23591515 23591596 23591515 ID=Msa1014540-mRNA-1:exon:5484;Parent=Msa1014540-mRNA-1
chr7_1 exon 23591254 23591381 23591254 ID=Msa1014540-mRNA-1:exon:5483;Parent=Msa1014540-mRNA-1
chr7_1 CDS 23591515 23591596 23591515 ID=Msa1014540-mRNA-1:cds;Parent=Msa1014540-mRNA-1
chr7_1 CDS 23591254 23591381 23591254 ID=Msa1014540-mRNA-1:cds;Parent=Msa1014540-mRNA-1
Gene Sequence

>Msa1014540

ATGGGCTTTGGTAATTGCCCACAAGAGATAGGCTTTATGATCGAGGAGTCAATAGCCCAAATAATTGTGCGTTGCGATACAGACTTTGAGTGCAAACCACAAAACTTTGTTTTTGCTTGCACTATATGGGCAATATGGAAGAAAGGAATGATGTTATCTGGAGAAATGAAACTGCCGCAAGAGCTGTGGTGCGATCGTAATCGTTATTAA

Protein sequence

>Msa1014540

MGFGNCPQEIGFMIEESIAQIIVRCDTDFECKPQNFVFACTIWAIWKKGMMLSGEMKLPQELWCDRNRY*