AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004483

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004483 MtrunA17_Chr1g0197281 94.150 359 9 7 1 351 1 355 0.0 673
MsaG004483 MtrunA17_Chr4g0027991 36.729 373 121 12 8 351 7 293 1.15e-54 181
MsaG004483 MtrunA17_Chr1g0180311 37.360 356 147 13 9 351 5 297 1.05e-50 171
MsaG004483 MtrunA17_Chr2g0320311 35.735 347 136 10 21 351 22 297 1.22e-46 160
MsaG004483 MtrunA17_Chr1g0188911 50.820 183 44 8 144 301 32 193 5.09e-44 150
MsaG004483 MtrunA17_Chr1g0188901 48.555 173 55 9 135 301 41 185 1.23e-28 109
MsaG004483 MtrunA17_Chr1g0182161 42.138 159 57 5 158 316 39 162 5.31e-28 107
MsaG004483 MtrunA17_Chr7g0222831 42.581 155 33 5 104 258 12 110 8.40e-26 102
MsaG004483 MtrunA17_Chr4g0012791 36.842 228 114 9 100 302 158 380 4.05e-25 105
MsaG004483 MtrunA17_Chr7g0263121 35.514 214 75 8 100 313 11 161 4.43e-25 99.8
MsaG004483 MtrunA17_Chr7g0263131 42.667 150 48 5 158 305 34 147 1.57e-24 98.2
MsaG004483 MtrunA17_Chr1g0182181 38.509 161 41 5 100 260 7 109 1.72e-22 92.8
MsaG004483 MtrunA17_Chr1g0212561 49.505 101 26 3 157 257 44 119 2.31e-22 93.6
MsaG004483 MtrunA17_Chr4g0012691 39.310 145 69 3 158 302 220 345 4.63e-20 90.1
MsaG004483 MtrunA17_Chr4g0061301 34.591 159 77 5 158 305 348 490 5.61e-15 75.9
MsaG004483 MtrunA17_Chr1g0207451 32.414 145 67 3 158 302 83 196 1.42e-14 72.8
MsaG004483 MtrunA17_Chr1g0152661 30.275 218 104 8 84 301 24 193 9.27e-14 70.1
MsaG004483 MtrunA17_Chr3g0134711 29.048 210 100 5 95 304 44 204 6.44e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004483 AT5G04390.1 45.946 370 153 15 15 351 7 362 3.35e-84 259
MsaG004483 AT3G10470.1 42.640 394 150 12 22 351 17 398 9.74e-77 241
MsaG004483 AT2G28200.1 40.580 345 121 15 20 351 13 286 3.56e-50 169
MsaG004483 AT5G03510.1 36.735 343 143 13 19 351 14 292 2.49e-43 152
MsaG004483 AT2G37430.1 35.266 207 67 8 103 305 16 159 2.52e-23 95.5
MsaG004483 AT3G53600.1 36.424 151 50 3 158 305 49 156 1.87e-21 90.5
MsaG004483 AT1G02030.1 35.897 156 52 5 158 313 160 267 4.73e-17 80.5
MsaG004483 AT3G49930.1 32.515 163 58 5 99 256 56 171 2.30e-16 77.4
MsaG004483 AT5G67450.1 31.646 158 77 4 99 256 60 186 1.65e-14 72.8
MsaG004483 AT3G46070.1 39.623 106 28 2 157 257 35 109 1.67e-14 71.2
MsaG004483 AT1G02040.1 32.278 158 91 4 99 256 106 247 4.63e-13 69.7
MsaG004483 AT5G56200.1 41.509 106 54 3 160 264 344 442 1.73e-12 68.6
