AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044642

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044642 MtrunA17_Chr4g0054621 53.740 361 101 11 1 314 1 342 4.07e-108 318
MsaG044642 MtrunA17_Chr2g0307131 45.405 370 130 11 1 313 1 355 1.45e-85 261
MsaG044642 MtrunA17_Chr6g0468491 48.012 327 132 12 13 314 1 314 5.10e-82 250
MsaG044642 MtrunA17_Chr4g0054581 45.195 385 134 15 1 314 1 379 4.79e-78 243
MsaG044642 MtrunA17_Chr2g0307141 44.086 372 138 11 1 314 1 360 6.07e-77 239
MsaG044642 MtrunA17_Chr4g0033391 45.858 338 138 8 1 312 1 319 8.88e-77 238
MsaG044642 MtrunA17_Chr4g0033291 45.198 354 129 11 1 314 1 329 9.03e-73 227
MsaG044642 MtrunA17_Chr4g0033281 43.768 345 142 9 1 313 1 325 1.28e-68 217
MsaG044642 MtrunA17_Chr6g0468461 44.179 335 117 16 1 289 1 311 1.13e-60 197
MsaG044642 MtrunA17_Chr5g0400621 42.532 308 158 7 15 313 36 333 3.59e-57 187
MsaG044642 MtrunA17_Chr7g0225901 48.649 222 98 6 72 289 31 240 4.06e-57 185
MsaG044642 MtrunA17_Chr5g0400641 55.128 156 65 2 144 295 2 156 3.02e-49 161
MsaG044642 MtrunA17_Chr5g0400661 32.258 310 164 8 35 306 30 331 4.25e-41 145
MsaG044642 MtrunA17_Chr2g0280161 38.537 205 122 2 112 312 149 353 8.53e-39 140
MsaG044642 MtrunA17_Chr4g0002801 36.614 254 129 5 77 310 90 331 8.94e-39 139
MsaG044642 MtrunA17_Chr4g0054561 38.767 227 128 4 87 304 96 320 2.00e-38 138
MsaG044642 MtrunA17_Chr4g0054551 37.445 227 131 4 87 304 96 320 9.25e-38 137
MsaG044642 MtrunA17_Chr2g0333641 37.447 235 129 7 85 304 71 302 1.31e-35 130
MsaG044642 MtrunA17_Chr4g0049331 39.011 182 108 1 126 304 121 302 7.21e-35 129
MsaG044642 MtrunA17_Chr4g0002781 35.433 254 136 6 77 310 105 350 1.58e-34 129
MsaG044642 MtrunA17_Chr5g0400671 32.787 244 141 4 84 304 75 318 2.08e-33 125
MsaG044642 MtrunA17_Chr2g0333621 37.186 199 115 3 122 313 120 315 1.20e-32 122
MsaG044642 MtrunA17_Chr4g0054571 33.091 275 158 5 60 311 60 331 1.42e-32 123
MsaG044642 MtrunA17_Chr2g0333611 32.328 232 123 5 93 311 7 217 1.52e-31 117
MsaG044642 MtrunA17_Chr8g0336681 32.906 234 142 4 91 309 102 335 2.18e-31 120
MsaG044642 MtrunA17_Chr7g0249811 33.690 187 116 2 119 305 146 324 8.72e-26 104
MsaG044642 MtrunA17_Chr2g0333541 35.577 208 118 5 108 308 69 267 3.50e-23 96.7
MsaG044642 MtrunA17_Chr7g0233441 36.552 145 77 3 166 306 60 193 1.94e-19 84.7
MsaG044642 MtrunA17_Chr4g0002831 34.568 162 89 5 150 306 52 201 9.55e-19 82.8
MsaG044642 MtrunA17_Chr4g0002851 34.302 172 96 5 136 306 38 193 1.20e-18 82.4
MsaG044642 MtrunA17_Chr8g0366751 32.386 176 102 4 120 281 445 617 6.14e-15 75.5
