AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0771720


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0771720 MtrunA17_Chr5g0425471 96.875 96 3 0 1 96 687 782 1.04e-57 189
Msa0771720 MtrunA17_Chr5g0425451 94.792 96 5 0 1 96 687 782 5.98e-56 184
Msa0771720 MtrunA17_Chr5g0425531 94.792 96 5 0 1 96 690 785 3.24e-48 162
Msa0771720 MtrunA17_Chr5g0425431 94.792 96 5 0 1 96 685 780 2.06e-47 160
Msa0771720 MtrunA17_Chr3g0115601 58.333 96 40 0 1 96 681 776 5.21e-35 125
Msa0771720 MtrunA17_Chr2g0278761 35.417 96 61 1 1 96 681 775 1.63e-13 64.7
Msa0771720 MtrunA17_Chr5g0411571 35.417 96 62 0 1 96 687 782 1.83e-13 64.3
Msa0771720 MtrunA17_Chr2g0294751 36.957 92 53 1 1 92 666 752 9.89e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0771720 AT1G78060.1 51.064 94 44 2 5 96 674 767 3.15e-24 95.5
Msa0771720 AT5G09730.1 41.304 92 53 1 5 96 683 773 1.15e-14 68.2
Msa0771720 AT5G10560.1 34.043 94 62 0 1 94 697 790 3.25e-12 61.2
Msa0771720 AT1G02640.1 35.106 94 60 1 1 94 666 758 5.41e-11 57.8

