AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0148100


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0148100 MtrunA17_Chr1g0150981 95.495 111 5 0 1 111 1 111 1.41e-63 188
Msa0148100 MtrunA17_Chr1g0151011 94.595 111 6 0 1 111 1 111 6.78e-62 184
Msa0148100 MtrunA17_Chr3g0136311 61.607 112 42 1 1 111 1 112 2.76e-35 117
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 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCAATTAGTGTTACTTTA+TGG 0.143171 1_4:-8337422 Msa0148100:CDS
TCACAAGGTTTGATCGTAAT+TGG 0.180827 1_4:-8337335 Msa0148100:CDS
CATAGAGTTGGTGGTTCTTC+TGG 0.232310 1_4:-8337309 Msa0148100:CDS
TTTACCCTCCTATTTGCTTC+AGG 0.281136 1_4:+8337555 None:intergenic
AACCATAAAGTAACACTAAT+TGG 0.291426 1_4:+8337420 None:intergenic
TGCTAGAACTACTAAGCTTA+TGG 0.394299 1_4:+8337503 None:intergenic
GAATGGAACCTGAAGCAAAT+AGG 0.404269 1_4:-8337563 Msa0148100:CDS
AATTGGATTCATAGAGTTGG+TGG 0.508625 1_4:-8337318 Msa0148100:CDS
GATCTGTTATCTATGTATAG+AGG 0.518663 1_4:+8337471 None:intergenic
TAACAGATCAGAGAGTGAGT+TGG 0.526376 1_4:-8337457 Msa0148100:CDS
CGTAATTGGATTCATAGAGT+TGG 0.545772 1_4:-8337321 Msa0148100:CDS
AGAGTTGGTGGTTCTTCTGG+TGG 0.546860 1_4:-8337306 Msa0148100:CDS
TGGAACCTGAAGCAAATAGG+AGG 0.590316 1_4:-8337560 Msa0148100:CDS
GGAACCTGAAGCAAATAGGA+GGG 0.643854 1_4:-8337559 Msa0148100:CDS
AAGCTTAGTAGTTCTAGCAG+TGG 0.645576 1_4:-8337499 Msa0148100:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACCAATTAGTGTTACTTTA+TGG - chr1_4:8337387-8337406 Msa0148100:CDS 25.0%
! AACCATAAAGTAACACTAAT+TGG + chr1_4:8337392-8337411 None:intergenic 25.0%
GATCTGTTATCTATGTATAG+AGG + chr1_4:8337341-8337360 None:intergenic 30.0%
!!! CATAGCTTTATCAGCTTTTT+TGG - chr1_4:8337442-8337461 Msa0148100:CDS 30.0%
TGCTAGAACTACTAAGCTTA+TGG + chr1_4:8337309-8337328 None:intergenic 35.0%
!!! ACCTATGCTGCTTTTTGTAT+TGG - chr1_4:8337412-8337431 Msa0148100:CDS 35.0%
ACCAATACAAAAAGCAGCAT+AGG + chr1_4:8337416-8337435 None:intergenic 35.0%
TCACAAGGTTTGATCGTAAT+TGG - chr1_4:8337474-8337493 Msa0148100:CDS 35.0%
CGTAATTGGATTCATAGAGT+TGG - chr1_4:8337488-8337507 Msa0148100:CDS 35.0%
AATTGGATTCATAGAGTTGG+TGG - chr1_4:8337491-8337510 Msa0148100:CDS 35.0%
TTTACCCTCCTATTTGCTTC+AGG + chr1_4:8337257-8337276 None:intergenic 40.0%
!! AAGCTTAGTAGTTCTAGCAG+TGG - chr1_4:8337310-8337329 Msa0148100:CDS 40.0%
TAACAGATCAGAGAGTGAGT+TGG - chr1_4:8337352-8337371 Msa0148100:CDS 40.0%
! TTTTGGACAAGAGCTTCACA+AGG - chr1_4:8337459-8337478 Msa0148100:CDS 40.0%
TGGAACCTGAAGCAAATAGG+AGG - chr1_4:8337249-8337268 Msa0148100:CDS 45.0%
GGAACCTGAAGCAAATAGGA+GGG - chr1_4:8337250-8337269 Msa0148100:CDS 45.0%
!! CATAGAGTTGGTGGTTCTTC+TGG - chr1_4:8337500-8337519 Msa0148100:CDS 45.0%
!! AGAGTTGGTGGTTCTTCTGG+TGG - chr1_4:8337503-8337522 Msa0148100:CDS 50.0%
Chromosome Type Strat End Strand Name
chr1_4 gene 8337248 8337583 8337248 ID=Msa0148100;Name=Msa0148100
chr1_4 mRNA 8337248 8337583 8337248 ID=Msa0148100-mRNA-1;Parent=Msa0148100;Name=Msa0148100-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|111
chr1_4 exon 8337248 8337583 8337248 ID=Msa0148100-mRNA-1:exon:3605;Parent=Msa0148100-mRNA-1
chr1_4 CDS 8337248 8337583 8337248 ID=Msa0148100-mRNA-1:cds;Parent=Msa0148100-mRNA-1
Gene Sequence

>Msa0148100

ATGGAACCTGAAGCAAATAGGAGGGTAAACAAATTTTCATCTTATGAGAGAGTAGCAGCCATAAGCTTAGTAGTTCTAGCAGTGGCTTCTCCTCTATACATAGATAACAGATCAGAGAGTGAGTTGGAAGATGATGAACAACCAATTAGTGTTACTTTATGGTTACCTATGCTGCTTTTTGTATTGGTTTTAGTCATAGCTTTATCAGCTTTTTTGGACAAGAGCTTCACAAGGTTTGATCGTAATTGGATTCATAGAGTTGGTGGTTCTTCTGGTGGTATTGTTTTCATTCTTATTCTTCTCTTTCTTGTTTTGAAGTGTAAAGCATCTTTGTAA

Protein sequence

>Msa0148100

MEPEANRRVNKFSSYERVAAISLVVLAVASPLYIDNRSESELEDDEQPISVTLWLPMLLFVLVLVIALSAFLDKSFTRFDRNWIHRVGGSSGGIVFILILLFLVLKCKASL*