AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016791

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016791 MtrunA17_Chr3g0132761 90.031 321 19 2 1 320 1 309 0.0 561
MsaG016791 MtrunA17_Chr5g0427661 50.690 290 88 11 22 307 37 275 3.79e-76 235
MsaG016791 MtrunA17_Chr3g0132751 47.120 191 86 3 71 257 69 248 2.62e-44 155
MsaG016791 MtrunA17_Chr4g0049741 41.065 263 123 10 50 293 20 269 3.36e-42 149
MsaG016791 MtrunA17_Chr4g0002261 74.510 51 12 1 124 173 16 66 1.85e-17 75.5
MsaG016791 MtrunA17_Chr4g0002231 42.453 106 40 4 149 245 42 135 9.04e-16 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016791 AT4G24470.1 52.941 204 80 5 69 269 81 271 4.94e-59 192
MsaG016791 AT4G24470.2 52.941 204 80 5 69 269 81 271 4.94e-59 192
MsaG016791 AT4G24470.3 55.615 187 68 4 69 252 81 255 3.88e-58 190
MsaG016791 AT1G51600.1 46.988 249 104 6 22 254 30 266 3.64e-56 184
MsaG016791 AT1G51600.2 46.988 249 104 6 22 254 30 266 3.64e-56 184
MsaG016791 AT3G21175.2 47.967 246 104 7 18 252 26 258 3.22e-54 179
MsaG016791 AT3G21175.1 48.400 250 99 9 18 252 26 260 2.61e-52 174
MsaG016791 AT3G21175.3 48.619 181 75 5 18 186 26 200 1.14e-39 139
MsaG016791 AT2G46670.1 39.286 112 54 3 73 171 61 171 8.44e-11 60.8

