AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030904

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030904 MtrunA17_Chr6g0456881 93.069 303 12 2 1 303 100 393 0.0 543
MsaG030904 MtrunA17_Chr7g0220931 46.605 324 113 16 1 313 93 367 8.16e-54 180
MsaG030904 MtrunA17_Chr1g0205131 36.628 344 136 10 9 303 83 393 4.10e-35 131
MsaG030904 MtrunA17_Chr4g0062691 44.444 153 70 3 23 173 128 267 5.79e-29 114
MsaG030904 MtrunA17_Chr8g0376571 37.126 167 72 4 28 171 62 218 2.38e-20 91.3
MsaG030904 MtrunA17_Chr4g0040921 52.239 67 32 0 21 87 16 82 3.97e-17 80.9
MsaG030904 MtrunA17_Chr6g0454781 43.810 105 54 3 28 131 50 150 1.40e-16 79.3
MsaG030904 MtrunA17_Chr2g0325171 52.308 65 31 0 21 85 18 82 1.56e-16 79.0
MsaG030904 MtrunA17_Chr2g0316391 58.333 60 25 0 27 86 20 79 5.94e-16 77.0
MsaG030904 MtrunA17_Chr8g0360441 55.932 59 26 0 27 85 54 112 1.36e-15 77.0
MsaG030904 MtrunA17_Chr7g0219461 41.237 97 53 2 28 123 58 151 1.42e-14 73.6
MsaG030904 MtrunA17_Chr3g0086961 51.724 58 28 0 28 85 58 115 1.19e-12 68.2
MsaG030904 MtrunA17_Chr4g0061561 48.276 58 30 0 28 85 58 115 5.14e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030904 AT1G67260.2 47.059 153 71 3 23 170 83 230 2.96e-31 120
MsaG030904 AT1G67260.3 47.059 153 71 3 23 170 83 230 2.96e-31 120
MsaG030904 AT1G67260.1 47.059 153 71 3 23 170 83 230 3.33e-31 120
MsaG030904 AT1G68800.2 69.863 73 19 1 27 99 112 181 2.98e-25 104
MsaG030904 AT1G68800.1 69.863 73 19 1 27 99 112 181 3.07e-25 104
MsaG030904 AT3G18550.2 39.103 156 85 4 23 170 144 297 3.48e-23 99.4
MsaG030904 AT3G18550.3 38.125 160 85 4 23 170 144 301 2.54e-22 97.1
MsaG030904 AT3G18550.1 38.125 160 85 4 23 170 144 301 3.04e-22 96.7
MsaG030904 AT3G18550.4 38.125 160 85 4 23 170 144 301 3.04e-22 96.7
MsaG030904 AT1G53230.1 59.016 61 25 0 27 87 49 109 9.75e-18 83.6
MsaG030904 AT1G53230.2 59.016 61 25 0 27 87 49 109 9.75e-18 83.6
MsaG030904 AT4G18390.1 34.211 152 64 3 28 171 43 166 3.70e-16 78.6
MsaG030904 AT4G18390.2 34.211 152 64 3 28 171 43 166 3.70e-16 78.6
MsaG030904 AT2G31070.1 57.627 59 25 0 27 85 29 87 3.85e-16 78.6
MsaG030904 AT1G30210.2 56.897 58 25 0 28 85 51 108 5.34e-16 77.8
MsaG030904 AT1G30210.1 56.897 58 25 0 28 85 51 108 5.34e-16 77.8
MsaG030904 AT3G15030.2 54.098 61 28 0 27 87 45 105 1.34e-15 77.4
MsaG030904 AT3G15030.4 54.098 61 28 0 27 87 45 105 1.34e-15 77.4
MsaG030904 AT3G15030.3 54.098 61 28 0 27 87 45 105 1.34e-15 77.4
MsaG030904 AT3G15030.1 54.098 61 28 0 27 87 45 105 1.34e-15 77.4
MsaG030904 AT3G02150.1 53.448 58 27 0 28 85 75 132 6.26e-14 71.2
MsaG030904 AT3G02150.2 53.448 58 27 0 28 85 75 132 1.02e-13 71.2
MsaG030904 AT5G60970.1 50.000 58 29 0 28 85 64 121 1.62e-12 67.8
MsaG030904 AT5G08070.2 39.773 88 47 2 28 110 34 120 1.90e-11 63.5
MsaG030904 AT5G08070.1 39.773 88 47 2 28 110 34 120 1.90e-11 63.5