MsaG004483 AT3G19580.1 30.909 165 75 7 93 256 61 187 2.36e-12 67.0
MsaG004483 AT3G19580.2 30.909 165 75 7 93 256 61 187 2.36e-12 67.0
MsaG004483 AT4G35280.1 32.515 163 58 5 95 256 133 244 2.19e-11 64.3
MsaG004483 AT2G17180.1 29.193 161 64 4 99 256 120 233 5.10e-11 63.2

Find 77 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCAAATTGTTTGATTCTAT+TGG 0.240497 1:+70084713 MsaT004483.1:CDS
ATTCATGGAAGCTGCTACTT+TGG 0.245240 1:+70084824 MsaT004483.1:CDS
CTCTTTGACACCAATGGCTT+TGG 0.266424 1:+70085211 MsaT004483.1:CDS
ATTTGTTGTTGTTCTTGTTC+AGG 0.270280 1:-70084414 None:intergenic
GAAGCTGCTACTTTGGATTC+TGG 0.278220 1:+70084831 MsaT004483.1:CDS
GCTTCTTGTGACTTGCTCTA+TGG 0.280425 1:-70084926 None:intergenic
TGAGCAATTGCTAAAGCTTT+TGG 0.285166 1:-70084948 None:intergenic
AGATTGTGGCCTAACCCTTT+TGG 0.313150 1:-70084484 None:intergenic
TCTAAATCATCAGTGTTCTT+TGG 0.328815 1:-70084762 None:intergenic
TGTCTTCTCTGCACCAGCTT+TGG 0.339208 1:+70085418 MsaT004483.1:CDS
GAATTAGCAGTGATGGAAAA+AGG 0.340841 1:-70084513 None:intergenic
AAGGGAAATTGATTTATGAT+TGG 0.360112 1:-70085015 None:intergenic
CTTCTCTGCACCAGCTTTGG+TGG 0.364744 1:+70085421 MsaT004483.1:CDS
CAACATCAACAACAACAAAA+TGG 0.377913 1:+70085350 MsaT004483.1:CDS
GATTCTCTATGATCATCTTC+AGG 0.378560 1:-70085305 None:intergenic
GTTCATGAGTGTTCCATTTG+TGG 0.382713 1:+70085098 MsaT004483.1:CDS
ATTGTTGTTGGTGATGATTA+TGG 0.386078 1:-70084619 None:intergenic
AGGGAAATTGATTTATGATT+GGG 0.394597 1:-70085014 None:intergenic
TTTCTAGGATGATCTTCATC+AGG 0.398775 1:-70085236 None:intergenic
TTCCCTTCATTTCAAGCCCT+TGG 0.399176 1:+70084900 MsaT004483.1:CDS
ATATAGCAGTAGAAAATTCA+TGG 0.401514 1:+70084809 MsaT004483.1:CDS
TTTGTTGTTGTTCTTGTTCA+GGG 0.401552 1:-70084413 None:intergenic
TGTGGTTCTGAATTCACATC+TGG 0.408068 1:+70085116 MsaT004483.1:CDS
TGGAGATGTATTATTGTTGT+TGG 0.409882 1:-70084631 None:intergenic
ATCACTGCTAATTCTTCAAC+TGG 0.411257 1:+70084522 MsaT004483.1:CDS
GTGCGCGGTGTCGCCTCATA+TGG 0.417376 1:-70085154 None:intergenic
TCTTCTACATAAGAAGTTGT+TGG 0.422141 1:-70084651 None:intergenic
TACCATTGTTATTCAATTGA+AGG 0.424863 1:-70085034 None:intergenic
AAGCAACAATAACAAGTCTA+AGG 0.436995 1:+70085076 MsaT004483.1:CDS
CCTTCATTTCAAGCCCTTGG+TGG 0.438074 1:+70084903 MsaT004483.1:CDS
CCACCAAGGGCTTGAAATGA+AGG 0.443987 1:-70084903 None:intergenic
