AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0380100


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 15 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTGGAACAATCATCTTTGT+TGG 0.369413 3_1:-81659239 None:intergenic
CAGGTGCTCAATCCTCTTGT+TGG 0.380464 3_1:-81659215 None:intergenic
CTGCTGCATCTATATTGTTA+AGG 0.411072 3_1:-81659337 None:intergenic
AGGTGCTCAATCCTCTTGTT+GGG 0.421016 3_1:-81659214 None:intergenic
AACAATCATCTTTGTTGGAC+AGG 0.442686 3_1:-81659234 None:intergenic
TCTCTAATCATAAACAAGAA+AGG 0.443816 3_1:+81659269 Msa0380100:CDS
TTCATTGAAGTGAATGAAGA+AGG 0.456815 3_1:-81659380 None:intergenic
CTCTAATCATAAACAAGAAA+GGG 0.468439 3_1:+81659270 Msa0380100:CDS
ATGATTAGAGAAGATTTGAC+TGG 0.486911 3_1:-81659257 None:intergenic
TAGTCGAGGTGGAATACTCA+TGG 0.595090 3_1:+81659310 Msa0380100:CDS
CCCTAAGATCACCCAACAAG+AGG 0.607235 3_1:+81659203 Msa0380100:intron
TAATCATAAACAAGAAAGGG+TGG 0.640706 3_1:+81659273 Msa0380100:CDS
AGAAGGCACTGAAGCTGCTG+CGG 0.641571 3_1:-81659363 None:intergenic
GCTACAAAGTCTAGTCGAGG+TGG 0.662510 3_1:+81659299 Msa0380100:CDS
TCAGCTACAAAGTCTAGTCG+AGG 0.690824 3_1:+81659296 Msa0380100:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCTCTAATCATAAACAAGAA+AGG + chr3_1:81659269-81659288 Msa0380100:CDS 25.0%
! CTCTAATCATAAACAAGAAA+GGG + chr3_1:81659270-81659289 Msa0380100:CDS 25.0%
ATGATTAGAGAAGATTTGAC+TGG - chr3_1:81659260-81659279 None:intergenic 30.0%
TAATCATAAACAAGAAAGGG+TGG + chr3_1:81659273-81659292 Msa0380100:CDS 30.0%
TTCATTGAAGTGAATGAAGA+AGG - chr3_1:81659383-81659402 None:intergenic 30.0%
AACAATCATCTTTGTTGGAC+AGG - chr3_1:81659237-81659256 None:intergenic 35.0%
ACTGGAACAATCATCTTTGT+TGG - chr3_1:81659242-81659261 None:intergenic 35.0%
CTGCTGCATCTATATTGTTA+AGG - chr3_1:81659340-81659359 None:intergenic 35.0%
CTTAGGGAACCACACTATAT+TGG - chr3_1:81659190-81659209 None:intergenic 40.0%
CCTCTTGTTGGGTGATCTTA+GGG - chr3_1:81659206-81659225 None:intergenic 45.0%
TCCTCTTGTTGGGTGATCTT+AGG - chr3_1:81659207-81659226 None:intergenic 45.0%
AGGTGCTCAATCCTCTTGTT+GGG - chr3_1:81659217-81659236 None:intergenic 45.0%
TCAGCTACAAAGTCTAGTCG+AGG + chr3_1:81659296-81659315 Msa0380100:CDS 45.0%
TAGTCGAGGTGGAATACTCA+TGG + chr3_1:81659310-81659329 Msa0380100:CDS 45.0%
ATGGGTGGGCCAATATAGTG+TGG + chr3_1:81659178-81659197 Msa0380100:intron 50.0%
CCCTAAGATCACCCAACAAG+AGG + chr3_1:81659203-81659222 Msa0380100:intron 50.0%
CAGGTGCTCAATCCTCTTGT+TGG - chr3_1:81659218-81659237 None:intergenic 50.0%
GCTACAAAGTCTAGTCGAGG+TGG + chr3_1:81659299-81659318 Msa0380100:CDS 50.0%
!! AGAAGGCACTGAAGCTGCTG+CGG - chr3_1:81659366-81659385 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr3_1 gene 81659178 81659412 81659178 ID=Msa0380100;Name=Msa0380100
chr3_1 mRNA 81659178 81659412 81659178 ID=Msa0380100-mRNA-1;Parent=Msa0380100;Name=Msa0380100-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0|0|0|0.5|0|0|2|0|68
chr3_1 exon 81659178 81659181 81659178 ID=Msa0380100-mRNA-1:exon:20769;Parent=Msa0380100-mRNA-1
chr3_1 exon 81659210 81659412 81659210 ID=Msa0380100-mRNA-1:exon:20770;Parent=Msa0380100-mRNA-1
chr3_1 CDS 81659178 81659181 81659178 ID=Msa0380100-mRNA-1:cds;Parent=Msa0380100-mRNA-1
chr3_1 CDS 81659210 81659412 81659210 ID=Msa0380100-mRNA-1:cds;Parent=Msa0380100-mRNA-1
Gene Sequence

>Msa0380100

ATGGATCACCCAACAAGAGGATTGAGCACCTGTCCAACAAAGATGATTGTTCCAGTCAAATCTTCTCTAATCATAAACAAGAAAGGGTGGTCAGCTACAAAGTCTAGTCGAGGTGGAATACTCATGGCGCTCCTTAACAATATAGATGCAGCAGTTGCCGCAGCAGCTTCAGTGCCTTCTTCATTCACTTCAATGAAAGACTTGTGA

Protein sequence

>Msa0380100

MDHPTRGLSTCPTKMIVPVKSSLIINKKGWSATKSSRGGILMALLNNIDAAVAAAASVPSSFTSMKDL*