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGAAAATGTTTATGTTTC+TGG 0.023502 3:-102190404 MsaT016791.1:CDS
ATTTATACCCTCTGATTTAG+AGG 0.285177 3:+102190122 None:intergenic
CAGACCTTAGTGCAACTTCT+TGG 0.285451 3:+102189878 None:intergenic
CAGACGGCCCTTCGCATCAT+AGG 0.311030 3:+102186823 None:intergenic
CAATCAGTGCTGTTACTGTT+AGG 0.349587 3:-102190188 MsaT016791.1:CDS
GATCTTCGTTGTTCTTGATC+TGG 0.354455 3:+102190516 None:intergenic
AAATCCGGGTTCACAATGTT+TGG 0.357196 3:-102190153 MsaT016791.1:CDS
CAAGGGTTTGTGACTCGAAA+TGG 0.375722 3:+102190471 None:intergenic
GTGGAAGAGGGTGCGGTTGG+TGG 0.375793 3:+102185269 None:intergenic
AATTGTTGAACAGACATATC+AGG 0.381434 3:+102190368 None:intergenic
CAGCTCACACTTTCGTTTCG+TGG 0.383098 3:-102190332 MsaT016791.1:CDS
AACGAGCAGCGCCCTTGATT+AGG 0.403539 3:-102189957 MsaT016791.1:CDS
ATGTGATTGTTGTTGTTGTC+AGG 0.413713 3:+102190494 None:intergenic
AGGTGGATGTGAATTAAATC+CGG 0.414699 3:-102190168 MsaT016791.1:CDS
ATGCAGGATGCAACGTAGTA+AGG 0.415365 3:-102187063 MsaT016791.1:intron
TGGGGTTCTGATCCAGAGTC+AGG 0.423406 3:-102186999 MsaT016791.1:CDS
CAAGCATTGCATAGTGTCCT+AGG 0.426481 3:+102186799 None:intergenic
CTATGATGCGAAGGGCCGTC+TGG 0.445121 3:-102186822 MsaT016791.1:CDS
CTTCGCCGGAAGCATCTTCA+AGG 0.452359 3:+102190453 None:intergenic
TACTATCTCCTTGATTTACA+TGG 0.453589 3:-102186887 MsaT016791.1:CDS
ACCTGCTCAGGTTGTGGAAG+AGG 0.464674 3:+102185256 None:intergenic
CAAACCCTTGAAGATGCTTC+CGG 0.470159 3:-102190458 MsaT016791.1:CDS
TGATTCTGTTACCCCAGAAA+AGG 0.470692 3:-102190294 MsaT016791.1:intron
TGCGGCTGACTACATCTTGT+AGG 0.472012 3:+102189979 None:intergenic
CAACATAAGCATACCTGCTC+AGG 0.473278 3:+102185244 None:intergenic
TGCGAAGGGCCGTCTGGCCT+AGG 0.473570 3:-102186816 MsaT016791.1:CDS
ACCACATCTTGCCCTGACTC+TGG 0.474085 3:+102186987 None:intergenic
AAGCATACCTGCTCAGGTTG+TGG 0.481299 3:+102185250 None:intergenic
CTTGAAGATGCTTCCGGCGA+AGG 0.485541 3:-102190452 MsaT016791.1:CDS
CCCTCTTCCACAACCTGAGC+AGG 0.488271 3:-102185257 MsaT016791.1:intron
ACAAGATGGAGGTAACAGTT+GGG 0.494657 3:-102187018 MsaT016791.1:CDS
TTCGTTGTTCTTGATCTGGT+CGG 0.496317 3:+102190520 None:intergenic
GGACACTATGCAATGCTTGT+GGG 0.497362 3:-102186795 MsaT016791.1:CDS
AATGTTTATGTTTCTGGCGA+TGG 0.501439 3:-102190398 MsaT016791.1:CDS
GAATGACAGCATACCTGCTC+AGG 0.503321 3:+102185398 None:intergenic
GGTGGATGTGAATTAAATCC+GGG 0.508148 3:-102190167 MsaT016791.1:CDS
CTGTAAAACCATGTAAATCA+AGG 0.509045 3:+102186879 None:intergenic
TACTCTTGCATCACCTGAGC+AGG 0.520577 3:-102185411 MsaT016791.1:intron
GTTGTGGAAGAGGGTGCGGT+TGG 0.536534 3:+102185266 None:intergenic
CAGAATCAAAGACATAAACT+TGG 0.537080 3:+102190309 None:intergenic
CTTCTGACGAAACCTAATCA+AGG 0.539698 3:+102189945 None:intergenic
TGCAGGATGCAACGTAGTAA+GGG 0.540856 3:-102187062 MsaT016791.1:intron
TGATTAGGTTTCGTCAGAAG+AGG 0.541643 3:-102189942 MsaT016791.1:CDS
AACAAGATGGAGGTAACAGT+TGG 0.546569 3:-102187019 MsaT016791.1:CDS
AGGACACTATGCAATGCTTG+TGG 0.555062 3:-102186796 MsaT016791.1:CDS
GATTTGACCTTCACCTTCGC+CGG 0.560805 3:+102190439 None:intergenic
TTTGATGATCAGGTCGGTGA+GGG 0.566915 3:-102185159 MsaT016791.1:intron
CCTGCTCAGGTTGTGGAAGA+GGG 0.568795 3:+102185257 None:intergenic
GATGCTTCCGGCGAAGGTGA+AGG 0.572469 3:-102190446 MsaT016791.1:CDS
AGACGGCCCTTCGCATCATA+GGG 0.576576 3:+102186824 None:intergenic
GTGTCCAAACATTGTGAACC+CGG 0.578316 3:+102190149 None:intergenic
GGTAATGAGGACTTGAACTG+TGG 0.578555 3:-102185138 MsaT016791.1:CDS
AAATCTACCCTATGATGCGA+AGG 0.579189 3:-102186831 MsaT016791.1:CDS
TCAACAGATTCGTTATGCGC+AGG 0.581536 3:+102185108 None:intergenic
ACATCAGCTAAGAAACAAGA+TGG 0.581906 3:-102187032 MsaT016791.1:CDS
CACGAAACGAAAGTGTGAGC+TGG 0.585055 3:+102190333 None:intergenic
TGAGGGATCTATCTACTGCT+AGG 0.587426 3:-102185451 MsaT016791.1:CDS
ATCAAGGGCGCTGCTCGTTG+CGG 0.591411 3:+102189961 None:intergenic
TGCGCCAAGAAGTTGCACTA+AGG 0.594308 3:-102189882 MsaT016791.1:intron
TCAGGTCGGTGAGGGTAATG+AGG 0.596734 3:-102185151 MsaT016791.1:intron
ATTGTTGAACAGACATATCA+GGG 0.601227 3:+102190369 None:intergenic
TTCGCCGGAAGCATCTTCAA+GGG 0.605756 3:+102190454 None:intergenic
TGATTGGAAAACTCATTGAT+CGG 0.607060 3:+102185065 None:intergenic
TCAGGTTGTGGAAGAGGGTG+CGG 0.608180 3:+102185262 None:intergenic
TTCTGACGAAACCTAATCAA+GGG 0.612217 3:+102189946 None:intergenic
GCATAGTGTCCTAGGCCAGA+CGG 0.615291 3:+102186807 None:intergenic
GGGGTTCTGATCCAGAGTCA+GGG 0.627539 3:-102186998 MsaT016791.1:CDS
AATCTACCCTATGATGCGAA+GGG 0.630484 3:-102186830 MsaT016791.1:CDS
ACACATCGCCTCTAAATCAG+AGG 0.633670 3:-102190130 MsaT016791.1:CDS
CAAGATGGAGGTAACAGTTG+GGG 0.641381 3:-102187017 MsaT016791.1:CDS
GTAATGAGGACTTGAACTGT+GGG 0.641626 3:-102185137 MsaT016791.1:CDS
ATTTGATGATCAGGTCGGTG+AGG 0.643120 3:-102185160 MsaT016791.1:intron
TCCAGAGTCAGGGCAAGATG+TGG 0.649132 3:-102186988 MsaT016791.1:CDS
CACATCGCCTCTAAATCAGA+GGG 0.653063 3:-102190129 MsaT016791.1:intron
TCAGTGCTGTTACTGTTAGG+TGG 0.658523 3:-102190185 MsaT016791.1:CDS
TCAGCTAAGAAACAAGATGG+AGG 0.698334 3:-102187029 MsaT016791.1:CDS
TGTTGATGATAAAACAGCTG+TGG 0.705190 3:-102185091 MsaT016791.1:CDS
GTTGAACAGACATATCAGGG+TGG 0.749016 3:+102190372 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 102185077 102190564 102185077 ID=MsaG016791
Chr3 mRNA 102185077 102190564 102185077 ID=MsaT016791.1;Parent=MsaG016791
Chr3 exon 102185077 102185169 102185077 ID=MsaT016791.1.exon8;Parent=MsaT016791.1
Chr3 CDS 102185077 102185169 102185077 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102185258 102185323 102185258 ID=MsaT016791.1.exon7;Parent=MsaT016791.1
Chr3 CDS 102185258 102185323 102185258 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102185412 102185480 102185412 ID=MsaT016791.1.exon6;Parent=MsaT016791.1
Chr3 CDS 102185412 102185480 102185412 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102186777 102186915 102186777 ID=MsaT016791.1.exon5;Parent=MsaT016791.1
Chr3 CDS 102186777 102186915 102186777 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102186972 102187079 102186972 ID=MsaT016791.1.exon4;Parent=MsaT016791.1
Chr3 CDS 102186972 102187079 102186972 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102189883 102190016 102189883 ID=MsaT016791.1.exon3;Parent=MsaT016791.1
Chr3 CDS 102189883 102190016 102189883 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102190130 102190213 102190130 ID=MsaT016791.1.exon2;Parent=MsaT016791.1
Chr3 CDS 102190130 102190213 102190130 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Chr3 exon 102190295 102190564 102190295 ID=MsaT016791.1.exon1;Parent=MsaT016791.1
Chr3 CDS 102190295 102190564 102190295 ID=cds.MsaT016791.1;Parent=MsaT016791.1
Gene Sequence

