AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044644

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044644 MtrunA17_Chr4g0054621 77.596 366 39 7 1 347 1 342 0.0 533
MsaG044644 MtrunA17_Chr4g0054581 49.618 393 138 13 1 347 1 379 2.49e-99 298
MsaG044644 MtrunA17_Chr2g0307131 48.533 375 144 14 1 346 1 355 3.70e-89 271
MsaG044644 MtrunA17_Chr4g0033281 46.409 362 141 10 1 346 1 325 2.71e-87 266
MsaG044644 MtrunA17_Chr2g0307141 45.623 377 158 13 1 347 1 360 1.05e-84 260
MsaG044644 MtrunA17_Chr6g0468491 47.727 352 118 14 24 347 1 314 5.69e-83 254
MsaG044644 MtrunA17_Chr4g0033291 45.902 366 142 12 1 347 1 329 2.43e-82 253
MsaG044644 MtrunA17_Chr4g0033391 44.353 363 140 12 1 345 1 319 8.05e-78 241
MsaG044644 MtrunA17_Chr6g0468461 48.538 342 125 16 1 322 1 311 4.65e-75 235
MsaG044644 MtrunA17_Chr5g0400621 39.205 352 155 9 17 346 19 333 4.56e-51 172
MsaG044644 MtrunA17_Chr7g0225901 45.714 245 80 9 101 322 26 240 5.13e-48 162
MsaG044644 MtrunA17_Chr2g0280161 34.098 305 154 8 77 345 60 353 3.90e-38 139
MsaG044644 MtrunA17_Chr4g0002801 37.255 255 119 8 120 343 87 331 8.82e-37 135
MsaG044644 MtrunA17_Chr5g0400641 47.436 156 62 3 193 328 1 156 1.47e-35 127
MsaG044644 MtrunA17_Chr5g0400661 35.000 260 119 5 124 342 84 334 4.11e-35 130
MsaG044644 MtrunA17_Chr4g0054551 38.798 183 90 3 175 337 140 320 1.20e-34 129
MsaG044644 MtrunA17_Chr4g0054561 38.798 183 90 3 175 337 140 320 1.18e-33 127
MsaG044644 MtrunA17_Chr5g0400671 30.333 300 174 8 75 342 27 323 1.14e-31 121
MsaG044644 MtrunA17_Chr4g0054571 33.108 296 140 7 85 344 58 331 1.34e-31 121
MsaG044644 MtrunA17_Chr4g0002781 38.806 201 94 5 172 343 150 350 2.92e-31 120
MsaG044644 MtrunA17_Chr4g0049331 37.500 192 100 3 174 345 119 310 4.88e-31 119
MsaG044644 MtrunA17_Chr2g0333641 35.377 212 111 6 146 337 97 302 3.29e-30 117
MsaG044644 MtrunA17_Chr8g0336681 33.333 261 119 10 111 338 93 331 7.31e-30 117
MsaG044644 MtrunA17_Chr2g0333621 31.349 252 140 6 116 346 76 315 5.88e-29 114
MsaG044644 MtrunA17_Chr7g0249811 28.571 280 172 5 76 338 56 324 6.27e-29 114
MsaG044644 MtrunA17_Chr2g0333611 35.165 182 96 3 183 344 38 217 1.16e-28 110
MsaG044644 MtrunA17_Chr2g0333541 31.250 240 136 7 126 341 33 267 5.34e-28 110
MsaG044644 MtrunA17_Chr4g0002851 39.370 127 75 2 216 340 68 194 3.48e-21 90.1
MsaG044644 MtrunA17_Chr4g0002831 35.333 150 87 3 201 340 53 202 3.60e-21 90.1
MsaG044644 MtrunA17_Chr7g0233441 37.500 136 73 5 216 340 60 194 8.98e-19 83.2
