AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013158

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013158 MtrunA17_Chr7g0244261 89.474 95 9 1 95 189 433 526 5.90e-48 171
MsaG013158 MtrunA17_Chr1g0197361 80.000 75 12 1 7 81 414 485 9.49e-29 115
MsaG013158 MtrunA17_Chr3g0092671 68.966 58 17 1 25 81 382 439 5.04e-16 77.8
MsaG013158 MtrunA17_Chr4g0045261 97.222 36 1 0 238 273 234 269 5.31e-16 77.8
MsaG013158 MtrunA17_Chr8g0374701 86.486 37 5 0 237 273 224 260 3.54e-14 72.4
MsaG013158 MtrunA17_Chr3g0127571 75.676 37 9 0 237 273 234 270 4.83e-13 68.9
MsaG013158 MtrunA17_Chr5g0402551 75.676 37 9 0 237 273 230 266 1.80e-12 67.4
MsaG013158 MtrunA17_Chr7g0276111 72.973 37 10 0 237 273 240 276 3.13e-12 66.6
MsaG013158 MtrunA17_Chr7g0256001 72.973 37 10 0 237 273 237 273 4.39e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013158 AT3G08840.6 54.737 95 36 2 95 189 430 517 1.34e-20 92.0
MsaG013158 AT3G08840.3 54.737 95 36 2 95 189 430 517 1.34e-20 92.0
MsaG013158 AT3G08840.10 54.737 95 36 2 95 189 430 517 1.34e-20 92.0
MsaG013158 AT3G08840.2 54.737 95 36 2 95 189 430 517 1.38e-20 92.0
MsaG013158 AT3G08840.8 54.737 95 36 2 95 189 430 517 1.40e-20 92.0
MsaG013158 AT3G08840.7 54.737 95 36 2 95 189 430 517 1.44e-20 92.0
MsaG013158 AT3G08840.4 54.737 95 36 2 95 189 430 517 1.56e-20 91.7
MsaG013158 AT3G08840.1 54.737 95 36 2 95 189 430 517 1.56e-20 91.7
MsaG013158 AT3G08840.11 54.737 95 36 2 95 189 430 517 1.56e-20 91.7
MsaG013158 AT3G08840.5 54.737 95 36 2 95 189 430 517 1.60e-20 92.0
MsaG013158 AT3G08840.9 54.737 95 36 2 95 189 430 517 1.66e-20 92.0
MsaG013158 AT3G19100.1 89.189 37 4 0 237 273 240 276 3.59e-15 75.9
MsaG013158 AT3G50530.2 83.784 37 6 0 237 273 244 280 3.50e-14 72.8
MsaG013158 AT3G50530.1 83.784 37 6 0 237 273 244 280 3.59e-14 72.8
MsaG013158 AT2G41140.1 88.889 36 4 0 238 273 220 255 4.56e-14 72.4
MsaG013158 AT1G49580.1 81.081 37 7 0 237 273 246 282 3.35e-13 70.1
MsaG013158 AT2G46700.2 83.333 36 6 0 238 273 59 94 3.46e-13 69.7
MsaG013158 AT2G46700.3 83.333 36 6 0 238 273 59 94 3.46e-13 69.7
MsaG013158 AT2G46700.1 83.333 36 6 0 238 273 240 275 3.96e-13 69.7
MsaG013158 AT3G56760.1 83.333 36 6 0 238 273 221 256 1.18e-12 68.2

