AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002074

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002074 MtrunA17_Chr1g0170581 87.037 216 28 0 58 273 32 247 9.26e-130 368
MsaG002074 MtrunA17_Chr1g0170571 88.780 205 23 0 66 270 32 236 2.33e-119 341
MsaG002074 MtrunA17_Chr1g0170591 81.951 205 37 0 66 270 32 236 9.56e-119 340
MsaG002074 MtrunA17_Chr7g0256671 64.179 201 69 3 68 267 44 242 1.26e-62 197
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002074 AT3G56970.1 48.352 182 86 3 89 266 70 247 9.99e-47 157
MsaG002074 AT3G56980.1 42.081 221 124 2 50 268 36 254 6.73e-41 142
MsaG002074 AT2G41240.1 42.778 180 102 1 89 268 60 238 2.24e-36 130
MsaG002074 AT2G41240.2 42.222 180 102 2 89 268 60 237 5.65e-34 124
MsaG002074 AT5G04150.2 45.399 163 84 2 86 245 78 238 7.04e-34 123
MsaG002074 AT5G04150.1 43.716 183 95 4 86 263 78 257 1.90e-33 122

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACTTGTTTCTGTAATTC+TGG 0.201065 1:-31790723 None:intergenic
TGTAACTATGCTTCTTCCTT+TGG 0.251062 1:-31790824 None:intergenic
CTTCTATAATTTGCATTTCC+AGG 0.265122 1:+31791016 MsaT002074.1:CDS
TTCTGAGATCTTGATATGTT+TGG 0.287728 1:+31790935 MsaT002074.1:CDS
GTAACTATGCTTCTTCCTTT+GGG 0.307422 1:-31790823 None:intergenic
TGAGAAGCTCTTATCAATAA+TGG 0.319674 1:+31791745 MsaT002074.1:CDS
CTTTCTTCATCTCAGACCTT+TGG 0.339976 1:+31790984 MsaT002074.1:CDS
TGAACTCTTGAAATTGTTGC+TGG 0.346287 1:-31790690 None:intergenic
TCTTCATCTCAGACCTTTGG+AGG 0.399010 1:+31790987 MsaT002074.1:CDS
ATTACCATTTGATCTGAAAC+AGG 0.408153 1:-31790529 None:intergenic
CTCAGAGTAGAAAGAGAGAA+TGG 0.413718 1:+31789577 MsaT002074.1:CDS
TCTTCCTGTTTCAGATCAAA+TGG 0.432892 1:+31790525 MsaT002074.1:CDS
AATCTTGTGGGTGGGAAAGA+AGG 0.447213 1:+31789606 MsaT002074.1:CDS
AGGCGAGACAGTGGCGTTTG+TGG 0.447739 1:+31789717 MsaT002074.1:CDS
CTCTCGTCGGATTCTCTCGC+CGG 0.457671 1:-31789550 None:intergenic
TGAAGGACTAAGTAAGAGAA+AGG 0.469978 1:+31790743 MsaT002074.1:CDS
TCAGAGTAGAAAGAGAGAAT+GGG 0.493017 1:+31789578 MsaT002074.1:CDS
CATATCAAGATCTCAGAAAG+TGG 0.493296 1:-31790930 None:intergenic
TACTCTGAGCTCTCTCTCGT+CGG 0.498025 1:-31789563 None:intergenic
CATGCCAAGGTCACTGCTTG+TGG 0.499479 1:-31790422 None:intergenic
AAGAAAGATTAAGAAGCAAA+AGG 0.505181 1:-31790968 None:intergenic
GTCACTGCTTGTGGATTGTG+AGG 0.508947 1:-31790413 None:intergenic
ACAAATTATTGATCTTGTTG+CGG 0.516852 1:-31790483 None:intergenic
AGAATAACCTCTTCTTCTTG+AGG 0.516991 1:-31790789 None:intergenic
GAATGGGGAAGGAATCTTGT+GGG 0.519329 1:+31789594 MsaT002074.1:CDS
CGTGAGGTCGCCGATGGTGA+TGG 0.519830 1:+31789691 MsaT002074.1:CDS
GTCGCCGATGGTGATGGCGG+AGG 0.529276 1:+31789697 MsaT002074.1:CDS
GTGGGTGGGAAAGAAGGAAA+AGG 0.537566 1:+31789612 MsaT002074.1:CDS
TTGATATGTTTGGAAAATGA+TGG 0.537710 1:+31790945 MsaT002074.1:CDS
ACTTTCTCCTCAAGAAGAAG+AGG 0.540108 1:+31790782 MsaT002074.1:CDS
GGTCGTCGGTGTGGCGCCGT+CGG 0.542585 1:+31789659 MsaT002074.1:CDS
CTCGCCTCCGCCATCACCAT+CGG 0.545487 1:-31789701 None:intergenic
CTTCATCTCAGACCTTTGGA+GGG 0.548412 1:+31790988 MsaT002074.1:CDS
AAGAAGCATAGTTACAACTC+TGG 0.551749 1:+31790831 MsaT002074.1:CDS
GCTCTTATCAATAATGGAGA+AGG 0.554810 1:+31791751 MsaT002074.1:CDS
CGTCGGTGTGGCGCCGTCGG+CGG 0.555651 1:+31789662 MsaT002074.1:CDS
GAATTACAGAAACAAGTTGA+AGG 0.556198 1:+31790726 MsaT002074.1:CDS
GTAGAAAGAGAGAATGGGGA+AGG 0.561281 1:+31789583 MsaT002074.1:CDS
TCTCAGAAAGTGGAATCTTG+TGG 0.569417 1:-31790920 None:intergenic
CAATCCACAAGCAGTGACCT+TGG 0.569748 1:+31790418 MsaT002074.1:CDS
AGTGTAACATGATATCTGAA+TGG 0.570967 1:-31790895 None:intergenic
TTCTGCAGGTGGATAAAGCA+CGG 0.571707 1:+31791699 MsaT002074.1:intron
CAGAGTAGAAAGAGAGAATG+GGG 0.590223 1:+31789579 MsaT002074.1:CDS
TGGGGAAGGAATCTTGTGGG+TGG 0.592120 1:+31789597 MsaT002074.1:CDS
GGGGAAGGAATCTTGTGGGT+GGG 0.593450 1:+31789598 MsaT002074.1:CDS
ATAGAAGACTCTCCCTCCAA+AGG 0.594272 1:-31791000 None:intergenic
AGGAAGAAGTGAACGAAGTG+AGG 0.599839 1:-31790509 None:intergenic
TTGAAACGTGAGGTCGCCGA+TGG 0.602833 1:+31789685 MsaT002074.1:CDS
CACAAGCAGTGACCTTGGCA+TGG 0.602895 1:+31790423 MsaT002074.1:CDS
TTCTAAGCAAAGAATCCCAA+AGG 0.620328 1:+31790808 MsaT002074.1:CDS
TCACTGCTTGTGGATTGTGA+GGG 0.621714 1:-31790412 None:intergenic
AGAATGGGGAAGGAATCTTG+TGG 0.622235 1:+31789593 MsaT002074.1:CDS
CCGTCGGCGGTTGAAACGTG+AGG 0.631276 1:+31789675 MsaT002074.1:CDS
TTATCAATAATGGAGAAGGA+AGG 0.636620 1:+31791755 MsaT002074.1:CDS
GAGGTCGCCGATGGTGATGG+CGG 0.641128 1:+31789694 MsaT002074.1:CDS
CCTCACGTTTCAACCGCCGA+CGG 0.641496 1:-31789675 None:intergenic
TGATGGCGGAGGCGAGACAG+TGG 0.653460 1:+31789708 MsaT002074.1:CDS
CAAGCTTCTTAACCATGCCA+AGG 0.655760 1:-31790435 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 31789538 31791796 31789538 ID=MsaG002074
Chr1 mRNA 31789538 31791796 31789538 ID=MsaT002074.1;Parent=MsaG002074
Chr1 exon 31789538 31789738 31789538 ID=MsaT002074.1.exon1;Parent=MsaT002074.1
Chr1 CDS 31789538 31789738 31789538 ID=cds.MsaT002074.1;Parent=MsaT002074.1
Chr1 exon 31790379 31790546 31790379 ID=MsaT002074.1.exon2;Parent=MsaT002074.1
Chr1 CDS 31790379 31790546 31790379 ID=cds.MsaT002074.1;Parent=MsaT002074.1
Chr1 exon 31790675 31791037 31790675 ID=MsaT002074.1.exon3;Parent=MsaT002074.1
Chr1 CDS 31790675 31791037 31790675 ID=cds.MsaT002074.1;Parent=MsaT002074.1
Chr1 exon 31791707 31791796 31791707 ID=MsaT002074.1.exon4;Parent=MsaT002074.1
Chr1 CDS 31791707 31791796 31791707 ID=cds.MsaT002074.1;Parent=MsaT002074.1
Gene Sequence