MsaG044644 MtrunA17_Chr1g0185621 30.282 142 71 3 190 303 475 616 1.94e-12 68.2
MsaG044644 MtrunA17_Chr7g0275821 28.000 150 91 3 190 324 252 399 3.06e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044644 AT4G37850.2 35.081 248 129 7 123 345 88 328 3.56e-32 123
MsaG044644 AT4G37850.1 35.081 248 129 7 123 345 88 328 3.56e-32 123
MsaG044644 AT2G22760.1 37.566 189 94 3 178 342 107 295 5.10e-32 122
MsaG044644 AT2G22750.3 36.410 195 97 4 176 344 139 332 3.88e-28 112
MsaG044644 AT2G22750.5 36.410 195 97 4 176 344 135 328 3.96e-28 112
MsaG044644 AT2G22750.2 36.410 195 97 4 176 344 111 304 4.23e-28 111
MsaG044644 AT2G22770.1 30.705 241 121 6 138 340 85 317 4.98e-28 112
MsaG044644 AT2G22760.2 37.500 168 82 2 178 322 107 274 3.31e-27 108
MsaG044644 AT2G22750.1 36.410 195 96 5 176 344 111 303 4.99e-27 108
MsaG044644 AT2G22750.4 36.410 195 96 5 176 344 139 331 5.15e-27 109
MsaG044644 AT5G46760.1 29.775 178 84 8 190 326 415 592 5.25e-13 70.5
MsaG044644 AT4G17880.1 32.414 145 71 4 190 307 416 560 1.04e-12 69.3
MsaG044644 AT4G09820.1 35.922 103 62 2 191 291 364 464 1.35e-12 68.9
MsaG044644 AT1G32640.1 26.374 273 156 10 70 301 316 584 1.67e-12 68.9
MsaG044644 AT1G01260.1 26.623 154 110 2 169 321 412 563 1.71e-11 65.9
MsaG044644 AT1G01260.2 26.623 154 110 2 169 321 412 563 1.71e-11 65.9
MsaG044644 AT1G01260.3 26.623 154 110 2 169 321 412 563 1.71e-11 65.9

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAGTGTCATTGCCCAATT+TGG 0.159846 8:-63105944 MsaT044644.1:CDS
AAAACGTGTGTTATCCAAAT+TGG 0.202416 8:+63105930 None:intergenic
AGAGCTTAAAGAGCTTAAAA+AGG 0.235718 8:-63105296 MsaT044644.1:CDS
CAGAACCTTGTTATTTGATT+TGG 0.256803 8:-63106676 MsaT044644.1:intron
CCAAACCCAACAGATTTATA+CGG 0.283498 8:-63105994 MsaT044644.1:CDS
CAAGAAGTCCATCATGCTTT+TGG 0.296888 8:+63105132 None:intergenic
CGTATAAATCTGTTGGGTTT+GGG 0.304768 8:+63105995 None:intergenic
CTGTCTGCTGATATGTTCAT+TGG 0.315898 8:+63106696 None:intergenic
AGTTACTTCTTACCTTCTTT+AGG 0.329290 8:+63105743 None:intergenic
CCGTATAAATCTGTTGGGTT+TGG 0.355612 8:+63105994 None:intergenic
AATTTGTTGTGAAAAGCTTT+TGG 0.355869 8:+63106068 None:intergenic
GGCTAGTGCCATTGCCTTTG+AGG 0.361619 8:-63106232 MsaT044644.1:CDS
ATGCTGCCATGCGTAGATTC+TGG 0.364951 8:+63103554 None:intergenic
CTTCTTACCTTCTTTAGGTC+AGG 0.391987 8:+63105748 None:intergenic
TCATGTAAAAGATCACATTA+TGG 0.398549 8:-63105830 MsaT044644.1:CDS
