AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0650740


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:+57993220 Msa0650740:CDS
TTTGCCAATAGGATCTGGTT+TGG 0.364938 4_3:-57993387 None:intergenic
TTGCCAATAGGATCTGGTTT+GGG 0.376061 4_3:-57993386 None:intergenic
AGCATCATCAACCGCACCTT+TGG 0.404914 4_3:-57993411 None:intergenic
GTACTTGCCAAAAGATCGTT+AGG 0.439536 4_3:-57993227 None:intergenic
AAACCCAAACCAGATCCTAT+TGG 0.473112 4_3:+57993383 Msa0650740:CDS
GATGATGCTACAAAGTCTGC+TGG 0.547087 4_3:+57993425 Msa0650740:CDS
ACTGTAGGAAATCTTGCAGC+TGG 0.550456 4_3:+57993278 Msa0650740:CDS
GCTGGTGTTCATAAGACTGT+AGG 0.573068 4_3:+57993329 Msa0650740:CDS
GCATCAGCACAGAAAACTGT+AGG 0.588939 4_3:+57993263 Msa0650740:CDS
GTAGGAAATCTTGCAGCTGG+TGG 0.593110 4_3:+57993281 Msa0650740:CDS
GATCCTATTGGCAAAACCAA+AGG 0.604323 4_3:+57993395 Msa0650740:CDS
AATGTGGGAAATGCTGCAGC+TGG 0.619200 4_3:+57993311 Msa0650740:CDS
TATTGGCAAAACCAAAGGTG+CGG 0.679241 4_3:+57993400 Msa0650740:CDS
GATGCTACAAAGTCTGCTGG+AGG 0.702868 4_3:+57993428 Msa0650740:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTTTACAAAATCAGCAGCGT+TGG - chr4_3:57993366-57993385 None:intergenic 35.0%
GTACTTGCCAAAAGATCGTT+AGG - chr4_3:57993230-57993249 None:intergenic 40.0%
! CGATCTTTTGGCAAGTACAA+AGG + chr4_3:57993232-57993251 Msa0650740:CDS 40.0%
! CAGCATTTCCCACATTTTTC+TGG - chr4_3:57993307-57993326 None:intergenic 40.0%
AAACCCAAACCAGATCCTAT+TGG + chr4_3:57993383-57993402 Msa0650740:CDS 40.0%
! TTGCCAATAGGATCTGGTTT+GGG - chr4_3:57993389-57993408 None:intergenic 40.0%
TTTGCCAATAGGATCTGGTT+TGG - chr4_3:57993390-57993409 None:intergenic 40.0%
!!! TTGGTTTTGCCAATAGGATC+TGG - chr4_3:57993395-57993414 None:intergenic 40.0%
GATCCTATTGGCAAAACCAA+AGG + chr4_3:57993395-57993414 Msa0650740:CDS 40.0%
TATTGGCAAAACCAAAGGTG+CGG + chr4_3:57993400-57993419 Msa0650740:CDS 40.0%
GCATCAGCACAGAAAACTGT+AGG + chr4_3:57993263-57993282 Msa0650740:CDS 45.0%
ACTGTAGGAAATCTTGCAGC+TGG + chr4_3:57993278-57993297 Msa0650740:CDS 45.0%
GCTGGTGTTCATAAGACTGT+AGG + chr4_3:57993329-57993348 Msa0650740:CDS 45.0%
!!! GCACCTTTGGTTTTGCCAAT+AGG - chr4_3:57993401-57993420 None:intergenic 45.0%
GATGATGCTACAAAGTCTGC+TGG + chr4_3:57993425-57993444 Msa0650740:CDS 45.0%
! GGCTGGACCTAACGATCTTT+TGG + chr4_3:57993220-57993239 Msa0650740:CDS 50.0%
GTAGGAAATCTTGCAGCTGG+TGG + chr4_3:57993281-57993300 Msa0650740:CDS 50.0%
AGCTGGTGGCCAGAAAAATG+TGG + chr4_3:57993295-57993314 Msa0650740:CDS 50.0%
GCTGGTGGCCAGAAAAATGT+GGG + chr4_3:57993296-57993315 Msa0650740:CDS 50.0%
AATGTGGGAAATGCTGCAGC+TGG + chr4_3:57993311-57993330 Msa0650740:CDS 50.0%
AGCATCATCAACCGCACCTT+TGG - chr4_3:57993414-57993433 None:intergenic 50.0%
GATGCTACAAAGTCTGCTGG+AGG + chr4_3:57993428-57993447 Msa0650740:CDS 50.0%
Chromosome Type Strat End Strand Name
chr4_3 gene 57993218 57993463 57993218 ID=Msa0650740;Name=Msa0650740
chr4_3 mRNA 57993218 57993463 57993218 ID=Msa0650740-mRNA-1;Parent=Msa0650740;Name=Msa0650740-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|81
chr4_3 exon 57993218 57993463 57993218 ID=Msa0650740-mRNA-1:exon:15272;Parent=Msa0650740-mRNA-1
chr4_3 CDS 57993218 57993463 57993218 ID=Msa0650740-mRNA-1:cds;Parent=Msa0650740-mRNA-1
Gene Sequence

>Msa0650740

ATGGCTGGACCTAACGATCTTTTGGCAAGTACAAAGGATGCAGCAGCATCAGCACAGAAAACTGTAGGAAATCTTGCAGCTGGTGGCCAGAAAAATGTGGGAAATGCTGCAGCTGGTGTTCATAAGACTGTAGGAGATTTTGCTACCAACGCTGCTGATTTTGTAAAACCCAAACCAGATCCTATTGGCAAAACCAAAGGTGCGGTTGATGATGCTACAAAGTCTGCTGGAGGCTTATTTAAATGA

Protein sequence

>Msa0650740

MAGPNDLLASTKDAAASAQKTVGNLAAGGQKNVGNAAAGVHKTVGDFATNAADFVKPKPDPIGKTKGAVDDATKSAGGLFK*