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGTATTTAGCAATCCTATT+AGG 0.175536 3:-43233735 MsaT013158.1:CDS
CGTATTTAGCAATCCTATTA+GGG 0.233060 3:-43233734 MsaT013158.1:CDS
CGATGGGGAAATGACTTGTT+AGG 0.358800 3:+43231819 None:intergenic
ACAGTAGACACACCCCTAAT+AGG 0.368947 3:+43233721 None:intergenic
AGGATCTAGCAGCGTCAAAT+TGG 0.369926 3:-43233197 MsaT013158.1:CDS
CCACTGACTGAAGCAAGATT+TGG 0.375072 3:+43231882 None:intergenic
CATGAAATAGAGCCGCTTAT+CGG 0.395328 3:-43230009 MsaT013158.1:CDS
GGGTGAGGCGGTTGCATGTG+GGG 0.408193 3:+43229968 None:intergenic
TTCTGCTTACAGCTTCACCT+TGG 0.408495 3:-43232735 MsaT013158.1:intron
TTCATTATGCTCACCTCAAA+AGG 0.409101 3:+43230708 None:intergenic
TCTGCTTACAGCTTCACCTT+GGG 0.416242 3:-43232734 MsaT013158.1:intron
CTGATGGCCGCTTACTCATA+CGG 0.420496 3:+43229946 None:intergenic
CGGGGTGAGGCGGTTGCATG+TGG 0.428269 3:+43229966 None:intergenic
TCTTTGTTGAGATTGATAAC+AGG 0.432388 3:-43230771 MsaT013158.1:CDS
TCATGAGTGGTACAAATGTT+TGG 0.432409 3:-43231734 MsaT013158.1:CDS
TTTCTCATACGAACATCCTT+AGG 0.443863 3:-43231935 MsaT013158.1:CDS
TGAGGCGGTTGCATGTGGGG+AGG 0.452600 3:+43229971 None:intergenic
GACGCTGCTAGATCCTCCTT+TGG 0.454897 3:+43233204 None:intergenic
GCAGCGTCAAATTGGTTCTC+AGG 0.465205 3:-43233189 MsaT013158.1:intron
AATGTTTGGCTCAATTTGCT+AGG 0.470391 3:-43231720 MsaT013158.1:CDS
TGCATCAGAGTTTCCTGCTA+AGG 0.474003 3:-43232972 MsaT013158.1:CDS
CCAAATCTTGCTTCAGTCAG+TGG 0.478349 3:-43231882 MsaT013158.1:CDS
TGATGGCCGCTTACTCATAC+GGG 0.479926 3:+43229947 None:intergenic
GAAGCATGCCAACAGGTTGT+TGG 0.491366 3:-43233020 MsaT013158.1:CDS
GGGGTGAGGCGGTTGCATGT+GGG 0.491563 3:+43229967 None:intergenic
CCTAATAGGATTGCTAAATA+CGG 0.495314 3:+43233735 None:intergenic
TCACAAGCCAACTCCTTAGC+AGG 0.504887 3:+43232959 None:intergenic
AGAGTTTCCTGCTAAGGAGT+TGG 0.513288 3:-43232966 MsaT013158.1:CDS
CATGGTGAACAATGCTCCTA+AGG 0.516746 3:+43231919 None:intergenic
GATGCAAATGTAGGTGGAGC+AGG 0.517727 3:+43232989 None:intergenic
TTTCCTTTGAAAACTATAGG+AGG 0.529946 3:+43232687 None:intergenic
CCGCTTACTCATACGGGGTG+AGG 0.530263 3:+43229953 None:intergenic
TCCTTTGAAAACTATAGGAG+GGG 0.531178 3:+43232689 None:intergenic
TTCTGCTTACAACTTGAATG+AGG 0.536102 3:-43230745 MsaT013158.1:CDS
GTTTGTCAAGGAACTACCAT+AGG 0.538784 3:+43233266 None:intergenic
TATTTGTACCATGACAGCCT+TGG 0.549299 3:+43229806 None:intergenic
TTCCTTTGAAAACTATAGGA+GGG 0.549800 3:+43232688 None:intergenic
AGATGATGCCAAGGCTGTCA+TGG 0.554908 3:-43229814 MsaT013158.1:CDS
TTGGAAACCGCAAGCAAGCA+TGG 0.555181 3:+43231901 None:intergenic
TTGTTCACCATGCTTGCTTG+CGG 0.564726 3:-43231908 MsaT013158.1:CDS
GGAAACTCTGATGCAAATGT+AGG 0.568573 3:+43232980 None:intergenic
CCGCTTATCGGTAGCGATCG+TGG 0.575181 3:-43229997 MsaT013158.1:CDS
AATGTGGAGGGCGAAACCTA+TGG 0.578503 3:-43233282 MsaT013158.1:CDS
TGTAGGTGGAGCAGGTATGT+TGG 0.584114 3:+43232997 None:intergenic
AACTCTGATGCAAATGTAGG+TGG 0.606514 3:+43232983 None:intergenic
TAATGAAGATTTACCAAAGG+AGG 0.609340 3:-43233217 MsaT013158.1:CDS
CAGCTAAGATACAGAACCCA+AGG 0.616341 3:+43232718 None:intergenic
ATACTCAGAAGATGATGCCA+AGG 0.618920 3:-43229823 MsaT013158.1:CDS
CCACGATCGCTACCGATAAG+CGG 0.629132 3:+43229997 None:intergenic
AAGTCATTTCCCCATCGTGA+AGG 0.630032 3:-43231813 MsaT013158.1:CDS
GTATTTAGCAATCCTATTAG+GGG 0.633054 3:-43233733 MsaT013158.1:intron
GGGTCATTGACAGAATGTGG+AGG 0.644623 3:-43233295 MsaT013158.1:intron
CTTACTCATACGGGGTGAGG+CGG 0.645968 3:+43229956 None:intergenic
TATGTTGGCCAACAACCTGT+TGG 0.647210 3:+43233012 None:intergenic
GGTCATTGACAGAATGTGGA+GGG 0.649146 3:-43233294 MsaT013158.1:intron
TGGTAATGAAGATTTACCAA+AGG 0.652361 3:-43233220 MsaT013158.1:CDS
GCACAGAGATCTTAAGCCTG+AGG 0.658568 3:-43229745 MsaT013158.1:intron
TTGGAGGTGACACATCAGAA+CGG 0.662487 3:-43231767 MsaT013158.1:CDS
CGGCAAGTATCTCTCATGAG+TGG 0.677323 3:-43231747 MsaT013158.1:CDS
GATGGCCGCTTACTCATACG+GGG 0.709803 3:+43229948 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 43229675 43233763 43229675 ID=MsaG013158
Chr3 mRNA 43229675 43233763 43229675 ID=MsaT013158.1;Parent=MsaG013158
Chr3 exon 43229675 43229716 43229675 ID=MsaT013158.1.exon9;Parent=MsaT013158.1
Chr3 CDS 43229675 43229716 43229675 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43229746 43229854 43229746 ID=MsaT013158.1.exon8;Parent=MsaT013158.1
Chr3 CDS 43229746 43229854 43229746 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43229961 43230031 43229961 ID=MsaT013158.1.exon7;Parent=MsaT013158.1
Chr3 CDS 43229961 43230031 43229961 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43230722 43230793 43230722 ID=MsaT013158.1.exon6;Parent=MsaT013158.1
Chr3 CDS 43230722 43230793 43230722 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43231710 43231964 43231710 ID=MsaT013158.1.exon5;Parent=MsaT013158.1
Chr3 CDS 43231710 43231964 43231710 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43232678 43232745 43232678 ID=MsaT013158.1.exon4;Parent=MsaT013158.1
Chr3 CDS 43232678 43232745 43232678 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43232963 43233061 43232963 ID=MsaT013158.1.exon3;Parent=MsaT013158.1
Chr3 CDS 43232963 43233061 43232963 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43233190 43233304 43233190 ID=MsaT013158.1.exon2;Parent=MsaT013158.1
Chr3 CDS 43233190 43233304 43233190 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Chr3 exon 43233734 43233763 43233734 ID=MsaT013158.1.exon1;Parent=MsaT013158.1
Chr3 CDS 43233734 43233763 43233734 ID=cds.MsaT013158.1;Parent=MsaT013158.1
Gene Sequence

