AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035815

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035815 MtrunA17_Chr7g0220931 95.733 375 13 3 1 373 1 374 0.0 552
MsaG035815 MtrunA17_Chr6g0456881 47.110 346 102 16 73 356 67 393 4.86e-66 215
MsaG035815 MtrunA17_Chr1g0205131 35.677 384 162 15 41 356 27 393 1.10e-44 158
MsaG035815 MtrunA17_Chr4g0062691 33.459 266 141 11 5 245 14 268 7.97e-27 110
MsaG035815 MtrunA17_Chr8g0376571 52.703 74 35 0 116 189 57 130 9.45e-19 87.4
MsaG035815 MtrunA17_Chr2g0316391 53.846 65 30 0 115 179 15 79 5.14e-17 80.5
MsaG035815 MtrunA17_Chr2g0325171 51.562 64 31 0 115 178 19 82 1.16e-16 80.1
MsaG035815 MtrunA17_Chr4g0040921 52.308 65 31 0 115 179 17 81 1.46e-16 80.1
MsaG035815 MtrunA17_Chr8g0360441 52.308 65 31 0 115 179 49 113 1.50e-16 80.9
MsaG035815 MtrunA17_Chr6g0454781 47.561 82 41 1 119 200 48 127 2.78e-16 79.0
MsaG035815 MtrunA17_Chr7g0219461 51.667 60 29 0 119 178 56 115 1.34e-14 74.3
MsaG035815 MtrunA17_Chr4g0061561 48.333 60 31 0 119 178 56 115 4.13e-13 69.3
MsaG035815 MtrunA17_Chr3g0086961 48.333 60 31 0 119 178 56 115 1.90e-12 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035815 AT1G67260.2 37.313 268 131 11 73 312 47 305 2.61e-34 130
MsaG035815 AT1G67260.3 37.313 268 131 11 73 312 47 305 2.61e-34 130
MsaG035815 AT1G67260.1 37.687 268 130 11 73 312 47 305 3.03e-34 130
MsaG035815 AT1G68800.2 54.867 113 42 4 120 229 112 218 1.72e-25 106
MsaG035815 AT1G68800.1 54.867 113 42 4 120 229 112 218 2.07e-25 105
MsaG035815 AT3G18550.2 38.562 153 70 3 113 241 141 293 2.19e-21 95.5
MsaG035815 AT3G18550.3 36.943 157 71 4 113 241 141 297 3.92e-20 91.7
MsaG035815 AT3G18550.1 36.306 157 72 3 113 241 141 297 4.84e-20 91.7
MsaG035815 AT3G18550.4 36.306 157 72 3 113 241 141 297 4.84e-20 91.7
MsaG035815 AT4G18390.1 36.986 146 88 3 103 248 27 168 1.23e-17 84.0
MsaG035815 AT4G18390.2 36.986 146 88 3 103 248 27 168 1.23e-17 84.0
MsaG035815 AT1G30210.2 53.968 63 29 0 116 178 46 108 1.50e-16 80.1
MsaG035815 AT1G30210.1 53.968 63 29 0 116 178 46 108 1.50e-16 80.1
MsaG035815 AT1G53230.1 51.515 66 32 0 115 180 44 109 2.21e-16 80.5
MsaG035815 AT1G53230.2 51.515 66 32 0 115 180 44 109 2.21e-16 80.5
MsaG035815 AT3G15030.2 52.308 65 31 0 115 179 40 104 2.70e-16 80.1
MsaG035815 AT3G15030.4 52.308 65 31 0 115 179 40 104 2.70e-16 80.1
MsaG035815 AT3G15030.3 52.308 65 31 0 115 179 40 104 2.70e-16 80.1
MsaG035815 AT3G15030.1 52.308 65 31 0 115 179 40 104 2.70e-16 80.1
MsaG035815 AT2G31070.1 51.562 64 31 0 115 178 24 87 6.05e-16 79.0
MsaG035815 AT3G02150.1 53.333 60 28 0 119 178 73 132 9.92e-15 74.3
MsaG035815 AT3G02150.2 53.333 60 28 0 119 178 73 132 1.64e-14 74.3
MsaG035815 AT5G60970.1 46.667 60 32 0 119 178 62 121 8.11e-13 69.3
MsaG035815 AT5G08070.2 45.000 60 33 0 119 178 32 91 2.20e-11 63.9
MsaG035815 AT5G08070.1 45.000 60 33 0 119 178 32 91 2.20e-11 63.9