>MsaT002074.1

ATGGGTTTAGATCCGGCGAGAGAATCCGACGAGAGAGAGCTCAGAGTAGAAAGAGAGAATGGGGAAGGAATCTTGTGGGTGGGAAAGAAGGAAAAGGAAAGAAAACTAAAAAAAAAAGTGAGGTCGTCGGTGTGGCGCCGTCGGCGGTTGAAACGTGAGGTCGCCGATGGTGATGGCGGAGGCGAGACAGTGGCGTTTGTGCATCAATTTGAGGCAGAAATTAATTCAACAGAGCCCTCACAATCCACAAGCAGTGACCTTGGCATGGTTAAGAAGCTTGTTCATAATGCTAGTGAACGCGATCGCCGCAACAAGATCAATAATTTGTATTCCTCACTTCGTTCACTTCTTCCTGTTTCAGATCAAATGAAGAAATTGAACATTCCAGCAACAATTTCAAGAGTTCAAAAATACATACCAGAATTACAGAAACAAGTTGAAGGACTAAGTAAGAGAAAGGATGAGATCTTATTGAGACTTTCTCCTCAAGAAGAAGAGGTTATTCTAAGCAAAGAATCCCAAAGGAAGAAGCATAGTTACAACTCTGGTTTTGTAGTTTCAAGTAGTAGGCTCAATGATAGTGAAATTACCATTCAGATATCATGTTACACTGTCCACAAGATTCCACTTTCTGAGATCTTGATATGTTTGGAAAATGATGGCCTTTTGCTTCTTAATCTTTCTTCATCTCAGACCTTTGGAGGGAGAGTCTTCTATAATTTGCATTTCCAGGTGGATAAAGCACGGAGATTAGAATATCATATTCTAAATGAGAAGCTCTTATCAATAATGGAGAAGGAAGGAGAGTTTTTAAAACAATAA
Protein sequence

>MsaT002074.1

MGLDPARESDERELRVERENGEGILWVGKKEKERKLKKKVRSSVWRRRRLKREVADGDGGGETVAFVHQFEAEINSTEPSQSTSSDLGMVKKLVHNASERDRRNKINNLYSSLRSLLPVSDQMKKLNIPATISRVQKYIPELQKQVEGLSKRKDEILLRLSPQEEEVILSKESQRKKHSYNSGFVVSSSRLNDSEITIQISCYTVHKIPLSEILICLENDGLLLLNLSSSQTFGGRVFYNLHFQVDKARRLEYHILNEKLLSIMEKEGEFLKQ*