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCCAAATTCATCTCCAAAT+TGG 0.181237 6:-16148784 MsaT030904.1:CDS
TCCCAATTTGGAGATGAATT+TGG 0.249636 6:+16148782 None:intergenic
AGAATTATTGGTAGCAATTT+CGG 0.262708 6:+16149252 None:intergenic
AAAATCTAAGAAAGCAATTA+AGG 0.291671 6:-16149362 MsaT030904.1:CDS
ATAACATTAAAATCATTTCT+TGG 0.292170 6:+16148959 None:intergenic
AATTGGGATGCTAGTAATAA+TGG 0.323689 6:-16148767 MsaT030904.1:CDS
TTATTACTAGCATCCCAATT+TGG 0.332918 6:+16148770 None:intergenic
TTCGATCTTCAAGACATGTT+AGG 0.334610 6:-16149424 MsaT030904.1:CDS
AAACTTGTTGATGATTCCTT+AGG 0.334977 6:+16148833 None:intergenic
CGGTTTCTTTGTGAGGAAAC+AGG 0.347458 6:+16149537 None:intergenic
AAGAATCAATTGTGATTAAG+AGG 0.356771 6:-16148934 MsaT030904.1:CDS
GCCAAATTCATCTCCAAATT+GGG 0.359624 6:-16148783 MsaT030904.1:CDS
CTTGGTGGTTCTTCTCACTA+TGG 0.377341 6:-16149565 MsaT030904.1:CDS
CTGTGTCGGTCTTTCTTCAC+CGG 0.395195 6:+16149517 None:intergenic
AAGCTAGCAACACACTTGAT+TGG 0.410299 6:-16149393 MsaT030904.1:CDS
GTAACAAGATCTCCAACATA+AGG 0.410529 6:-16149078 MsaT030904.1:CDS
CTGTTTCCTCACAAAGAAAC+CGG 0.419889 6:-16149536 MsaT030904.1:CDS
TAACAAGATCTCCAACATAA+GGG 0.432336 6:-16149077 MsaT030904.1:CDS
AGAGTTGAAGGATCTTGTTT+AGG 0.436434 6:+16149586 None:intergenic
TCCAAATCTTTGGAAAATCA+TGG 0.441718 6:-16147466 MsaT030904.1:CDS
TCGATCTTCAAGACATGTTA+GGG 0.442491 6:-16149423 MsaT030904.1:CDS
TTCAAACCTAAAACAACAAA+AGG 0.450238 6:-16149230 MsaT030904.1:CDS
GAAGAACCACCAAGAGTTGA+AGG 0.453282 6:+16149574 None:intergenic
GAAGGATCTTGTTTAGGCAT+TGG 0.460193 6:+16149592 None:intergenic
AAACAAGATCCTTCAACTCT+TGG 0.465675 6:-16149583 MsaT030904.1:CDS
CAAGATCCTTCAACTCTTGG+TGG 0.475230 6:-16149580 MsaT030904.1:CDS
AGAAACAACAATAGTGAAGT+TGG 0.485365 6:-16149319 MsaT030904.1:CDS
AACTTGTTGATGATTCCTTA+GGG 0.488719 6:+16148834 None:intergenic
AACAAGATCTCCAACATAAG+GGG 0.504539 6:-16149076 MsaT030904.1:CDS
GCCAGCATGAATCTCTCTAC+AGG 0.519767 6:-16148707 MsaT030904.1:intron
AGCAAGATTTACACTTCTCA+AGG 0.521241 6:-16149496 MsaT030904.1:CDS
TCTTCACCGGTTTCTTTGTG+AGG 0.525305 6:+16149530 None:intergenic
ATACTAATGTAGACGTGGAT+TGG 0.530503 6:+16147433 None:intergenic
TGTTAGAGCAAGTAAGATGA+AGG 0.539973 6:-16149143 MsaT030904.1:CDS
CAAGTAAGATGAAGGAGTCA+AGG 0.547238 6:-16149135 MsaT030904.1:CDS
CCAAATCTTTGGAAAATCAT+GGG 0.551226 6:-16147465 MsaT030904.1:CDS
TTCGGAATCTTCGCAATCTG+AGG 0.558441 6:+16149270 None:intergenic
TTACTTGCTCTAACACAAGC+AGG 0.558716 6:+16149151 None:intergenic
AAACAACAAAAGGAAGGTGC+AGG 0.560333 6:-16149220 MsaT030904.1:CDS
CTCAAGGTTTGAGAGATCGA+AGG 0.562321 6:-16149480 MsaT030904.1:CDS
AAGTAAGATGAAGGAGTCAA+GGG 0.565392 6:-16149134 MsaT030904.1:CDS
GAAGTTGAAACCATCCATGA+TGG 0.569011 6:-16148912 MsaT030904.1:CDS
AAAAGCAAGAGCAAGAGCAA+GGG 0.571859 6:-16149110 MsaT030904.1:CDS
TCAAAATCATGTGATCCCTA+AGG 0.574457 6:-16148849 MsaT030904.1:CDS
ACCTGTAGAGAGATTCATGC+TGG 0.574595 6:+16148706 None:intergenic
AAGTGTAAATCTTGCTGTGT+CGG 0.576609 6:+16149503 None:intergenic
TCAACAAGTTTCAACAACAA+TGG 0.583307 6:-16148821 MsaT030904.1:CDS
TCAAGGTTTGAGAGATCGAA+GGG 0.597780 6:-16149479 MsaT030904.1:CDS
AACCTAAAACAACAAAAGGA+AGG 0.605705 6:-16149226 MsaT030904.1:CDS
GTTTGAGAGATCGAAGGGTG+AGG 0.608622 6:-16149474 MsaT030904.1:CDS
AACAACAATAGTGAAGTTGG+TGG 0.611334 6:-16149316 MsaT030904.1:CDS
GTTGTTGTGAGTAGTAGTGA+AGG 0.624220 6:-16148983 MsaT030904.1:CDS
ACAAGATCTCCAACATAAGG+GGG 0.625167 6:-16149075 MsaT030904.1:CDS
CTAACATACTAATGTAGACG+TGG 0.639558 6:+16147428 None:intergenic
TGATGAGAAACCATCATGGA+TGG 0.661344 6:+16148902 None:intergenic
AATCTTTGGAAAATCATGGG+AGG 0.671370 6:-16147462 MsaT030904.1:CDS
ATGATGATGAGAAACCATCA+TGG 0.672178 6:+16148898 None:intergenic
CAAGATCTCCAACATAAGGG+GGG 0.714806 6:-16149074 MsaT030904.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 16147436 16149611 16147436 ID=MsaG030904
Chr6 mRNA 16147436 16149611 16147436 ID=MsaT030904.1;Parent=MsaG030904
Chr6 exon 16147436 16147491 16147436 ID=MsaT030904.1.exon2;Parent=MsaT030904.1
Chr6 CDS 16147436 16147491 16147436 ID=cds.MsaT030904.1;Parent=MsaT030904.1
Chr6 exon 16148708 16149611 16148708 ID=MsaT030904.1.exon1;Parent=MsaT030904.1
Chr6 CDS 16148708 16149611 16148708 ID=cds.MsaT030904.1;Parent=MsaT030904.1
Gene Sequence

