AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0650650


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 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCTGGACCTAACGATCTTT+TGG 0.317659 4_3:+57881527 Msa0650650:CDS
TTTGCCAATAGGATCTGGTT+TGG 0.364938 4_3:-57881694 None:intergenic
TTGCCAATAGGATCTGGTTT+GGG 0.376061 4_3:-57881693 None:intergenic
AGCATCATCAACCGCACCTT+TGG 0.404914 4_3:-57881718 None:intergenic
GTACTTGCCAAAAGATCGTT+AGG 0.439536 4_3:-57881534 None:intergenic
AAACCCAAACCAGATCCTAT+TGG 0.473112 4_3:+57881690 Msa0650650:CDS
GATGATGCTACAAAGTCTGC+TGG 0.547087 4_3:+57881732 Msa0650650:CDS
ACTGTAGGAAATCTTGCAGC+TGG 0.550456 4_3:+57881585 Msa0650650:CDS
GCTGGTGTTCATAAGACTGT+AGG 0.573068 4_3:+57881636 Msa0650650:CDS
GCATCAGCACAGAAAACTGT+AGG 0.588939 4_3:+57881570 Msa0650650:CDS
GTAGGAAATCTTGCAGCTGG+TGG 0.593110 4_3:+57881588 Msa0650650:CDS
GATCCTATTGGCAAAACCAA+AGG 0.604323 4_3:+57881702 Msa0650650:CDS
AATGTGGGAAATGCTGCAGC+TGG 0.619200 4_3:+57881618 Msa0650650:CDS
TATTGGCAAAACCAAAGGTG+CGG 0.679241 4_3:+57881707 Msa0650650:CDS
GATGCTACAAAGTCTGCTGG+AGG 0.702868 4_3:+57881735 Msa0650650:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTTTACAAAATCAGCAGCGT+TGG - chr4_3:57881673-57881692 None:intergenic 35.0%
GTACTTGCCAAAAGATCGTT+AGG - chr4_3:57881537-57881556 None:intergenic 40.0%
! CGATCTTTTGGCAAGTACAA+AGG + chr4_3:57881539-57881558 Msa0650650:CDS 40.0%
! CAGCATTTCCCACATTTTTC+TGG - chr4_3:57881614-57881633 None:intergenic 40.0%
AAACCCAAACCAGATCCTAT+TGG + chr4_3:57881690-57881709 Msa0650650:CDS 40.0%
! TTGCCAATAGGATCTGGTTT+GGG - chr4_3:57881696-57881715 None:intergenic 40.0%
TTTGCCAATAGGATCTGGTT+TGG - chr4_3:57881697-57881716 None:intergenic 40.0%
!!! TTGGTTTTGCCAATAGGATC+TGG - chr4_3:57881702-57881721 None:intergenic 40.0%
GATCCTATTGGCAAAACCAA+AGG + chr4_3:57881702-57881721 Msa0650650:CDS 40.0%
TATTGGCAAAACCAAAGGTG+CGG + chr4_3:57881707-57881726 Msa0650650:CDS 40.0%
GCATCAGCACAGAAAACTGT+AGG + chr4_3:57881570-57881589 Msa0650650:CDS 45.0%
ACTGTAGGAAATCTTGCAGC+TGG + chr4_3:57881585-57881604 Msa0650650:CDS 45.0%
GCTGGTGTTCATAAGACTGT+AGG + chr4_3:57881636-57881655 Msa0650650:CDS 45.0%
!!! GCACCTTTGGTTTTGCCAAT+AGG - chr4_3:57881708-57881727 None:intergenic 45.0%
GATGATGCTACAAAGTCTGC+TGG + chr4_3:57881732-57881751 Msa0650650:CDS 45.0%
! GGCTGGACCTAACGATCTTT+TGG + chr4_3:57881527-57881546 Msa0650650:CDS 50.0%
GTAGGAAATCTTGCAGCTGG+TGG + chr4_3:57881588-57881607 Msa0650650:CDS 50.0%
AGCTGGTGGCCAGAAAAATG+TGG + chr4_3:57881602-57881621 Msa0650650:CDS 50.0%
GCTGGTGGCCAGAAAAATGT+GGG + chr4_3:57881603-57881622 Msa0650650:CDS 50.0%
AATGTGGGAAATGCTGCAGC+TGG + chr4_3:57881618-57881637 Msa0650650:CDS 50.0%
AGCATCATCAACCGCACCTT+TGG - chr4_3:57881721-57881740 None:intergenic 50.0%
GATGCTACAAAGTCTGCTGG+AGG + chr4_3:57881735-57881754 Msa0650650:CDS 50.0%
Chromosome Type Strat End Strand Name
chr4_3 gene 57881525 57881770 57881525 ID=Msa0650650;Name=Msa0650650
chr4_3 mRNA 57881525 57881770 57881525 ID=Msa0650650-mRNA-1;Parent=Msa0650650;Name=Msa0650650-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|81
chr4_3 exon 57881525 57881770 57881525 ID=Msa0650650-mRNA-1:exon:15165;Parent=Msa0650650-mRNA-1
chr4_3 CDS 57881525 57881770 57881525 ID=Msa0650650-mRNA-1:cds;Parent=Msa0650650-mRNA-1
Gene Sequence

>Msa0650650

ATGGCTGGACCTAACGATCTTTTGGCAAGTACAAAGGATGCAGCAGCATCAGCACAGAAAACTGTAGGAAATCTTGCAGCTGGTGGCCAGAAAAATGTGGGAAATGCTGCAGCTGGTGTTCATAAGACTGTAGGAGATTTTGCTACCAACGCTGCTGATTTTGTAAAACCCAAACCAGATCCTATTGGCAAAACCAAAGGTGCGGTTGATGATGCTACAAAGTCTGCTGGAGGCTTATTTAAATGA

Protein sequence

>Msa0650650

MAGPNDLLASTKDAAASAQKTVGNLAAGGQKNVGNAAAGVHKTVGDFATNAADFVKPKPDPIGKTKGAVDDATKSAGGLFK*