AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0899290

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 19 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGATTGGTGGGTTCTTGT+AGG 0.301939 6_1:-94291906 None:intergenic
TCTGGACAATCTTCAAATAA+TGG 0.316114 6_1:+94291788 Msa0899290:CDS
TTGATTGGTGGGTTCTTGTA+GGG 0.373164 6_1:-94291905 None:intergenic
GAAGAACTTTAATTCTTCTT+CGG 0.391304 6_1:-94291956 None:intergenic
AACGATAACTTGGACATGTC+TGG 0.411302 6_1:+94291770 None:intergenic
AGGTTCTTCAATCCATTGAT+TGG 0.440905 6_1:-94291920 None:intergenic
TGGATTGAAGAACCTTAACT+TGG 0.473177 6_1:+94291928 Msa0899290:CDS
TCTTCAATCCATTGATTGGT+GGG 0.479434 6_1:-94291916 None:intergenic
TACAAGAACCCACCAATCAA+TGG 0.491155 6_1:+94291908 Msa0899290:CDS
TTCTTCAATCCATTGATTGG+TGG 0.498663 6_1:-94291917 None:intergenic
ACTGTCAATCTCGTCTACTA+AGG 0.504822 6_1:+94291871 Msa0899290:CDS
TGATTGGTGGGTTCTTGTAG+GGG 0.507798 6_1:-94291904 None:intergenic
GGATTGAAGAACCTTAACTT+GGG 0.542803 6_1:+94291929 Msa0899290:CDS
TACGTCTAGTCAACGCCGCA+AGG 0.573232 6_1:+94291826 Msa0899290:CDS
GTCAATCTCGTCTACTAAGG+TGG 0.583884 6_1:+94291874 Msa0899290:CDS
GATTGAAGAACCTTAACTTG+GGG 0.613727 6_1:+94291930 Msa0899290:CDS
TTGAAGAACCTTAACTTGGG+GGG 0.634566 6_1:+94291932 Msa0899290:CDS
TATTGTTATACTCATCCTTG+CGG 0.657310 6_1:-94291841 None:intergenic
ATTGAAGAACCTTAACTTGG+GGG 0.660577 6_1:+94291931 Msa0899290:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TCTGGACAATCTTCAAATAA+TGG + chr6_1:94291788-94291807 Msa0899290:CDS 30.0%
TATTGTTATACTCATCCTTG+CGG - chr6_1:94291844-94291863 None:intergenic 30.0%
! TCTTCAATCCATTGATTGGT+GGG - chr6_1:94291919-94291938 None:intergenic 35.0%
! TTCTTCAATCCATTGATTGG+TGG - chr6_1:94291920-94291939 None:intergenic 35.0%
AGGTTCTTCAATCCATTGAT+TGG - chr6_1:94291923-94291942 None:intergenic 35.0%
TGGATTGAAGAACCTTAACT+TGG + chr6_1:94291928-94291947 Msa0899290:CDS 35.0%
GGATTGAAGAACCTTAACTT+GGG + chr6_1:94291929-94291948 Msa0899290:CDS 35.0%
! GATTGAAGAACCTTAACTTG+GGG + chr6_1:94291930-94291949 Msa0899290:CDS 35.0%
! ATTGAAGAACCTTAACTTGG+GGG + chr6_1:94291931-94291950 Msa0899290:CDS 35.0%
ACTGTCAATCTCGTCTACTA+AGG + chr6_1:94291871-94291890 Msa0899290:CDS 40.0%
!! TTGATTGGTGGGTTCTTGTA+GGG - chr6_1:94291908-94291927 None:intergenic 40.0%
!! ATTGATTGGTGGGTTCTTGT+AGG - chr6_1:94291909-94291928 None:intergenic 40.0%
TACAAGAACCCACCAATCAA+TGG + chr6_1:94291908-94291927 Msa0899290:CDS 40.0%
! TTGAAGAACCTTAACTTGGG+GGG + chr6_1:94291932-94291951 Msa0899290:CDS 40.0%
GTCAATCTCGTCTACTAAGG+TGG + chr6_1:94291874-94291893 Msa0899290:CDS 45.0%
!! TGATTGGTGGGTTCTTGTAG+GGG - chr6_1:94291907-94291926 None:intergenic 45.0%
TACGTCTAGTCAACGCCGCA+AGG + chr6_1:94291826-94291845 Msa0899290:CDS 55.0%
TCTTCGGACCCCCCAAGTTA+AGG - chr6_1:94291943-94291962 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr6_1 gene 94291785 94291970 94291785 ID=Msa0899290;Name=Msa0899290
chr6_1 mRNA 94291785 94291970 94291785 ID=Msa0899290-mRNA-1;Parent=Msa0899290;Name=Msa0899290-mRNA-1;_AED=0.48;_eAED=1.00;_QI=0|-1|0|1|-1|1|1|0|61
chr6_1 exon 94291785 94291970 94291785 ID=Msa0899290-mRNA-1:exon:16091;Parent=Msa0899290-mRNA-1
chr6_1 CDS 94291785 94291970 94291785 ID=Msa0899290-mRNA-1:cds;Parent=Msa0899290-mRNA-1
Gene Sequence

>Msa0899290

ATGTCTGGACAATCTTCAAATAATGGATTGAGCTACTGCGATACGTCTAGTCAACGCCGCAAGGATGAGTATAACAATAGAGTGATACTGTCAATCTCGTCTACTAAGGTGGAAAAATACCCCTACAAGAACCCACCAATCAATGGATTGAAGAACCTTAACTTGGGGGGTCCGAAGAAGAATTAA
Protein sequence

>Msa0899290

MSGQSSNNGLSYCDTSSQRRKDEYNNRVILSISSTKVEKYPYKNPPINGLKNLNLGGPKKN*