AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001175.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001175.01.T01 MTR_1g032560 94.531 128 6 1 9 135 45 172 2.77e-77 226
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001175.01.T01 AT2G01755 54.545 132 58 2 5 134 42 173 1.92e-41 135
MsG0180001175.01.T01 AT2G01755 54.545 132 58 2 5 134 48 179 2.29e-41 135

Find 39 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGTCTATAGATAGAATAAA+AGG 0.213144 1:-16849644 MsG0180001175.01.T01:CDS
ACCAAAGGCTTATACCTCTT+TGG 0.304276 1:+16850149 None:intergenic
TAAGTACTTCTACTTCAATT+TGG 0.331886 1:+16849987 None:intergenic
GATGAAGATAGAGATGAGTA+TGG 0.352732 1:-16850091 MsG0180001175.01.T01:CDS
AGAATGCTTCTTGTTGGGTC+AGG 0.383377 1:+16849686 None:intergenic
GCTGGAAGAATGCTTCTTGT+TGG 0.394629 1:+16849680 None:intergenic
CTTCTGCAGATACTCAATAT+TGG 0.406034 1:+16849607 None:intergenic
CTGGAAGAATGCTTCTTGTT+GGG 0.406470 1:+16849681 None:intergenic
GACTTTATCACTGCCCTGGC+TGG 0.412026 1:+16849662 None:intergenic
AGTAGAAGTACTTATCTTCA+AGG 0.426944 1:-16849978 MsG0180001175.01.T01:intron
CAATGAGGAGATTTCAAAGT+TGG 0.430947 1:-16850065 MsG0180001175.01.T01:CDS
TCAATATTGGCAGGGTCAAA+AGG 0.439860 1:+16849620 None:intergenic
CTCTATCTTCATCCTCATCT+TGG 0.448503 1:+16850101 None:intergenic
TGCAGATACTCAATATTGGC+AGG 0.450870 1:+16849611 None:intergenic
ACCAAAGAGGTATAAGCCTT+TGG 0.474169 1:-16850150 MsG0180001175.01.T01:CDS
ATACCCTTGGGAAGTGTAGT+AGG 0.478990 1:+16850285 None:intergenic
CAAGAAGCATTCTTCCAGCC+AGG 0.483504 1:-16849676 MsG0180001175.01.T01:CDS
GAATGCTTCTTGTTGGGTCA+GGG 0.497042 1:+16849687 None:intergenic
AGTCTATAGATAGAATAAAA+GGG 0.523947 1:-16849643 MsG0180001175.01.T01:CDS
GCCTCCTTGCACCACACCAA+AGG 0.530257 1:+16850134 None:intergenic
AATGCTTCTTGTTGGGTCAG+GGG 0.544161 1:+16849688 None:intergenic
TTTGTCTTGAATTCTTCCCA+TGG 0.554335 1:+16849578 None:intergenic
ATCTGCAGAAGGATGTTCCA+TGG 0.555118 1:-16849595 MsG0180001175.01.T01:CDS
TATAGACTTTATCACTGCCC+TGG 0.571801 1:+16849658 None:intergenic
TAAGCCTTTGGTGTGGTGCA+AGG 0.575947 1:-16850138 MsG0180001175.01.T01:CDS
ACTCATTGTTCATGCACTTG+TGG 0.576626 1:-16850011 MsG0180001175.01.T01:CDS
GCATCCTACTACACTTCCCA+AGG 0.594031 1:-16850289 MsG0180001175.01.T01:CDS
AAGAAGCATTCTTCCAGCCA+GGG 0.602074 1:-16849675 MsG0180001175.01.T01:CDS
TTCTATAGTCAATCAGCAAG+AGG 0.607447 1:-16850040 MsG0180001175.01.T01:CDS