MsaG044642 MtrunA17_Chr8g0346161 31.250 192 111 8 110 283 255 443 4.32e-14 72.4
MsaG044642 MtrunA17_Chr7g0275821 30.769 156 101 2 136 290 248 397 2.17e-13 70.5
MsaG044642 MtrunA17_Chr5g0411341 29.730 185 82 7 120 271 476 645 4.45e-13 69.7
MsaG044642 MtrunA17_Chr8g0346151 31.285 179 102 8 123 283 260 435 2.74e-12 67.0
MsaG044642 MtrunA17_Chr1g0185621 29.861 144 86 3 140 270 475 616 9.67e-12 65.9
MsaG044642 MtrunA17_Chr7g0260841 37.778 90 49 2 111 195 323 410 3.05e-11 63.9
MsaG044642 MtrunA17_Chr8g0365711 24.138 261 157 6 75 310 167 411 8.07e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044642 AT2G22760.1 40.306 196 105 5 120 306 100 292 1.46e-35 130
MsaG044642 AT4G37850.2 37.811 201 114 4 110 304 125 320 1.00e-33 126
MsaG044642 AT4G37850.1 37.811 201 114 4 110 304 125 320 1.00e-33 126
MsaG044642 AT2G22760.2 41.573 178 93 4 120 289 100 274 1.28e-32 122
MsaG044642 AT2G22750.3 37.864 206 114 4 108 304 125 325 1.30e-30 118
MsaG044642 AT2G22750.5 37.864 206 114 4 108 304 121 321 1.47e-30 118
MsaG044642 AT2G22750.2 37.864 206 114 4 108 304 97 297 1.54e-30 117
MsaG044642 AT2G22750.1 37.864 206 113 5 108 304 97 296 2.20e-29 114
MsaG044642 AT2G22750.4 37.864 206 113 5 108 304 125 324 2.37e-29 114
MsaG044642 AT2G22770.1 32.099 243 132 7 90 306 81 316 7.34e-29 113
MsaG044642 AT5G46760.1 29.293 198 113 7 120 293 398 592 8.86e-15 75.1
MsaG044642 AT1G01260.1 27.568 185 108 5 120 304 416 574 2.92e-14 73.6
MsaG044642 AT1G01260.2 27.568 185 108 5 120 304 416 574 2.92e-14 73.6
MsaG044642 AT1G01260.3 27.568 185 108 5 120 304 416 574 2.92e-14 73.6
MsaG044642 AT4G17880.1 32.716 162 96 4 120 271 399 557 3.11e-14 73.6
MsaG044642 AT2G46510.1 42.222 90 47 2 120 209 378 462 1.29e-13 71.6
MsaG044642 AT1G32640.1 30.857 175 83 7 120 271 435 594 1.53e-12 68.6
MsaG044642 AT4G16430.1 34.091 132 80 3 75 204 258 384 1.78e-11 65.1

Find 55 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGAAATCCATTATGATTT+TGG 0.102337 8:+63057523 None:intergenic
ACGCTGATAACCCATAAAAT+TGG 0.197823 8:+63072480 None:intergenic
GATGGACAAGACTTCAATAT+TGG 0.295753 8:-63057760 MsaT044642.1:CDS
CCATAAAATTGGGTTGGGTT+TGG 0.308294 8:+63072491 None:intergenic
CAAAGAATTTAAAGAGCGTT+TGG 0.344136 8:-63057718 MsaT044642.1:CDS
TGTCGTCAATAACAATGTTA+TGG 0.377578 8:-63057463 MsaT044642.1:CDS
ATGCATCCATGTGTAGGTTC+TGG 0.379249 8:+63043825 None:intergenic
ATCCAATGCCAAAATCATAA+TGG 0.388524 8:-63057531 MsaT044642.1:CDS
ATAGTACGTATACCTTCATT+AGG 0.395666 8:+63072285 None:intergenic