ACTGGTGAAGGAGGAGGAGG+AGG 0.445485 1:+70084540 MsaT004483.1:CDS
TGTTGTTCTTGTTCAGGGGC+AGG 0.447493 1:-70084408 None:intergenic
AAGCACTAGGTGGCCATATG+AGG 0.457238 1:+70085141 MsaT004483.1:CDS
TGTGAATTCAGAACCACAAA+TGG 0.467209 1:-70085111 None:intergenic
ACCATTGTTATTCAATTGAA+GGG 0.467288 1:-70085033 None:intergenic
TCAATTGAATAACAATGGTA+AGG 0.472860 1:+70085037 MsaT004483.1:CDS
TCAAAGGCAAAAGAACCAAA+AGG 0.477828 1:+70084469 MsaT004483.1:CDS
ACTTTGGATTCTGGAAGAGC+TGG 0.481432 1:+70084840 MsaT004483.1:CDS
TATTGATGAAGAATATGATA+TGG 0.482765 1:+70084692 MsaT004483.1:CDS
CTATGATCATCTTCAGGTGC+AGG 0.486557 1:-70085299 None:intergenic
GCAAAAGAACCAAAAGGGTT+AGG 0.488623 1:+70084475 MsaT004483.1:CDS
AAGATCATCCTAGAAAGAAA+AGG 0.498656 1:+70085243 MsaT004483.1:CDS
AAGAACACTGATGATTTAGA+TGG 0.500109 1:+70084765 MsaT004483.1:CDS
TATATTGGTGATTTCTCTAG+AGG 0.510307 1:-70084445 None:intergenic
TTGTTGTTGTTGATGTTGCT+TGG 0.510313 1:-70085345 None:intergenic
TAATGACAATCCACCAAAGC+TGG 0.512389 1:-70085431 None:intergenic
CACACTCTCTTTGACACCAA+TGG 0.515862 1:+70085205 MsaT004483.1:CDS
AGTTGAAGAATTAGCAGTGA+TGG 0.516949 1:-70084520 None:intergenic
TCCCTTCAATTGAATAACAA+TGG 0.518412 1:+70085032 MsaT004483.1:CDS
GGCTGCTGCAGAAGTTCCGA+CGG 0.536822 1:-70085177 None:intergenic
TCATCAGGTTCCAAAGCCAT+TGG 0.537240 1:-70085221 None:intergenic
GACTTGCTCTATGGCCACCA+AGG 0.541956 1:-70084917 None:intergenic
TCTTCAACTGGTGAAGGAGG+AGG 0.546134 1:+70084534 MsaT004483.1:CDS
GAAATCACCAATATAATCAA+AGG 0.551277 1:+70084453 MsaT004483.1:CDS
CAGAAGTTCCGACGGGTGCG+CGG 0.561247 1:-70085169 None:intergenic
TGTCAAAGAGAGTGTGGTGT+TGG 0.565170 1:-70085198 None:intergenic
TCAACTGGTGAAGGAGGAGG+AGG 0.569017 1:+70084537 MsaT004483.1:CDS
CAAAGGCAAAAGAACCAAAA+GGG 0.572371 1:+70084470 MsaT004483.1:CDS
CAATTGAATAACAATGGTAA+GGG 0.574433 1:+70085038 MsaT004483.1:CDS
GCTAATTCTTCAACTGGTGA+AGG 0.577726 1:+70084528 MsaT004483.1:CDS
AACACTGATGATTTAGATGG+TGG 0.578201 1:+70084768 MsaT004483.1:CDS
TTCACATCTGGTCAAGCACT+AGG 0.585148 1:+70085128 MsaT004483.1:CDS
TTGATGTTGCTTGGAAGCAA+AGG 0.585683 1:-70085336 None:intergenic
TTGTTGTTGTTCTTGTTCAG+GGG 0.589920 1:-70084412 None:intergenic
AATTCTTCAACTGGTGAAGG+AGG 0.595064 1:+70084531 MsaT004483.1:CDS
CACCAAGGGCTTGAAATGAA+GGG 0.598701 1:-70084902 None:intergenic
ACTTGCTCTATGGCCACCAA+GGG 0.599521 1:-70084916 None:intergenic