AGGGGAAGTACCATAGCTCA+AGG 0.608247 1:+16849706 None:intergenic
TCTGCAGAAGGATGTTCCAT+GGG 0.613447 1:-16849594 MsG0180001175.01.T01:CDS
CAATATTGAGTATCTGCAGA+AGG 0.617485 1:-16849606 MsG0180001175.01.T01:CDS
CATCCTACTACACTTCCCAA+GGG 0.625588 1:-16850288 MsG0180001175.01.T01:intron
GCAAATTAGATACCAAGATG+AGG 0.635629 1:-16850113 MsG0180001175.01.T01:CDS
GCAGATACTCAATATTGGCA+GGG 0.648369 1:+16849612 None:intergenic
TTAGATTTGAGCAACCAAAG+AGG 0.657562 1:-16850163 MsG0180001175.01.T01:intron
AGATGAGTATGGACACAATG+AGG 0.668828 1:-16850080 MsG0180001175.01.T01:CDS
GCCTTTGGTGTGGTGCAAGG+AGG 0.677190 1:-16850135 MsG0180001175.01.T01:CDS
AGAGGTATAAGCCTTTGGTG+TGG 0.717085 1:-16850145 MsG0180001175.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATAATTTGTTTGTTTTAT+TGG + Chr1:16849952-16849971 None:intergenic 10.0%
!!! CTTTTTTCTAATTAGAAAAA+GGG - Chr1:16849996-16850015 MsG0180001175.01.T01:CDS 15.0%
!!! TCTTTTTTCTAATTAGAAAA+AGG - Chr1:16849995-16850014 MsG0180001175.01.T01:CDS 15.0%
!! AAGTCTATAGATAGAATAAA+AGG - Chr1:16850209-16850228 MsG0180001175.01.T01:intron 20.0%
!! AGTCTATAGATAGAATAAAA+GGG - Chr1:16850210-16850229 MsG0180001175.01.T01:intron 20.0%
!!! TTGTTTGTTTTATTGGTTAT+TGG + Chr1:16849945-16849964 None:intergenic 20.0%
! ACCATTTGCAAAACAAAAAT+TGG + Chr1:16850053-16850072 None:intergenic 25.0%
! TAAGTACTTCTACTTCAATT+TGG + Chr1:16849869-16849888 None:intergenic 25.0%
!!! ACCAATTTTTGTTTTGCAAA+TGG - Chr1:16850049-16850068 MsG0180001175.01.T01:CDS 25.0%
!!! TTGTCAATTGATAATGGTAT+AGG + Chr1:16849628-16849647 None:intergenic 25.0%
ACTTATCTTCAAGGTAAGTT+TGG - Chr1:16849884-16849903 MsG0180001175.01.T01:intron 30.0%
GGAAAGTTGTCAATTGATAA+TGG + Chr1:16849634-16849653 None:intergenic 30.0%
TGACAAACCATTTCATTTCA+GGG - Chr1:16850113-16850132 MsG0180001175.01.T01:CDS 30.0%
!! AGTAGAAGTACTTATCTTCA+AGG - Chr1:16849875-16849894 MsG0180001175.01.T01:intron 30.0%
AGAAAACCCCTGAAATGAAA+TGG + Chr1:16850123-16850142 None:intergenic 35.0%
CAATATTGAGTATCTGCAGA+AGG - Chr1:16850247-16850266 MsG0180001175.01.T01:intron 35.0%
CAATGAGGAGATTTCAAAGT+TGG - Chr1:16849788-16849807 MsG0180001175.01.T01:intron 35.0%
CTTCTGCAGATACTCAATAT+TGG + Chr1:16850249-16850268 None:intergenic 35.0%
GACAAACCATTTCATTTCAG+GGG - Chr1:16850114-16850133 MsG0180001175.01.T01:CDS 35.0%
GATGAAGATAGAGATGAGTA+TGG - Chr1:16849762-16849781 MsG0180001175.01.T01:intron 35.0%
GCAAATTAGATACCAAGATG+AGG - Chr1:16849740-16849759 MsG0180001175.01.T01:intron 35.0%