>MsaT016791.1

ATGTACAACTCTATGAACATGTCCGACCAGATCAAGAACAACGAAGATCCTGACAACAACAACAATCACATCCATTTCGAGTCACAAACCCTTGAAGATGCTTCCGGCGAAGGTGAAGGTCAAATCACTGATGTTTCACTTGAAAATGTTTATGTTTCTGGCGATGGAAACCACCCTGATATGTCTGTTCAACAATTCGACGATTCTAGCCAGCTCACACTTTCGTTTCGTGGCCAAGTTTATGTCTTTGATTCTGTTACCCCAGAAAAGGTTCAATCAGTGCTGTTACTGTTAGGTGGATGTGAATTAAATCCGGGTTCACAATGTTTGGACACATCGCCTCTAAATCAGAGGAGTGGTGCTGAATTTCCTACAAGATGTAGTCAGCCGCAACGAGCAGCGCCCTTGATTAGGTTTCGTCAGAAGAGGAAAGAGCGAAACTTTGATAAGAAAGTTAGATATGAAGTGCGCCAAGAAGTTGCACTAAGGATGCAACGTAGTAAGGGTCAATTTACATCAGCTAAGAAACAAGATGGAGGTAACAGTTGGGGTTCTGATCCAGAGTCAGGGCAAGATGTGGTTCAATCAGAAACGTCATGTTTTACTATCTCCTTGATTTACATGGTTTTACAGATGCACACACTGTGGAATCAGTTCAAAATCTACCCTATGATGCGAAGGGCCGTCTGGCCTAGGACACTATGCAATGCTTGTGGGCTTTTCTGGGCAAATAGGGGTACTTTGAGGGATCTATCTACTGCTAGGAGAAATCACGAACAACATACTCTTGCATCACCTGAGCAGGGTATGAGGGATCTATCTAATTCAAAGAGAAACCACCAACCGCACCCTCTTCCACAACCTGAGCAGGTCGGTGAGGGTAATGAGGACTTGAACTGTGGGACTGCTCCTGCGCATAACGAATCTGTTGATGATAAAACAGCTGTGGTATCCGATCAATGA
Protein sequence

>MsaT016791.1

MYNSMNMSDQIKNNEDPDNNNNHIHFESQTLEDASGEGEGQITDVSLENVYVSGDGNHPDMSVQQFDDSSQLTLSFRGQVYVFDSVTPEKVQSVLLLLGGCELNPGSQCLDTSPLNQRSGAEFPTRCSQPQRAAPLIRFRQKRKERNFDKKVRYEVRQEVALRMQRSKGQFTSAKKQDGGNSWGSDPESGQDVVQSETSCFTISLIYMVLQMHTLWNQFKIYPMMRRAVWPRTLCNACGLFWANRGTLRDLSTARRNHEQHTLASPEQGMRDLSNSKRNHQPHPLPQPEQVGEGNEDLNCGTAPAHNESVDDKTAVVSDQ*