>MsaT030904.1

ATGCCTAAACAAGATCCTTCAACTCTTGGTGGTTCTTCTCACTATGGTATTTCCTGTTTCCTCACAAAGAAACCGGTGAAGAAAGACCGACACAGCAAGATTTACACTTCTCAAGGTTTGAGAGATCGAAGGGTGAGGCTTTCGATTGAGATCGCTCGAAAGTTCTTCGATCTTCAAGACATGTTAGGGTTTGACAAAGCTAGCAACACACTTGATTGGCTTTTCACAAAATCTAAGAAAGCAATTAAGGATCTGACTAAAAGTAAGCAAAGAAACAACAATAGTGAAGTTGGTGGTGATGCTAAAAGCTTCACATCTTCCTCAGATTGCGAAGATTCCGAAATTGCTACCAATAATTCTTCAAACCTAAAACAACAAAAGGAAGGTGCAGGAAGTAAACCTGAAGAGAAGAAGTTGAAAAGAGTACAGATCAAAGAACCTGCTTGTGTTAGAGCAAGTAAGATGAAGGAGTCAAGGGAAAAAGCAAGAGCAAGAGCAAGGGAAAGAACTAGTAACAAGATCTCCAACATAAGGGGGGTGCAAGAAATAGAATTGAAGAAAAAATATGAAAATAATCTTCAAGCTTATCAACAAGATCATCATCAAGTTGTTGTGAGTAGTAGTGAAGGACCAAGAAATGATTTTAATGTTATTGAAGAATCAATTGTGATTAAGAGGAAGTTGAAACCATCCATGATGGTTTCTCATCATCATCATCATCATCATCCTCCTAATTACCATCAAAATCATGTGATCCCTAAGGAATCATCAACAAGTTTCAACAACAATGGAGATTACAATTTCTTGCCAAATTCATCTCCAAATTGGGATGCTAGTAATAATGGTACATCTTCCACTAATCGCTCCACTTTTTGTGCTATAGCCAGCATGAATCTCTCTACAGGGCTCCAAATCTTTGGAAAATCATGGGAGGAATGCACCAATCCACGTCTACATTAG
Protein sequence

>MsaT030904.1

MPKQDPSTLGGSSHYGISCFLTKKPVKKDRHSKIYTSQGLRDRRVRLSIEIARKFFDLQDMLGFDKASNTLDWLFTKSKKAIKDLTKSKQRNNNSEVGGDAKSFTSSSDCEDSEIATNNSSNLKQQKEGAGSKPEEKKLKRVQIKEPACVRASKMKESREKARARARERTSNKISNIRGVQEIELKKKYENNLQAYQQDHHQVVVSSSEGPRNDFNVIEESIVIKRKLKPSMMVSHHHHHHHPPNYHQNHVIPKESSTSFNNNGDYNFLPNSSPNWDASNNGTSSTNRSTFCAIASMNLSTGLQIFGKSWEECTNPRLH*