TTGGTGATGCTACTGCTATC+AGG 0.398588 8:-63105202 MsaT044644.1:CDS
TAAGCTCTTTAAGCTCTTTG+AGG 0.401789 8:+63105320 None:intergenic
AGGGTAGAAGCAAAAGTGTC+AGG 0.446583 8:-63105182 MsaT044644.1:CDS
AAACGTGTGTTATCCAAATT+GGG 0.461557 8:+63105931 None:intergenic
TCAAACCCGTATAAATCTGT+TGG 0.488589 8:+63105988 None:intergenic
CAAACCCGTATAAATCTGTT+GGG 0.491045 8:+63105989 None:intergenic
GAGTTCTGCAAGAGCAATGA+AGG 0.495896 8:+63105774 None:intergenic
ATCACAATCTAAGAGGTCTT+CGG 0.516297 8:-63105854 MsaT044644.1:CDS
CAAACCCAACAGATTTATAC+GGG 0.531352 8:-63105993 MsaT044644.1:CDS
CTAAAACATCACAATCTAAG+AGG 0.533656 8:-63105861 MsaT044644.1:CDS
AATCTCCAAAGGCTAAAATA+CGG 0.534934 8:+63105060 None:intergenic
GGGTTTGGGTTGTCAAAAGA+CGG 0.535552 8:+63106009 None:intergenic
ACTCATTCCTGACCTAAAGA+AGG 0.552914 8:-63105755 MsaT044644.1:intron
GAATGTTTCGCTTAGAGTGG+TGG 0.560814 8:+63106179 None:intergenic
AGTCTCTCTTTGTTCCTCAA+AGG 0.562733 8:+63106218 None:intergenic
TGAGATGACTGAAAAGAGGA+TGG 0.564225 8:+63106036 None:intergenic
TCTTTGTTCCTCAAAGGCAA+TGG 0.566921 8:+63106224 None:intergenic
TGGTGATGCTACTGCTATCA+GGG 0.568737 8:-63105201 MsaT044644.1:CDS
ATTGAATGTTTCGCTTAGAG+TGG 0.570806 8:+63106176 None:intergenic
ATCCACTGCCAAAAGCATGA+TGG 0.574310 8:-63105140 MsaT044644.1:CDS
AATCTGAGATGACTGAAAAG+AGG 0.576642 8:+63106032 None:intergenic
ACTCTAAGCGAAACATTCAA+TGG 0.582474 8:-63106174 MsaT044644.1:CDS
CAGCAATGATTGTAATGTCG+TGG 0.584079 8:+63105033 None:intergenic
GGGTAGAAGCAAAAGTGTCA+GGG 0.600504 8:-63105181 MsaT044644.1:CDS
ATTGGGCAATGACACTGAAG+TGG 0.602756 8:+63105948 None:intergenic
AGAGTTTCTCTCACGTGACA+TGG 0.613188 8:-63106253 MsaT044644.1:CDS
TGAATACATGTTATTTGACA+AGG 0.622791 8:-63106313 MsaT044644.1:CDS
AATCATCGTGCAGGAAAAGG+TGG 0.627645 8:-63106337 MsaT044644.1:intron
TTGGGCAATGACACTGAAGT+GGG 0.628306 8:+63105949 None:intergenic
TCTCACCAAATCAAATAACA+AGG 0.637420 8:+63106671 None:intergenic
ATATGTTAATTAGAAGGACA+AGG 0.637697 8:-63105371 MsaT044644.1:intron
CTGAAAAGAGGATGGAGATG+CGG 0.641434 8:+63106044 None:intergenic
CACAAAGGAAGATCAATCGA+TGG 0.644880 8:-63105267 MsaT044644.1:intron
GAACTTGCTTGATGCTGACG+TGG 0.647274 8:-63106280 MsaT044644.1:CDS
CGACATTACAATCATTGCTG+AGG 0.658041 8:-63105030 MsaT044644.1:intron
GTCGTGGAAAGAATCTCCAA+AGG 0.662563 8:+63105049 None:intergenic
AGAAAACGAAGAGAGAAACT+CGG 0.671233 8:-63105802 MsaT044644.1:CDS
