AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040873

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040873 MtrunA17_Chr7g0275421 98.649 148 2 0 27 174 12 159 1.29e-109 309
MsaG040873 MtrunA17_Chr3g0090311 35.762 151 96 1 1 150 1 151 2.68e-28 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040873 AT1G03150.1 92.529 174 13 0 1 174 1 174 1.75e-124 347
MsaG040873 AT5G13780.1 36.424 151 95 1 1 150 1 151 1.29e-27 102

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAGTGCTACGCTATTATTC+TGG 0.267608 7:-104747490 MsaT040873.1:CDS
TGATATGGTTACCGGGGCCT+TGG 0.305955 7:+104749659 None:intergenic
CACAAATAGATCAACAAAAT+AGG 0.329063 7:+104749331 None:intergenic
ACTTACTGTAACCCATGATA+TGG 0.371450 7:+104749644 None:intergenic
TAATTGTTGCCTGCGATACT+CGG 0.377412 7:+104749482 None:intergenic
GTAACCCATGATATGGTTAC+CGG 0.405860 7:+104749651 None:intergenic
TTCTGGGGAAGAAGATGGAT+TGG 0.420903 7:-104747473 MsaT040873.1:CDS
GATATGGTTACCGGGGCCTT+GGG 0.427052 7:+104749660 None:intergenic
GGTTACCGGGGCCTTGGGCG+AGG 0.434572 7:+104749665 None:intergenic
TAGTCGTACTCTAACTCATC+AGG 0.466585 7:+104747282 None:intergenic
GAGTGCTACGCTATTATTCT+GGG 0.472245 7:-104747489 MsaT040873.1:CDS
TTGGGCGAGGTGGAAATAGT+CGG 0.473599 7:+104749678 None:intergenic
TCTGGGGAAGAAGATGGATT+GGG 0.475034 7:-104747472 MsaT040873.1:intron
GTAGTTATGGGTAAAGTTGA+GGG 0.481119 7:-104749552 MsaT040873.1:intron
AGGCCCCGGTAACCATATCA+TGG 0.483412 7:-104749656 MsaT040873.1:CDS
TTCCACCTCGCCCAAGGCCC+CGG 0.488885 7:-104749670 MsaT040873.1:CDS
TATTATTCTGGGGAAGAAGA+TGG 0.493124 7:-104747478 MsaT040873.1:CDS
GACTATTTCCACCTCGCCCA+AGG 0.493150 7:-104749676 MsaT040873.1:CDS
GGAGTGACAGGTCGTTTAAG+AGG 0.494138 7:+104747303 None:intergenic
TTGAGGGGCAAGGAGAATCT+TGG 0.494281 7:-104749536 MsaT040873.1:CDS
TGCTAGGTAGGTCATGTAGA+AGG 0.496038 7:+104749708 None:intergenic
TGACATTTGTAAAACGAAGA+AGG 0.498914 7:+104749836 None:intergenic
TGGGCGAGGTGGAAATAGTC+GGG 0.499600 7:+104749679 None:intergenic
TGTAGTTATGGGTAAAGTTG+AGG 0.505774 7:-104749553 MsaT040873.1:intron
AGCCATCAAGATGTATGAAA+AGG 0.514376 7:-104749291 MsaT040873.1:intron
TACCGGGGCCTTGGGCGAGG+TGG 0.518879 7:+104749668 None:intergenic
CTGTTGCTCCCGAGTATCGC+AGG 0.521448 7:-104749491 MsaT040873.1:CDS
TACATACAGTTTCAGTGAGA+TGG 0.523499 7:+104749806 None:intergenic
AATAGTCGGGCCATCGTGCT+AGG 0.528873 7:+104749692 None:intergenic
ATGGGTAAAGTTGAGGGGCA+AGG 0.534565 7:-104749546 MsaT040873.1:CDS
AATTGTTGCCTGCGATACTC+GGG 0.536449 7:+104749483 None:intergenic
TCTAACTCATCAGGAGTGAC+AGG 0.539202 7:+104747291 None:intergenic
TAACCCATGATATGGTTACC+GGG 0.568371 7:+104749652 None:intergenic
GAGTGACAGGTCGTTTAAGA+GGG 0.595531 7:+104747304 None:intergenic
GGCCCCGGTAACCATATCAT+GGG 0.604498 7:-104749655 MsaT040873.1:CDS
AGGTCGTTTAAGAGGGATGA+CGG 0.617126 7:+104747311 None:intergenic
TAGTTATGGGTAAAGTTGAG+GGG 0.650869 7:-104749551 MsaT040873.1:CDS
GGGCAAGGAGAATCTTGGCA+TGG 0.658826 7:-104749531 MsaT040873.1:CDS
GTCGGGCCATCGTGCTAGGT+AGG 0.658913 7:+104749696 None:intergenic
TGAAGATGACAACAATACGT+AGG 0.673340 7:-104749873 None:intergenic
AACCCATGATATGGTTACCG+GGG 0.702997 7:+104749653 None:intergenic
AGTGCTACGCTATTATTCTG+GGG 0.705031 7:-104747488 MsaT040873.1:CDS
ACATGACCTACCTAGCACGA+TGG 0.757874 7:-104749702 MsaT040873.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 104747281 104749890 104747281 ID=MsaG040873
Chr7 mRNA 104747281 104749890 104747281 ID=MsaT040873.1;Parent=MsaG040873
Chr7 exon 104747281 104747372 104747281 ID=MsaT040873.1.exon6;Parent=MsaT040873.1
Chr7 CDS 104747281 104747372 104747281 ID=cds.MsaT040873.1;Parent=MsaT040873.1
Chr7 exon 104747473 104747533 104747473 ID=MsaT040873.1.exon5;Parent=MsaT040873.1
Chr7 CDS 104747473 104747533 104747473 ID=cds.MsaT040873.1;Parent=MsaT040873.1
Chr7 exon 104749292 104749361 104749292 ID=MsaT040873.1.exon4;Parent=MsaT040873.1
Chr7 CDS 104749292 104749361 104749292 ID=cds.MsaT040873.1;Parent=MsaT040873.1
Chr7 exon 104749438 104749570 104749438 ID=MsaT040873.1.exon3;Parent=MsaT040873.1
Chr7 CDS 104749438 104749570 104749438 ID=cds.MsaT040873.1;Parent=MsaT040873.1
Chr7 exon 104749650 104749740 104749650 ID=MsaT040873.1.exon2;Parent=MsaT040873.1
Chr7 CDS 104749650 104749740 104749650 ID=cds.MsaT040873.1;Parent=MsaT040873.1
Chr7 exon 104749813 104749890 104749813 ID=MsaT040873.1.exon1;Parent=MsaT040873.1
Chr7 CDS 104749813 104749890 104749813 ID=cds.MsaT040873.1;Parent=MsaT040873.1
Gene Sequence