GTGACAAACCATTTCATTTC+AGG - Chr1:16850112-16850131 MsG0180001175.01.T01:CDS 35.0%
TTAGATTTGAGCAACCAAAG+AGG - Chr1:16849690-16849709 MsG0180001175.01.T01:CDS 35.0%
TTCTATAGTCAATCAGCAAG+AGG - Chr1:16849813-16849832 MsG0180001175.01.T01:intron 35.0%
TTTGTCTTGAATTCTTCCCA+TGG + Chr1:16850278-16850297 None:intergenic 35.0%
! TTTTCTTCATCCTTGAGCTA+TGG - Chr1:16850137-16850156 MsG0180001175.01.T01:CDS 35.0%
ACCAAAGGCTTATACCTCTT+TGG + Chr1:16849707-16849726 None:intergenic 40.0%
ACTCATTGTTCATGCACTTG+TGG - Chr1:16849842-16849861 MsG0180001175.01.T01:intron 40.0%
AGATGAGTATGGACACAATG+AGG - Chr1:16849773-16849792 MsG0180001175.01.T01:intron 40.0%
CTCTATCTTCATCCTCATCT+TGG + Chr1:16849755-16849774 None:intergenic 40.0%
CTGGAAGAATGCTTCTTGTT+GGG + Chr1:16850175-16850194 None:intergenic 40.0%
GCAGATACTCAATATTGGCA+GGG + Chr1:16850244-16850263 None:intergenic 40.0%
TATAGACTTTATCACTGCCC+TGG + Chr1:16850198-16850217 None:intergenic 40.0%
TCAATATTGGCAGGGTCAAA+AGG + Chr1:16850236-16850255 None:intergenic 40.0%
TGCAGATACTCAATATTGGC+AGG + Chr1:16850245-16850264 None:intergenic 40.0%
! ACCAAAGAGGTATAAGCCTT+TGG - Chr1:16849703-16849722 MsG0180001175.01.T01:CDS 40.0%
! GATAATGGTATAGGTAGCCT+AGG + Chr1:16849619-16849638 None:intergenic 40.0%
AATGCTTCTTGTTGGGTCAG+GGG + Chr1:16850168-16850187 None:intergenic 45.0%
AGAATGCTTCTTGTTGGGTC+AGG + Chr1:16850170-16850189 None:intergenic 45.0%
ATCTGCAGAAGGATGTTCCA+TGG - Chr1:16850258-16850277 MsG0180001175.01.T01:intron 45.0%
CACAAGCTTACATTGTGAGC+TGG + Chr1:16849655-16849674 None:intergenic 45.0%
CATCCTACTACACTTCCCAA+GGG - Chr1:16849565-16849584 MsG0180001175.01.T01:CDS 45.0%
CCAAATGGACAATGATGCCA+TGG - Chr1:16849593-16849612 MsG0180001175.01.T01:CDS 45.0%
CCATGGCATCATTGTCCATT+TGG + Chr1:16849596-16849615 None:intergenic 45.0%
GAATGCTTCTTGTTGGGTCA+GGG + Chr1:16850169-16850188 None:intergenic 45.0%
GCTGGAAGAATGCTTCTTGT+TGG + Chr1:16850176-16850195 None:intergenic 45.0%
TACTACACTTCCCAAGGGTA+TGG - Chr1:16849570-16849589 MsG0180001175.01.T01:CDS 45.0%
TCTGCAGAAGGATGTTCCAT+GGG - Chr1:16850259-16850278 MsG0180001175.01.T01:intron 45.0%
! AGAGGTATAAGCCTTTGGTG+TGG - Chr1:16849708-16849727 MsG0180001175.01.T01:CDS 45.0%
! ATACCCTTGGGAAGTGTAGT+AGG + Chr1:16849571-16849590 None:intergenic 45.0%
!! AAGAAGCATTCTTCCAGCCA+GGG - Chr1:16850178-16850197 MsG0180001175.01.T01:intron 45.0%