ACTCGTCCAGAATCTACGCA+TGG 0.674291 8:-63103560 MsaT044644.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 63103534 63106739 63103534 ID=MsaG044644
Chr8 mRNA 63103534 63106739 63103534 ID=MsaT044644.1;Parent=MsaG044644
Chr8 exon 63103534 63103614 63103534 ID=MsaT044644.1.exon5;Parent=MsaT044644.1
Chr8 CDS 63103534 63103614 63103534 ID=cds.MsaT044644.1;Parent=MsaT044644.1
Chr8 exon 63105031 63105226 63105031 ID=MsaT044644.1.exon4;Parent=MsaT044644.1
Chr8 CDS 63105031 63105226 63105031 ID=cds.MsaT044644.1;Parent=MsaT044644.1
Chr8 exon 63105268 63105380 63105268 ID=MsaT044644.1.exon3;Parent=MsaT044644.1
Chr8 CDS 63105268 63105380 63105268 ID=cds.MsaT044644.1;Parent=MsaT044644.1
Chr8 exon 63105756 63106346 63105756 ID=MsaT044644.1.exon2;Parent=MsaT044644.1
Chr8 CDS 63105756 63106346 63105756 ID=cds.MsaT044644.1;Parent=MsaT044644.1
Chr8 exon 63106677 63106739 63106677 ID=MsaT044644.1.exon1;Parent=MsaT044644.1
Chr8 CDS 63106677 63106739 63106677 ID=cds.MsaT044644.1;Parent=MsaT044644.1
Gene Sequence

>MsaT044644.1

ATGGAGCAAATCAACAATACACCAATGAACATATCAGCAGACAGAACCTTGTTATTTGATTTGGAAAAGGTGGATGAATACATGTTATTTGACAAGGAATGCTACTTGAACTTGCTTGATGCTGACGTGGTAGAAGAGTTTCTCTCACGTGACATGGCTAGTGCCATTGCCTTTGAGGAACAAAGAGAGACTCTACAACAATGCATTTCCACCACTCTAAGCGAAACATTCAATGGTGAAACAAGTTTTGAGTCTTTTGACTTTGATTTTGAGAATCCAACCAAGAAGCTGAAATTTTTTGATCAAAGTAACAACATAACCAAAAGCTTTTCACAACAAATTTCCGCATCTCCATCCTCTTTTCAGTCATCTCAGATTCCGTCTTTTGACAACCCAAACCCAACAGATTTATACGGGTTTGATCAAAAACAGAAAGAACCCACTTCAGTGTCATTGCCCAATTTGGATAACACACGTTTTTCAGCACAACCCTCAATTGAGTCTTCAAAAAATCAGAACTTGGAAACTAAAACATCACAATCTAAGAGGTCTTCGGCTCATGTAAAAGATCACATTATGGTTGAGAGAAAACGAAGAGAGAAACTCGGTCAAGCCTTCATTGCTCTTGCAGAACTCATTCCTGACCTAAAGAAGAAGGACAAGGCTTCAGTATTAGCAGATACAATCAAATACCTCAAAGAGCTTAAAGAGCTTAAAGAGCTTAAAGAGCTTAAAAAGGGAAGAACACAAAGGAAGATCAATCGATGTGTTGGTGATGCTACTGCTATCAGGGTAGAAGCAAAAGTGTCAGGGAAAAAGATGTTGATTAGGATCCACTGCCAAAAGCATGATGGACTTCTTGTTAAAGTCATCACTGAGATTCAAAGTTTTCAACTATTAGTTGTCAATAACCGTATTTTAGCCTTTGGAGATTCTTTCCACGACATTACAATCATTGCTGAGATTGGTGAAGGCTACAACTTGACCTTAAAAGAACTCGTCCAGAATCTACGCATGGCAGCATTGAAGTTTATGTCATCGTAA
Protein sequence

>MsaT044644.1

MEQINNTPMNISADRTLLFDLEKVDEYMLFDKECYLNLLDADVVEEFLSRDMASAIAFEEQRETLQQCISTTLSETFNGETSFESFDFDFENPTKKLKFFDQSNNITKSFSQQISASPSSFQSSQIPSFDNPNPTDLYGFDQKQKEPTSVSLPNLDNTRFSAQPSIESSKNQNLETKTSQSKRSSAHVKDHIMVERKRREKLGQAFIALAELIPDLKKKDKASVLADTIKYLKELKELKELKELKKGRTQRKINRCVGDATAIRVEAKVSGKKMLIRIHCQKHDGLLVKVITEIQSFQLLVVNNRILAFGDSFHDITIIAEIGEGYNLTLKELVQNLRMAALKFMSS*