ATAACAATGTTATGGCCCTT+GGG 0.410525 8:-63057455 MsaT044642.1:CDS
CGCTGATAACCCATAAAATT+GGG 0.416638 8:+63072481 None:intergenic
GGTCTGTGTCTGTTCCTCTA+AGG 0.419045 8:+63072676 None:intergenic
ATAACCCATAAAATTGGGTT+GGG 0.425291 8:+63072486 None:intergenic
AATAACAATGTTATGGCCCT+TGG 0.435181 8:-63057456 MsaT044642.1:CDS
TCAGCGTCATTGCCAGAGTT+AGG 0.436685 8:-63072464 MsaT044642.1:CDS
AAATTTGTGTTTCCTAACTC+TGG 0.446748 8:+63072452 None:intergenic
TACTCTTAGCAAGGAAGAAA+CGG 0.451484 8:-63072618 MsaT044642.1:CDS
CTGGAAAACATATCTTGATT+CGG 0.463404 8:-63057554 MsaT044642.1:CDS
ACGTATACCTTCATTAGGTT+AGG 0.467063 8:+63072290 None:intergenic
AACGTGGAAGCAAAAGTGTC+TGG 0.469222 8:-63057573 MsaT044642.1:CDS
CTGCAAGAGCAATGAAGCAT+TGG 0.472965 8:+63072321 None:intergenic
ATCCTTTACCTCAGCAATGA+TGG 0.474722 8:+63057413 None:intergenic
TCAGTTTCACAACAGAGGTC+TGG 0.484300 8:+63057633 None:intergenic
TCAAGCTCAAGATAATGTTA+AGG 0.497492 8:-63072372 MsaT044642.1:CDS
TATTAATTTGCAGGAAATGG+TGG 0.500169 8:-63072762 MsaT044642.1:intron
GATAACCCATAAAATTGGGT+TGG 0.506362 8:+63072485 None:intergenic
TGCAAGAGCAATGAAGCATT+GGG 0.511292 8:+63072322 None:intergenic
TTCTTCCTTGCTAAGAGTAG+AGG 0.512428 8:+63072622 None:intergenic
GTTCTGGACTAGTTCCTCTA+TGG 0.512442 8:+63043841 None:intergenic
GTCAAAAGACATAATTTGAA+AGG 0.514398 8:+63072517 None:intergenic
TTCCACGTTGATGAGTGATT+CGG 0.527891 8:+63057587 None:intergenic
TCTCCTTCCTAACCTAATGA+AGG 0.556220 8:-63072297 MsaT044642.1:intron
CACTTTCAGTTTCACAACAG+AGG 0.563363 8:+63057628 None:intergenic
CATTTCCTCTACTCTTAGCA+AGG 0.565542 8:-63072627 MsaT044642.1:CDS
ATTATTGTACAGATTGGTGA+AGG 0.571081 8:-63043875 MsaT044642.1:intron
TAACAATGTTATGGCCCTTG+GGG 0.572849 8:-63057454 MsaT044642.1:CDS
CACGTTGATGAGTGATTCGG+TGG 0.575405 8:+63057590 None:intergenic
ATACCTTCATTAGGTTAGGA+AGG 0.585833 8:+63072294 None:intergenic
CTGAGTCAAACATTGTTGCA+TGG 0.587333 8:+63072655 None:intergenic
AGAAGAGGGGAAGAAATCAA+AGG 0.590831 8:-63057685 MsaT044642.1:CDS
CACAATCTGTGTCATGTGAA+AGG 0.591624 8:+63072705 None:intergenic
ACTTCAATGCATCCATGTGT+AGG 0.605816 8:+63043819 None:intergenic
AAAAGACATAATTTGAAAGG+AGG 0.613846 8:+63072520 None:intergenic
CATGCAACAATGTTTGACTC+AGG 0.621521 8:-63072654 MsaT044642.1:CDS
ATCAAAGGAAGATCAGTCGA+TGG 0.644964 8:-63057670 MsaT044642.1:CDS
TGTCGACGATAGAATCCCCA+AGG 0.650856 8:+63057439 None:intergenic
CGACATTACCATCATTGCTG+AGG 0.653958 8:-63057421 MsaT044642.1:intron
TGATAATACGTTCATTGATG+TGG 0.661127 8:+63072993 None:intergenic
AAAGGAAGATCAGTCGATGG+TGG 0.662321 8:-63057667 MsaT044642.1:CDS
