AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045271

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045271 MtrunA17_Chr4g0061301 95.753 518 13 4 1 511 1 516 0.0 1005
MsaG045271 MtrunA17_Chr3g0086331 38.095 441 189 16 1 395 27 429 1.63e-60 207
MsaG045271 MtrunA17_Chr3g0086331 33.333 159 66 4 386 512 341 491 1.42e-16 82.4
MsaG045271 MtrunA17_Chr7g0231181 37.278 169 63 4 329 492 218 348 5.03e-25 106
MsaG045271 MtrunA17_Chr4g0012791 38.889 162 74 5 343 483 224 381 7.79e-25 107
MsaG045271 MtrunA17_Chr4g0012791 30.928 194 106 6 4 195 6 173 1.14e-14 76.3
MsaG045271 MtrunA17_Chr4g0012691 39.355 155 53 6 343 482 217 345 6.60e-22 97.4
MsaG045271 MtrunA17_Chr5g0448611 46.903 113 47 5 345 452 129 233 2.36e-19 88.2
MsaG045271 MtrunA17_Chr5g0425411 45.045 111 36 5 345 452 118 206 6.25e-18 83.6
MsaG045271 MtrunA17_Chr1g0197281 35.897 156 77 7 346 485 156 304 1.74e-15 78.2
MsaG045271 MtrunA17_Chr4g0027991 38.462 156 77 4 346 485 113 265 7.35e-15 75.5
MsaG045271 MtrunA17_Chr1g0152661 40.000 145 52 7 346 484 81 196 9.53e-15 73.9
MsaG045271 MtrunA17_Chr2g0320311 28.879 232 123 8 292 489 62 285 2.85e-14 73.6
MsaG045271 MtrunA17_Chr1g0180311 32.474 194 99 7 328 496 94 280 6.63e-13 69.3
MsaG045271 MtrunA17_Chr4g0043071 50.000 58 27 1 430 485 441 498 1.26e-12 70.1
MsaG045271 MtrunA17_Chr3g0134711 34.722 144 56 5 347 481 87 201 1.78e-12 67.4
MsaG045271 MtrunA17_Chr1g0207451 41.509 106 26 4 347 452 84 153 2.50e-12 67.0
MsaG045271 MtrunA17_Chr4g0056091 36.923 130 55 5 384 488 181 308 3.44e-12 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045271 AT2G45120.1 45.665 173 51 8 323 489 173 308 2.67e-30 120
MsaG045271 AT3G60580.1 42.484 153 50 6 337 486 164 281 1.01e-24 104
MsaG045271 AT4G35280.1 39.865 148 49 4 345 489 161 271 1.54e-21 95.1
MsaG045271 AT1G02030.1 43.151 146 42 4 342 486 155 260 1.61e-21 94.7
MsaG045271 AT1G26590.4 28.321 399 193 14 1 368 1 337 1.81e-18 87.4
MsaG045271 AT1G26590.3 28.321 399 193 14 1 368 1 337 1.81e-18 87.4
MsaG045271 AT1G26590.1 28.321 399 193 14 1 368 1 337 1.81e-18 87.4
MsaG045271 AT1G26590.2 28.070 399 194 14 1 368 19 355 2.66e-18 87.4
MsaG045271 AT2G17180.1 39.583 144 54 6 345 487 147 258 5.97e-18 84.3
MsaG045271 AT1G02040.1 38.514 148 76 4 346 487 150 288 7.41e-17 82.0
MsaG045271 AT2G28200.1 38.994 159 61 6 346 481 115 260 1.61e-15 77.4
MsaG045271 AT1G26610.1 55.385 65 27 2 422 485 392 455 6.65e-15 77.4
MsaG045271 AT5G03510.1 36.420 162 67 7 344 485 116 261 1.45e-14 74.7
MsaG045271 AT5G04390.1 43.119 109 50 5 346 452 153 251 9.90e-14 73.2
MsaG045271 AT3G19580.1 36.478 159 59 5 341 484 101 232 3.20e-13 70.5
MsaG045271 AT3G19580.2 36.478 159 59 5 341 484 101 232 3.20e-13 70.5
MsaG045271 AT5G67450.1 37.107 159 59 6 346 481 97 237 3.39e-13 70.1
MsaG045271 AT3G49930.1 34.559 136 53 4 346 481 94 193 2.48e-12 66.6