GCATCCTACTACACTTCCCA+AGG - Chr1:16849564-16849583 MsG0180001175.01.T01:CDS 50.0%
GTCCATTTGGCCATACCCTT+GGG + Chr1:16849583-16849602 None:intergenic 50.0%
TGTCCATTTGGCCATACCCT+TGG + Chr1:16849584-16849603 None:intergenic 50.0%
! TAAGCCTTTGGTGTGGTGCA+AGG - Chr1:16849715-16849734 MsG0180001175.01.T01:CDS 50.0%
! TTCCCAAGGGTATGGCCAAA+TGG - Chr1:16849578-16849597 MsG0180001175.01.T01:CDS 50.0%
!! AGGGGAAGTACCATAGCTCA+AGG + Chr1:16850150-16850169 None:intergenic 50.0%
!! CAAGAAGCATTCTTCCAGCC+AGG - Chr1:16850177-16850196 MsG0180001175.01.T01:intron 50.0%
GACTTTATCACTGCCCTGGC+TGG + Chr1:16850194-16850213 None:intergenic 55.0%
GGACAATGATGCCATGGCCT+AGG - Chr1:16849599-16849618 MsG0180001175.01.T01:CDS 55.0%
GGTATAGGTAGCCTAGGCCA+TGG + Chr1:16849613-16849632 None:intergenic 55.0%
GCCTCCTTGCACCACACCAA+AGG + Chr1:16849722-16849741 None:intergenic 60.0%
! GCCTTTGGTGTGGTGCAAGG+AGG - Chr1:16849718-16849737 MsG0180001175.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 16849562 16850313 16849562 ID=MsG0180001175.01;Name=MsG0180001175.01
Chr1 mRNA 16849562 16850313 16849562 ID=MsG0180001175.01.T01;Parent=MsG0180001175.01;Name=MsG0180001175.01.T01;_AED=0.31;_eAED=0.31;_QI=0|0|0|1|1|1|3|0|135
Chr1 exon 16850289 16850313 16850289 ID=MsG0180001175.01.T01:exon:5122;Parent=MsG0180001175.01.T01
Chr1 exon 16849979 16850181 16849979 ID=MsG0180001175.01.T01:exon:5121;Parent=MsG0180001175.01.T01
Chr1 exon 16849562 16849741 16849562 ID=MsG0180001175.01.T01:exon:5120;Parent=MsG0180001175.01.T01
Chr1 CDS 16850289 16850313 16850289 ID=MsG0180001175.01.T01:cds;Parent=MsG0180001175.01.T01
Chr1 CDS 16849979 16850181 16849979 ID=MsG0180001175.01.T01:cds;Parent=MsG0180001175.01.T01
Chr1 CDS 16849562 16849741 16849562 ID=MsG0180001175.01.T01:cds;Parent=MsG0180001175.01.T01
Gene Sequence

>MsG0180001175.01.T01

ATGCATCCTACTACACTTCCCAAGGATTTGAGCAACCAAAGAGGTATAAGCCTTTGGTGTGGTGCAAGGAGGCAAATTAGATACCAAGATGAGGATGAAGATAGAGATGAGTATGGACACAATGAGGAGATTTCAAAGTTGGAATTCTATAGTCAATCAGCAAGAGGAGAAGCACTCATTGTTCATGCACTTGTGGACCAAATTGAAGTAGAAGTACTTATCTTCAAGGGGTTTTCTTCATCCTTGAGCTATGGTACTTCCCCTGACCCAACAAGAAGCATTCTTCCAGCCAGGGCAGTGATAAAGTCTATAGATAGAATAAAAGGGCCTTTTGACCCTGCCAATATTGAGTATCTGCAGAAGGATGTTCCATGGGAAGAATTCAAGACAAATATTCTTTCTAGCTAA

Protein sequence

>MsG0180001175.01.T01

MHPTTLPKDLSNQRGISLWCGARRQIRYQDEDEDRDEYGHNEEISKLEFYSQSARGEALIVHALVDQIEVEVLIFKGFSSSLSYGTSPDPTRSILPARAVIKSIDRIKGPFDPANIEYLQKDVPWEEFKTNILSS*