AGGCTACAACTTGACCATAG+AGG 0.669663 8:-63043855 MsaT044642.1:CDS
ATACAACTTATTTGACGAGG+AGG 0.673794 8:-63072735 MsaT044642.1:CDS
TGAATACAACTTATTTGACG+AGG 0.701979 8:-63072738 MsaT044642.1:CDS
ACTAGTCCAGAACCTACACA+TGG 0.706074 8:-63043831 MsaT044642.1:CDS
GTCGACGATAGAATCCCCAA+GGG 0.728713 8:+63057440 None:intergenic
CACCGAATCACTCATCAACG+TGG 0.739553 8:-63057589 MsaT044642.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 63043805 63073031 63043805 ID=MsaG044642
Chr8 mRNA 63043805 63073031 63043805 ID=MsaT044642.1;Parent=MsaG044642
Chr8 exon 63043805 63043885 63043805 ID=MsaT044642.1.exon4;Parent=MsaT044642.1
Chr8 CDS 63043805 63043885 63043805 ID=cds.MsaT044642.1;Parent=MsaT044642.1
Chr8 exon 63057422 63057781 63057422 ID=MsaT044642.1.exon3;Parent=MsaT044642.1
Chr8 CDS 63057422 63057781 63057422 ID=cds.MsaT044642.1;Parent=MsaT044642.1
Chr8 exon 63072298 63072771 63072298 ID=MsaT044642.1.exon2;Parent=MsaT044642.1
Chr8 CDS 63072298 63072771 63072298 ID=cds.MsaT044642.1;Parent=MsaT044642.1
Chr8 exon 63073002 63073031 63073002 ID=MsaT044642.1.exon1;Parent=MsaT044642.1
Chr8 CDS 63073002 63073031 63073002 ID=cds.MsaT044642.1;Parent=MsaT044642.1
Gene Sequence

>MsaT044642.1

ATGGAGGAAATCAATACCACATCAATGAACGAAATGGTGGATGAATACAACTTATTTGACGAGGAGGATAAGTTCCTTTCACATGACACAGATTGTGCATTTTCCTTAGAGGAACAGACACAGACCATGCAACAATGTTTGACTCAGGAATGCATTTCCTCTACTCTTAGCAAGGAAGAAACGGATTTTGATCGGTGTTCTGAGCTCGACAACATTGCACAAAACTTTTCACAAAAATATTATGGATCTTCATCATCGTCCTCCTTTCAAATTATGTCTTTTGACAATCCAAACCCAACCCAATTTTATGGGTTATCAGCGTCATTGCCAGAGTTAGGAAACACAAATTTTTCAACTCGAACCTCAAAAAGATCTTCAAAAAAATCAAAAGCAAAGAGGTCTCTCGATCAAGCTCAAGATAATGTTAAGGCTGAGAGAAAGAGAAGAGAGAAACTCACCCAATGCTTCATTGCTCTTGCAGCTCTCCTTCCTAACCTAATGAAGATGGACAAGACTTCAATATTGGAAGATACGATCAAATGCATCAAAGAATTTAAAGAGCGTTTGGCAATTTTAGAAGAAGAGGGGAAGAAATCAAAGGAAGATCAGTCGATGGTGGTTTCGAATAAACCAGACCTCTGTTGTGAAACTGAAAGTGTTGCTGATGAAACTGCCACCGAATCACTCATCAACGTGGAAGCAAAAGTGTCTGGAAAACATATCTTGATTCGGATCCAATGCCAAAATCATAATGGATTTCTTGTTAAAATTGTCATTGAGATTCAAAATTATCAACTATTTGTCGTCAATAACAATGTTATGGCCCTTGGGGATTCTATCGTCGACATTACCATCATTGCTGAGATTGGTGAAGGCTACAACTTGACCATAGAGGAACTAGTCCAGAACCTACACATGGATGCATTGAAGTTTATGTCATCATAA
Protein sequence

>MsaT044642.1

MEEINTTSMNEMVDEYNLFDEEDKFLSHDTDCAFSLEEQTQTMQQCLTQECISSTLSKEETDFDRCSELDNIAQNFSQKYYGSSSSSSFQIMSFDNPNPTQFYGLSASLPELGNTNFSTRTSKRSSKKSKAKRSLDQAQDNVKAERKRREKLTQCFIALAALLPNLMKMDKTSILEDTIKCIKEFKERLAILEEEGKKSKEDQSMVVSNKPDLCCETESVADETATESLINVEAKVSGKHILIRIQCQNHNGFLVKIVIEIQNYQLFVVNNNVMALGDSIVDITIIAEIGEGYNLTIEELVQNLHMDALKFMSS*