MsaG045271 AT5G56200.1 37.584 149 69 6 327 469 317 447 2.61e-12 69.3
MsaG045271 AT3G10470.1 37.383 107 62 2 346 452 182 283 1.99e-11 66.2

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTTCTCCATGTCTTCTT+TGG 0.075353 8:+70685540 None:intergenic
AGGGAAAAGTTTAGAGATTT+TGG 0.115530 8:-70684998 MsaT045271.1:CDS
CCCTTTGAACTTCAAATTCT+TGG 0.126081 8:+70685017 None:intergenic
CATTGAATATGTTCAAAATA+TGG 0.176266 8:-70684539 MsaT045271.1:CDS
TGAGTGTCCAATTTGCTTTA+AGG 0.196640 8:-70684473 MsaT045271.1:CDS
ATGCCCTTTAATCTTCTTCT+TGG 0.204703 8:+70684498 None:intergenic
TTTCCTTGTGGTAGATCTTT+AGG 0.228997 8:-70685705 MsaT045271.1:CDS
CTACAAGTGCCTCTTGATTA+TGG 0.245683 8:+70684254 None:intergenic
ATGAGCTTGCTTTCAGTTGT+TGG 0.246397 8:+70684577 None:intergenic
CACTCTTGGCAAGCTTTGTT+TGG 0.254693 8:-70685450 MsaT045271.1:CDS
TCTTTCTCCATGTCTTCTTT+GGG 0.291035 8:+70685541 None:intergenic
AAGATTCAGAAGTTGAAAAT+AGG 0.295282 8:-70684879 MsaT045271.1:CDS
AGAAAGAGTTTCTAACAGTT+TGG 0.300359 8:-70685403 MsaT045271.1:CDS
GATTCCAAGAAGAAGATTAA+AGG 0.330354 8:-70684502 MsaT045271.1:CDS
GAGAACAAGAAGTGCGAGTT+AGG 0.355844 8:-70685051 MsaT045271.1:CDS
ATGAAATCACTGCTCCAAAT+AGG 0.362876 8:-70685332 MsaT045271.1:CDS
GGAACAAGTTCCACAGATTA+GGG 0.363512 8:-70684368 MsaT045271.1:CDS
TTTCAATCTGGTCAAGCCTT+AGG 0.371292 8:-70684448 MsaT045271.1:CDS
TTTCATTCTTATCAAGCTCT+TGG 0.373280 8:-70684700 MsaT045271.1:CDS
AGGAACAAGTTCCACAGATT+AGG 0.383607 8:-70684369 MsaT045271.1:CDS
TATCAAAGTCAGCTACTATA+AGG 0.397815 8:-70684825 MsaT045271.1:CDS
ATTCCAAGAAGAAGATTAAA+GGG 0.409460 8:-70684501 MsaT045271.1:CDS
GGATTCAAGATGATCAAAAC+TGG 0.409796 8:-70684964 MsaT045271.1:CDS
ATTGAATATGTTCAAAATAT+GGG 0.416959 8:-70684538 MsaT045271.1:CDS
CCAAGAATTTGAAGTTCAAA+GGG 0.426487 8:-70685017 MsaT045271.1:CDS
GTTTGGAGGATCAAGATTCA+TGG 0.428070 8:-70685386 MsaT045271.1:CDS
TCCAAGAATTTGAAGTTCAA+AGG 0.432409 8:-70685018 MsaT045271.1:CDS
CATAATCAAGAGGCACTTGT+AGG 0.439216 8:-70684253 MsaT045271.1:CDS
AAACTGGAGTTTGCATCAAA+GGG 0.452059 8:-70684948 MsaT045271.1:CDS
AGCTTCTTCTTCTGTTTCTG+AGG 0.456439 8:-70685256 MsaT045271.1:CDS
AAAACTGGAGTTTGCATCAA+AGG 0.462834 8:-70684949 MsaT045271.1:CDS
GGTTCTGAAGCTGCAACTAA+TGG 0.470954 8:-70685585 MsaT045271.1:CDS
CTTTCTTCCTCAGTAGCAGC+AGG 0.478387 8:+70684325 None:intergenic
TGGACATAAAAGATCTCATA+TGG 0.479948 8:-70684425 MsaT045271.1:CDS
AATAGGAAAAGCAGAGTCAA+TGG 0.482090 8:-70684862 MsaT045271.1:CDS
CATTCTTATCAAGCTCTTGG+AGG 0.487098 8:-70684697 MsaT045271.1:CDS
AAGAGTTTCTAACAGTTTGG+AGG 0.513244 8:-70685400 MsaT045271.1:CDS
AGATCTCATATGGTTGCTGC+TGG 0.517678 8:-70684415 MsaT045271.1:CDS
AGACCTTGGTGGATAGTTGA+AGG 0.528869 8:-70684280 MsaT045271.1:CDS
TAATCTTCCTGCTGCTACTG+AGG 0.529053 8:-70684332 MsaT045271.1:CDS
GCTTGATTATCTGTCTACAT+TGG 0.549776 8:-70684902 MsaT045271.1:CDS