>MsaT013158.1

ATGCTTCCGTATTTAGCAATCCTATTAGGGAATGTGGAGGGCGAAACCTATGGTAGTTCCTTGACAAACAAACATGTTTTTGAAGCACAATCTGGTAATGAAGATTTACCAAAGGAGGATCTAGCAGCGTCAAATTGGTTCTCAGAAGATGCAAACACTTTTGCGAAGCATGCCAACAGGTTGTTGGCCAACATACCTGCTCCACCTACATTTGCATCAGAGTTTCCTGCTAAGGAGTTGGCTTCTTCACCTTGGGTTCTGTATCTTAGCTGTTGTTGCCCCTCCTATAGTTTTCAAAGGAAAATCCTTGACGTTGGGTTTTCTCATACGAACATCCTTAGGAGCATTGTTCACCATGCTTGCTTGCGGTTTCCAAATCTTGCTTCAGTCAGTGGCATATCAAGTCAGATTCCAAGTAGATCAAAATCTTCGAAGCCTAACAAGTCATTTCCCCATCGTGAAGGAGCTCAAAAAGTTTTTGTCATTTTTGGAGGTGACACATCAGAACGGCAAGTATCTCTCATGAGTGGTACAAATGTTTGGCTCAATTTGCTAGGCTTCAATGATTCTTTGTTGAGATTGATAACAGGAAATTCTGCTTACAACTTGAATGAGGAGACTGATGTAGCACCTTTTGAGCATGAAATAGAGCCGCTTATCGGTAGCGATCGTGGTGACCTCCCCACATGCAACCGCCTCACCCCGTATGAAGGAGGGAAATACTCAGAAGATGATGCCAAGGCTGTCATGGTACAAATACTAAATGTTGTTGCATTTTGTCATCTTCAGAGTGTGGTGCACAGAGATCTTAAGCCTGAGATGGTTAATGTCTTAGAGTCTGCTATAGTTAATCATATTTAA
Protein sequence

>MsaT013158.1

MLPYLAILLGNVEGETYGSSLTNKHVFEAQSGNEDLPKEDLAASNWFSEDANTFAKHANRLLANIPAPPTFASEFPAKELASSPWVLYLSCCCPSYSFQRKILDVGFSHTNILRSIVHHACLRFPNLASVSGISSQIPSRSKSSKPNKSFPHREGAQKVFVIFGGDTSERQVSLMSGTNVWLNLLGFNDSLLRLITGNSAYNLNEETDVAPFEHEIEPLIGSDRGDLPTCNRLTPYEGGKYSEDDAKAVMVQILNVVAFCHLQSVVHRDLKPEMVNVLESAIVNHI*