AGGCGACACCGCGCACCCGT+CGG 0.608219 1:+70085161 MsaT004483.1:CDS
AATGGTAAGGGAAATCTACA+TGG 0.611478 1:+70085050 MsaT004483.1:CDS
GCTGCTGCAGAAGTTCCGAC+GGG 0.617092 1:-70085176 None:intergenic
ATTGGCACAAGGACAAGCAA+AGG 0.628461 1:+70084731 MsaT004483.1:CDS
TGTTTGATTCTATTGGCACA+AGG 0.635084 1:+70084720 MsaT004483.1:CDS
GATCATCTTCAGGTGCAGGA+AGG 0.641044 1:-70085295 None:intergenic
GGTAAGGGAAATCTACATGG+TGG 0.669700 1:+70085053 MsaT004483.1:CDS
CATTGGTGTCAAAGAGAGTG+TGG 0.684820 1:-70085204 None:intergenic
ACATCTGGTCAAGCACTAGG+TGG 0.706303 1:+70085131 MsaT004483.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 70084402 70085457 70084402 ID=MsaG004483
Chr1 mRNA 70084402 70085457 70084402 ID=MsaT004483.1;Parent=MsaG004483
Chr1 exon 70084402 70085457 70084402 ID=MsaT004483.1.exon1;Parent=MsaT004483.1
Chr1 CDS 70084402 70085457 70084402 ID=cds.MsaT004483.1;Parent=MsaT004483.1
Gene Sequence

>MsaT004483.1

ATGGAACCTGCCCCTGAACAAGAACAACAACAAATCTCTTTAGCCTCTAGAGAAATCACCAATATAATCAAAGGCAAAAGAACCAAAAGGGTTAGGCCACAATCTCCTATACCTTTTTCCATCACTGCTAATTCTTCAACTGGTGAAGGAGGAGGAGGAGGAGGAGGAACAGGAGAAAGAGAAGATTGCAACAATGTTGATGATGTTAACAATAACACCATAATCATCACCAACAACAATAATACATCTCCAACAACTTCTTATGTAGAAGAAAAACAAGACAGTACTGTTATTGATGAAGAATATGATATGGCAAATTGTTTGATTCTATTGGCACAAGGACAAGCAAAGGAATCATCACCAAAGAACACTGATGATTTAGATGGTGGAATGATGAACTACACAAAATATAGCAGTAGAAAATTCATGGAAGCTGCTACTTTGGATTCTGGAAGAGCTGGTTTCTATGTTTATGAATGCAAAACATGCAACAGAACATTCCCTTCATTTCAAGCCCTTGGTGGCCATAGAGCAAGTCACAAGAAGCCAAAAGCTTTAGCAATTGCTCAAGAGAAAAAACACTTATATGATGATGAAGAGTTTCAATTCAAACCCAATCATAAATCAATTTCCCTTCAATTGAATAACAATGGTAAGGGAAATCTACATGGTGGAAGCAACAATAACAAGTCTAAGGTTCATGAGTGTTCCATTTGTGGTTCTGAATTCACATCTGGTCAAGCACTAGGTGGCCATATGAGGCGACACCGCGCACCCGTCGGAACTTCTGCAGCAGCCAACACCACACTCTCTTTGACACCAATGGCTTTGGAACCTGATGAAGATCATCCTAGAAAGAAAAGGAATGTTTTGTCTTTGAATTTGGATCTCAACCTTCCTGCACCTGAAGATGATCATAGAGAATCTAAGCTTGCCTTTGCTTCCAAGCAACATCAACAACAACAAAATGGCCAAAAACAACAACAGCAGCAACAACAAAAGCAACAGACAAGTCTTGTCTTCTCTGCACCAGCTTTGGTGGATTGTCATTACTGA
Protein sequence

>MsaT004483.1

MEPAPEQEQQQISLASREITNIIKGKRTKRVRPQSPIPFSITANSSTGEGGGGGGGTGEREDCNNVDDVNNNTIIITNNNNTSPTTSYVEEKQDSTVIDEEYDMANCLILLAQGQAKESSPKNTDDLDGGMMNYTKYSSRKFMEAATLDSGRAGFYVYECKTCNRTFPSFQALGGHRASHKKPKALAIAQEKKHLYDDEEFQFKPNHKSISLQLNNNGKGNLHGGSNNNKSKVHECSICGSEFTSGQALGGHMRRHRAPVGTSAAANTTLSLTPMALEPDEDHPRKKRNVLSLNLDLNLPAPEDDHRESKLAFASKQHQQQQNGQKQQQQQQQKQQTSLVFSAPALVDCHY*