AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0747990

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0747990 MtrunA17_Chr1g0193291 94.382 89 5 0 1 89 1 89 1.51e-49 151
Msa0747990 MtrunA17_Chr1g0193231 83.516 91 13 2 1 89 1 91 2.28e-43 135
Msa0747990 MtrunA17_Chr1g0193301 76.087 92 19 2 1 89 1 92 1.00e-42 134
Msa0747990 MtrunA17_Chr1g0193261 82.418 91 14 2 1 89 1 91 1.84e-41 130
Msa0747990 MtrunA17_Chr7g0271321 62.069 87 27 3 1 86 1 82 2.22e-30 102
Msa0747990 MtrunA17_Chr1g0193271 51.724 87 36 4 1 87 1 81 8.03e-21 78.6
Msa0747990 MtrunA17_Chr1g0193251 50.000 86 36 4 2 87 3 81 2.20e-15 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 13 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGAAGATAGAGGTAGTT+GGG 0.344602 5_2:+953727 Msa0747990:CDS
AGTCTTCTAAATCATCATTC+AGG 0.386784 5_2:+953609 Msa0747990:CDS
GTAGCTCTCATGTCAATAAC+AGG 0.408831 5_2:-953761 None:intergenic
TTTCTGAATCTGAAATTCAC+TGG 0.499455 5_2:+953813 Msa0747990:CDS
CTACCTCTATCTTCATCACT+TGG 0.508941 5_2:-953722 None:intergenic
AGTAACAAGCAAAGAGGTGG+AGG 0.512782 5_2:+953659 Msa0747990:CDS
GTGATGAAGATAGAGGTAGT+TGG 0.534465 5_2:+953726 Msa0747990:CDS
GGAGGAGAGTATTATGATCA+TGG 0.541749 5_2:+953677 Msa0747990:CDS
TTGTTCGTATCCTACTGCTC+AGG 0.553904 5_2:-953845 None:intergenic
GCAAGCTCAACCTGAGCAGT+AGG 0.565667 5_2:+953835 Msa0747990:CDS
TGGCCAAGTGATGAAGATAG+AGG 0.579214 5_2:+953719 Msa0747990:CDS
AGCAGTAACAAGCAAAGAGG+TGG 0.595597 5_2:+953656 Msa0747990:CDS
GATGAAGATAGAGGTAGTTG+GGG 0.608901 5_2:+953728 Msa0747990:CDS
TTTCTCACTTGTAAAATGGG+AGG 0.611166 5_2:+953572 None:intergenic
AAATGGGAGGAAACAATCAA+AGG 0.621803 5_2:+953585 None:intergenic
TCTAGCAGTAACAAGCAAAG+AGG 0.646145 5_2:+953653 Msa0747990:CDS
GTGCTTATGCTAACAAAGTG+TGG 0.723534 5_2:+953699 Msa0747990:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGTCTTCTAAATCATCATTC+AGG + chr5_2:953609-953628 Msa0747990:CDS 30.0%
! TTTCTGAATCTGAAATTCAC+TGG + chr5_2:953813-953832 Msa0747990:CDS 30.0%
TGATGAAGATAGAGGTAGTT+GGG + chr5_2:953727-953746 Msa0747990:CDS 35.0%
TCTAGCAGTAACAAGCAAAG+AGG + chr5_2:953653-953672 Msa0747990:CDS 40.0%
!! GGAGGAGAGTATTATGATCA+TGG + chr5_2:953677-953696 Msa0747990:CDS 40.0%
GTGCTTATGCTAACAAAGTG+TGG + chr5_2:953699-953718 Msa0747990:CDS 40.0%
CTACCTCTATCTTCATCACT+TGG - chr5_2:953725-953744 None:intergenic 40.0%
GTGATGAAGATAGAGGTAGT+TGG + chr5_2:953726-953745 Msa0747990:CDS 40.0%
GATGAAGATAGAGGTAGTTG+GGG + chr5_2:953728-953747 Msa0747990:CDS 40.0%
GTAGCTCTCATGTCAATAAC+AGG - chr5_2:953764-953783 None:intergenic 40.0%
AGCAGTAACAAGCAAAGAGG+TGG + chr5_2:953656-953675 Msa0747990:CDS 45.0%
AGTAACAAGCAAAGAGGTGG+AGG + chr5_2:953659-953678 Msa0747990:CDS 45.0%
TGGCCAAGTGATGAAGATAG+AGG + chr5_2:953719-953738 Msa0747990:CDS 45.0%
Chromosome Type Strat End Strand Name
chr5_2 gene 953587 953856 953587 ID=Msa0747990;Name=Msa0747990
chr5_2 mRNA 953587 953856 953587 ID=Msa0747990-mRNA-1;Parent=Msa0747990;Name=Msa0747990-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|89
chr5_2 exon 953587 953856 953587 ID=Msa0747990-mRNA-1:exon:237;Parent=Msa0747990-mRNA-1
chr5_2 CDS 953587 953856 953587 ID=Msa0747990-mRNA-1:cds;Parent=Msa0747990-mRNA-1
Gene Sequence

>Msa0747990

ATGGGAGGAAACAATCAAAGGAAGTCTTCTAAATCATCATTCAGGTCAGTTTTCAACATTTTCAAATCTAGCAGTAACAAGCAAAGAGGTGGAGGAGAGTATTATGATCATGGTGCTTATGCTAACAAAGTGTGGCCAAGTGATGAAGATAGAGGTAGTTGGGGTGTAGCTGATCCTGTTATTGACATGAGAGCTACATCATTCATTGCTCGATACAAGAAACGTATTTCTGAATCTGAAATTCACTGGCAAGCTCAACCTGAGCAGTAG
Protein sequence

>Msa0747990

MGGNNQRKSSKSSFRSVFNIFKSSSNKQRGGGEYYDHGAYANKVWPSDEDRGSWGVADPVIDMRATSFIARYKKRISESEIHWQAQPEQ*