Find 31 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCATTTCTACCTTTCTT+TGG 0.223144 5_2:+44885222 None:intergenic
TTTGAGAGTGTGACGGTAGA+AGG 0.295260 5_2:-44885177 Msa0771720:CDS
GGAGGTGGAAAGGGTGAAGT+TGG 0.369858 5_2:-44885156 Msa0771720:CDS
ACATTGGGAATTACAAATAC+TGG 0.371416 5_2:-44885285 Msa0771720:CDS
ACAAATACTGGAAGCATGGC+TGG 0.392102 5_2:-44885273 Msa0771720:CDS
AGCAAATGAGAGTGGTGTTA+AGG 0.394279 5_2:-44885100 Msa0771720:CDS
AACCCTACCAACTGTTTCAC+TGG 0.418928 5_2:+44885198 None:intergenic
GGTGTTAAGGTTATTGAAGA+AGG 0.423449 5_2:-44885087 Msa0771720:CDS
AAGCCAAAGAAAGGTAGAAA+TGG 0.439382 5_2:-44885225 Msa0771720:CDS
AGGTGGTTATTTGTTGGTTG+TGG 0.441204 5_2:-44885067 Msa0771720:CDS
ATGTCCATTTCTGTCACATT+GGG 0.454625 5_2:-44885300 Msa0771720:CDS
AATTCCCAATGTGACAGAAA+TGG 0.462642 5_2:+44885296 None:intergenic
CATGTCCATTTCTGTCACAT+TGG 0.479302 5_2:-44885301 Msa0771720:CDS
ACGGTAGAAGGAGGTGGAAA+GGG 0.488877 5_2:-44885165 Msa0771720:CDS
TGAAGAAGGTGGTTATTTGT+TGG 0.512311 5_2:-44885073 Msa0771720:CDS
GGTGGTTATTTGTTGGTTGT+GGG 0.512498 5_2:-44885066 Msa0771720:CDS
TACTCAATAAATATCACTGT+TGG 0.517582 5_2:-44885033 Msa0771720:CDS
GTTAAGGTTATTGAAGAAGG+TGG 0.523682 5_2:-44885084 Msa0771720:CDS
GACGGTAGAAGGAGGTGGAA+AGG 0.524657 5_2:-44885166 Msa0771720:CDS
TTATTTGTTGGTTGTGGGAA+AGG 0.524766 5_2:-44885061 Msa0771720:CDS
ATCCAGTGAAACAGTTGGTA+GGG 0.542668 5_2:-44885200 Msa0771720:CDS
TTGTTTGTGAAGCCAAAGAA+AGG 0.545721 5_2:-44885234 Msa0771720:CDS
AGTGTGACGGTAGAAGGAGG+TGG 0.547541 5_2:-44885171 Msa0771720:CDS
AATCCAGTGAAACAGTTGGT+AGG 0.561271 5_2:-44885201 Msa0771720:CDS
GAGAGTGTGACGGTAGAAGG+AGG 0.561859 5_2:-44885174 Msa0771720:CDS
CAAATACTGGAAGCATGGCT+GGG 0.573487 5_2:-44885272 Msa0771720:CDS
GGTAGGGTTTGAGAGTGTGA+CGG 0.580407 5_2:-44885184 Msa0771720:CDS
AATTACAAATACTGGAAGCA+TGG 0.582605 5_2:-44885277 Msa0771720:CDS
GGCTTCACAAACAACAACAC+AGG 0.609698 5_2:+44885243 None:intergenic
TGGAAATCCAGTGAAACAGT+TGG 0.620701 5_2:-44885205 Msa0771720:CDS
CTTAGTAGAGCAAATGAGAG+TGG 0.648348 5_2:-44885108 Msa0771720:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TACTCAATAAATATCACTGT+TGG - chr5_2:44885296-44885315 Msa0771720:CDS 25.0%
ACATTGGGAATTACAAATAC+TGG - chr5_2:44885044-44885063 Msa0771720:CDS 30.0%
AATTACAAATACTGGAAGCA+TGG - chr5_2:44885052-44885071 Msa0771720:CDS 30.0%
TTTCCATTTCTACCTTTCTT+TGG + chr5_2:44885110-44885129 None:intergenic 30.0%
ATGTCCATTTCTGTCACATT+GGG - chr5_2:44885029-44885048 Msa0771720:CDS 35.0%
AATTCCCAATGTGACAGAAA+TGG + chr5_2:44885036-44885055 None:intergenic 35.0%
TTGTTTGTGAAGCCAAAGAA+AGG - chr5_2:44885095-44885114 Msa0771720:CDS 35.0%
AAGCCAAAGAAAGGTAGAAA+TGG - chr5_2:44885104-44885123 Msa0771720:CDS 35.0%
GGTGTTAAGGTTATTGAAGA+AGG - chr5_2:44885242-44885261 Msa0771720:CDS 35.0%
GTTAAGGTTATTGAAGAAGG+TGG - chr5_2:44885245-44885264 Msa0771720:CDS 35.0%
TGAAGAAGGTGGTTATTTGT+TGG - chr5_2:44885256-44885275 Msa0771720:CDS 35.0%
! TTATTTGTTGGTTGTGGGAA+AGG - chr5_2:44885268-44885287 Msa0771720:CDS 35.0%
TGGAAATCCAGTGAAACAGT+TGG - chr5_2:44885124-44885143 Msa0771720:CDS 40.0%
AATCCAGTGAAACAGTTGGT+AGG - chr5_2:44885128-44885147 Msa0771720:CDS 40.0%
! ATCCAGTGAAACAGTTGGTA+GGG - chr5_2:44885129-44885148 Msa0771720:CDS 40.0%
CTTAGTAGAGCAAATGAGAG+TGG - chr5_2:44885221-44885240 Msa0771720:CDS 40.0%
! AGCAAATGAGAGTGGTGTTA+AGG - chr5_2:44885229-44885248 Msa0771720:CDS 40.0%
! AGGTGGTTATTTGTTGGTTG+TGG - chr5_2:44885262-44885281 Msa0771720:CDS 40.0%
! GGTGGTTATTTGTTGGTTGT+GGG - chr5_2:44885263-44885282 Msa0771720:CDS 40.0%
! ACAAATACTGGAAGCATGGC+TGG - chr5_2:44885056-44885075 Msa0771720:CDS 45.0%
! CAAATACTGGAAGCATGGCT+GGG - chr5_2:44885057-44885076 Msa0771720:CDS 45.0%
GGCTTCACAAACAACAACAC+AGG + chr5_2:44885089-44885108 None:intergenic 45.0%
AACCCTACCAACTGTTTCAC+TGG + chr5_2:44885134-44885153 None:intergenic 45.0%
! TTTGAGAGTGTGACGGTAGA+AGG - chr5_2:44885152-44885171 Msa0771720:CDS 45.0%
! GGTAGGGTTTGAGAGTGTGA+CGG - chr5_2:44885145-44885164 Msa0771720:CDS 50.0%
ACGGTAGAAGGAGGTGGAAA+GGG - chr5_2:44885164-44885183 Msa0771720:CDS 50.0%
! GAGAGTGTGACGGTAGAAGG+AGG - chr5_2:44885155-44885174 Msa0771720:CDS 55.0%
AGTGTGACGGTAGAAGGAGG+TGG - chr5_2:44885158-44885177 Msa0771720:CDS 55.0%
GACGGTAGAAGGAGGTGGAA+AGG - chr5_2:44885163-44885182 Msa0771720:CDS 55.0%
GGAGGTGGAAAGGGTGAAGT+TGG - chr5_2:44885173-44885192 Msa0771720:CDS 55.0%
Chromosome Type Strat End Strand Name
chr5_2 gene 44885029 44885322 44885029 ID=Msa0771720;Name=Msa0771720
chr5_2 mRNA 44885029 44885322 44885029 ID=Msa0771720-mRNA-1;Parent=Msa0771720;Name=Msa0771720-mRNA-1;_AED=0.47;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|97
chr5_2 exon 44885029 44885322 44885029 ID=Msa0771720-mRNA-1:exon:13654;Parent=Msa0771720-mRNA-1
chr5_2 CDS 44885029 44885322 44885029 ID=Msa0771720-mRNA-1:cds;Parent=Msa0771720-mRNA-1
Gene Sequence

>Msa0771720

ATGTCCATTTCTGTCACATTGGGAATTACAAATACTGGAAGCATGGCTGGGAAACATCCTGTGTTGTTGTTTGTGAAGCCAAAGAAAGGTAGAAATGGAAATCCAGTGAAACAGTTGGTAGGGTTTGAGAGTGTGACGGTAGAAGGAGGTGGAAAGGGTGAAGTTGGATTCGAAGTTAGTGTTTGTGAGCATCTTAGTAGAGCAAATGAGAGTGGTGTTAAGGTTATTGAAGAAGGTGGTTATTTGTTGGTTGTGGGAAAGGAAGAGTACTCAATAAATATCACTGTTGGATGA

Protein sequence

>Msa0771720

MSISVTLGITNTGSMAGKHPVLLFVKPKKGRNGNPVKQLVGFESVTVEGGGKGEVGFEVSVCEHLSRANESGVKVIEEGGYLLVVGKEEYSINITVG*