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTCAACTTATTGCTCTTT+AGG 0.129653 7:+21764863 MsaT035815.1:CDS
ATCCTGATACACTAACAAAT+TGG 0.193845 7:+21765089 MsaT035815.1:CDS
GCCCAATTTGTTAGTGTATC+AGG 0.208804 7:-21765091 None:intergenic
CTCCAATGTTATCACCAAAT+TGG 0.217754 7:+21765818 MsaT035815.1:CDS
GTTAGTGTATCAGGATTAAT+TGG 0.223236 7:-21765082 None:intergenic
CTTCGAAGACGAAGGATTCT+AGG 0.286350 7:+21765524 MsaT035815.1:CDS
GAGCCATTCAAGTGTGTTAC+TGG 0.298642 7:-21765335 None:intergenic
TTCTTAGCTGGTTTCTTGAC+AGG 0.328037 7:-21765196 None:intergenic
TTCGATCTTCAAGACATGTT+AGG 0.334610 7:+21765301 MsaT035815.1:CDS
CTATGCCTGTCTTTCTTAGC+TGG 0.335007 7:-21765208 None:intergenic
TTTGAAGTTTCATCCTCATT+AGG 0.336904 7:-21765661 None:intergenic
TTATTATTAGCATCCCAATT+TGG 0.341400 7:-21765832 None:intergenic
TCATGAGAATCACTATTATT+AGG 0.353829 7:-21765793 None:intergenic
TCAGGGGTAAGGAAAGTAAA+AGG 0.368203 7:-21764938 None:intergenic
AATATCAGCTAATATCGATT+TGG 0.375751 7:-21766101 None:intergenic
TTCAAATCTTTGGAAAATCA+TGG 0.409744 7:+21766060 MsaT035815.1:CDS
TCCAATGTTATCACCAAATT+GGG 0.411724 7:+21765819 MsaT035815.1:CDS
CTAAAGATAGAAAGATGAAA+AGG 0.414926 7:+21765488 MsaT035815.1:CDS
TCTTGATATTGCAGAAAAGT+TGG 0.424180 7:-21765881 None:intergenic
TCCTGATACACTAACAAATT+GGG 0.434497 7:+21765090 MsaT035815.1:CDS
TCGATCTTCAAGACATGTTA+GGG 0.442491 7:+21765302 MsaT035815.1:CDS
AGCAAGAACAACATAGCTTC+TGG 0.450038 7:+21765397 MsaT035815.1:CDS
TTCATCTCCTTCATCGGACG+AGG 0.483567 7:-21765455 None:intergenic
TCTTCTTCCTCGTCCGATGA+AGG 0.488840 7:+21765448 MsaT035815.1:CDS
TGATGAGTTGTTTGTGTGTA+GGG 0.490224 7:-21765052 None:intergenic
AATAACAATGATGCTGTCAC+TGG 0.496363 7:+21765853 MsaT035815.1:CDS
CATTAGGCATCAATTGATGA+AGG 0.499616 7:-21765645 None:intergenic
ATCTTCTTCATCTCCTTCAT+CGG 0.500031 7:-21765461 None:intergenic
CCTAAAGAGCAATAAGTTGA+AGG 0.500471 7:-21764863 None:intergenic
AGCAAGATTCACACATCTCA+AGG 0.503482 7:+21765229 MsaT035815.1:CDS
TCAAGAACGAATCTATCATC+AGG 0.510472 7:+21765898 MsaT035815.1:CDS
TGTGATGAAGAAGATGAGTT+AGG 0.521777 7:-21764905 None:intergenic
TAAAGATAGAAAGATGAAAA+GGG 0.526209 7:+21765489 MsaT035815.1:CDS
TCAAATCTTTGGAAAATCAT+GGG 0.526493 7:+21766061 MsaT035815.1:CDS
GAACTTCCTCGCGATCTCGA+TGG 0.528472 7:-21765278 None:intergenic
TAGGGAACAGAAATAGCTGC+TGG 0.529350 7:-21765034 None:intergenic
AGAAACCAGCTAAGAAAGAC+AGG 0.535037 7:+21765203 MsaT035815.1:CDS
TCATCAATTGATGCCTAATG+AGG 0.536962 7:+21765648 MsaT035815.1:CDS
TTCGAAGACGAAGGATTCTA+GGG 0.537014 7:+21765525 MsaT035815.1:CDS
AGAAAGCAAGAGCAAGAACA+AGG 0.538860 7:+21765548 MsaT035815.1:CDS
TGATATCTTTAACTTCATTG+AGG 0.548363 7:+21765699 MsaT035815.1:CDS
AAGCCAGTAACACACTTGAA+TGG 0.552121 7:+21765332 MsaT035815.1:CDS
TCCCAATTTGGTGATAACAT+TGG 0.563066 7:-21765820 None:intergenic
TTAGGATTATAACAAGGGTA+AGG 0.565101 7:-21764887 None:intergenic
GATGAGTTAGGATTATAACA+AGG 0.570713 7:-21764893 None:intergenic
ATGATGAGTTGTTTGTGTGT+AGG 0.581066 7:-21765053 None:intergenic
GGGTAAGGAAAGTAAAAGGA+GGG 0.582814 7:-21764934 None:intergenic
CAGCTAATATCGATTTGGAC+TGG 0.588709 7:-21766096 None:intergenic
GGGGTAAGGAAAGTAAAAGG+AGG 0.592199 7:-21764935 None:intergenic
ATGAGTTAGGATTATAACAA+GGG 0.601724 7:-21764892 None:intergenic
GACTTTCCATCGAGATCGCG+AGG 0.608900 7:+21765272 MsaT035815.1:CDS
CTCAAGGGTTGAGAGACAGA+AGG 0.613193 7:+21765245 MsaT035815.1:CDS
GAAAGCAAGAGCAAGAACAA+GGG 0.614345 7:+21765549 MsaT035815.1:CDS
GAAAGAATCTTCGAAGACGA+AGG 0.618129 7:+21765516 MsaT035815.1:CDS
TCAAGGGTTGAGAGACAGAA+GGG 0.623957 7:+21765246 MsaT035815.1:CDS
AATCTTTGGAAAATCATGGG+AGG 0.624471 7:+21766064 MsaT035815.1:CDS
GCAAGATTCACACATCTCAA+GGG 0.635283 7:+21765230 MsaT035815.1:CDS
GCTTCTGGCGATGACGACGA+TGG 0.659720 7:+21765412 MsaT035815.1:CDS
ATGTTGAAACAAGATCTAAG+TGG 0.698091 7:+21765133 MsaT035815.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 21764857 21766115 21764857 ID=MsaG035815
Chr7 mRNA 21764857 21766115 21764857 ID=MsaT035815.1;Parent=MsaG035815
Chr7 exon 21764857 21765919 21764857 ID=MsaT035815.1.exon1;Parent=MsaT035815.1
Chr7 CDS 21764857 21765919 21764857 ID=cds.MsaT035815.1;Parent=MsaT035815.1
Chr7 exon 21766057 21766115 21766057 ID=MsaT035815.1.exon2;Parent=MsaT035815.1
Chr7 CDS 21766057 21766115 21766057 ID=cds.MsaT035815.1;Parent=MsaT035815.1
Gene Sequence