>MsaT040873.1

ATGACAACAATACGTAGGTTTTGCTGCAACGACCTTCTTCGTTTTACAAATGTCAATCTTGACCATCTCACTGAAACTTTTAACATGTCCTTCTACATGACCTACCTAGCACGATGGCCCGACTATTTCCACCTCGCCCAAGGCCCCGGTAACCATATCATGGGTTACATTATGGGTAAAGTTGAGGGGCAAGGAGAATCTTGGCATGGTCATGTTACTGCAGTAACTGTTGCTCCCGAGTATCGCAGGCAACAATTAGCAAAGAAACTAATGAATCTTCTCGAAGACATCAGTGACAACATTGACAAAGCCTATTTTGTTGATCTATTTGTGAGAGCATCTAATGCACCAGCCATCAAGATGTATGAAAAGCTTGGCTATGTGATTTATCGACGAGTGCTACGCTATTATTCTGGGGAAGAAGATGGATTGGATATGAGAAAGGCATTGTCTCGTGATATTGATAAGAAGTCCGTCATCCCTCTTAAACGACCTGTCACTCCTGATGAGTTAGAGTACGACTAA
Protein sequence

>MsaT040873.1

MTTIRRFCCNDLLRFTNVNLDHLTETFNMSFYMTYLARWPDYFHLAQGPGNHIMGYIMGKVEGQGESWHGHVTAVTVAPEYRRQQLAKKLMNLLEDISDNIDKAYFVDLFVRASNAPAIKMYEKLGYVIYRRVLRYYSGEEDGLDMRKALSRDIDKKSVIPLKRPVTPDELEYD*