>MsaT035815.1

ATGTTTCCTTCAACTTATTGCTCTTTAGGTCCTTACCCTTGTTATAATCCTAACTCATCTTCTTCATCACATTCATACCCTCCTTTTACTTTCCTTACCCCTGATCAAAATGCTTCTTCTAACAACAACAACAATAACAACAACAGCAACAACAACATCAACAACTTTCTTCATGATCCAGCAGCTATTTCTGTTCCCTACACACAAACAACTCATCATCATGTTCCAATTAATCCTGATACACTAACAAATTGGGCTGTTGCTGACTATGCAGCTATGTTGAAACAAGATCTAAGTGGTTCTTCTCATTACAATCTCTCAAATTTGCTCACAAAGAAACCTGTCAAGAAACCAGCTAAGAAAGACAGGCATAGCAAGATTCACACATCTCAAGGGTTGAGAGACAGAAGGGTGAGACTTTCCATCGAGATCGCGAGGAAGTTCTTCGATCTTCAAGACATGTTAGGGTTTGACAAAGCCAGTAACACACTTGAATGGCTCTTCAATAAATCAAAAGAAGCAATTGAAGAGTTAACTAGAAGCAAGAACAACATAGCTTCTGGCGATGACGACGATGGTGATCATAGCTTCTCTTCTTCCTCGTCCGATGAAGGAGATGAAGAAGATTATACTAAAGATAGAAAGATGAAAAGGGCACAGAAAGAATCTTCGAAGACGAAGGATTCTAGGGAGAAAGCAAGAGCAAGAACAAGGGAAAGAGCTAGTGAGATGAAGATGCAAGAAGATTTGAAAGAAAAATATCCTGAAATTGATCAAAATCAACAAATCCTTCATCAATTGATGCCTAATGAGGATGAAACTTCAAAATCACTTCAAAGAGATGATATCTTTAACTTCATTGAGGAATCTATTGTGATTAAGAGAAAGTTGAAGAAATCTTCTTCTCATCATTATCAACAAAACACTAATTTGATGCCTAATAATAGTGATTCTCATGACTCTCCAATGTTATCACCAAATTGGGATGCTAATAATAATAACAATGATGCTGTCACTGGAAGATCCAACTTTTCTGCAATATCAAGAACGAATCTATCATCAGGGCTTCAAATCTTTGGAAAATCATGGGAGGATTGCAATACCAGTCCAAATCGATATTAG
Protein sequence

>MsaT035815.1

MFPSTYCSLGPYPCYNPNSSSSSHSYPPFTFLTPDQNASSNNNNNNNNSNNNINNFLHDPAAISVPYTQTTHHHVPINPDTLTNWAVADYAAMLKQDLSGSSHYNLSNLLTKKPVKKPAKKDRHSKIHTSQGLRDRRVRLSIEIARKFFDLQDMLGFDKASNTLEWLFNKSKEAIEELTRSKNNIASGDDDDGDHSFSSSSSDEGDEEDYTKDRKMKRAQKESSKTKDSREKARARTRERASEMKMQEDLKEKYPEIDQNQQILHQLMPNEDETSKSLQRDDIFNFIEESIVIKRKLKKSSSHHYQQNTNLMPNNSDSHDSPMLSPNWDANNNNNDAVTGRSNFSAISRTNLSSGLQIFGKSWEDCNTSPNRY*