TTAGTAGAGATGTTAGTCCT+TGG 0.555862 8:-70685191 MsaT045271.1:CDS
GACAAATTCTGCAAAGAGTG+TGG 0.556631 8:-70685483 MsaT045271.1:CDS
CTGATTCTAACAGACCTTGG+TGG 0.557324 8:-70684291 MsaT045271.1:CDS
CAATCTGGTCAAGCCTTAGG+TGG 0.558498 8:-70684445 MsaT045271.1:CDS
GCTGCAACTAATGGTAGCTA+TGG 0.563432 8:-70685576 MsaT045271.1:CDS
GAGAGAACCCAAAGAAGACA+TGG 0.571762 8:-70685548 MsaT045271.1:CDS
CCTTGTGGTAGATCTTTAGG+AGG 0.573424 8:-70685702 MsaT045271.1:CDS
GTAAACAGAATTATTATCAG+AGG 0.576383 8:+70685140 None:intergenic
CAAGAGGCACTTGTAGGGTA+CGG 0.590543 8:-70684247 MsaT045271.1:CDS
ATGCTGATTCTAACAGACCT+TGG 0.596589 8:-70684294 MsaT045271.1:CDS
TCAAGAAAGTCCCTAATCTG+TGG 0.600941 8:+70684358 None:intergenic
ATAATCAAGAGGCACTTGTA+GGG 0.602596 8:-70684252 MsaT045271.1:CDS
TGAGAGTAGAGTTGTACTTG+AGG 0.630352 8:-70684389 MsaT045271.1:CDS
AGATAATGAAGACCACTCCA+AGG 0.644754 8:+70685174 None:intergenic
TCATGATCATGATCATGATG+AGG 0.648539 8:+70684787 None:intergenic
GATCTTTAGGAGGTCACATG+AGG 0.656622 8:-70685692 MsaT045271.1:CDS
TGAAGGCAACCATAATCAAG+AGG 0.657701 8:-70684263 MsaT045271.1:CDS
CCTCCTAAAGATCTACCACA+AGG 0.657873 8:+70685702 None:intergenic
AACAAGAACAAGGTACAACA+TGG 0.663025 8:-70685292 MsaT045271.1:CDS
AGAGATGTTAGTCCTTGGAG+TGG 0.673173 8:-70685186 MsaT045271.1:CDS
GATCAAAGAGAACAAGAACA+AGG 0.701444 8:-70685302 MsaT045271.1:CDS
TGTAGCAAAAGCTTTCCTTG+TGG 0.721402 8:-70685717 MsaT045271.1:CDS
TTGCCTTCAACTATCCACCA+AGG 0.733273 8:+70684277 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 70684231 70685784 70684231 ID=MsaG045271
Chr8 mRNA 70684231 70685784 70684231 ID=MsaT045271.1;Parent=MsaG045271
Chr8 exon 70684231 70685784 70684231 ID=MsaT045271.1.exon1;Parent=MsaT045271.1
Chr8 CDS 70684231 70685784 70684231 ID=cds.MsaT045271.1;Parent=MsaT045271.1
Gene Sequence

>MsaT045271.1

ATGGAAGAAGATCAAATTCAAGAATTCAAACATGCTTGCAAATTCTGTAGCAAAAGCTTTCCTTGTGGTAGATCTTTAGGAGGTCACATGAGGTCTCATATCAACAATTTATCAGCTGAAAAAACAGAACACAAAGAAAAGCAGCTTATATCTTCAACAAAAAAGAATGATAGCATTGGTTCTGAAGCTGCAACTAATGGTAGCTATGGTCTAAGAGAGAACCCAAAGAAGACATGGAGAAAGAGAATTGCAGATTCAAGTGAAGACAGTTATGTGTATGACAAATTCTGCAAAGAGTGTGGAAAATGTTTTCACTCTTGGCAAGCTTTGTTTGGTCACATGAAGTGTCATTCAGAGAAAGAAAGAGTTTCTAACAGTTTGGAGGATCAAGATTCATGGACTAATAATGCTAAAGATGATCAATCAGACAATGAAATCACTGCTCCAAATAGGAAGAAAAGATCAAAGAGAACAAGAACAAGGTACAACATGGTAGCAGCTGCAACAGCTTCTTCTTCTGTTTCTGAGGTTGAACATGAGCAAGAAGAAGTTGCTATGAGCTTGATTATGCTTAGTAGAGATGTTAGTCCTTGGAGTGGTCTTCATTATCTTGCTGCTGAATCCTCTGATAATAATTCTGTTTACTTTGAAGCTCGATCTTCAGTTCGAACTAATCTTGTTACTAAATTTGATGCTAATATGAAGCAAAGTGAGAACAAGAAGTGCGAGTTAGGCAATTCTGTTTCCAAGAATTTGAAGTTCAAAGGGAAAAGTTTAGAGATTTTGGATGCTGAAAAAGGATTCAAGATGATCAAAACTGGAGTTTGCATCAAAGGGTTTCTCAAATCCACAAAATCTGAGCTTGATTATCTGTCTACATTGGAAGATTCAGAAGTTGAAAATAGGAAAAGCAGAGTCAATGGAACAGAATCAGTTCTATCAAAGTCAGCTACTATAAGGAGTTCTGTGAACAAGCCTCATCATGATCATGATCATGAAGATGAATTTATCAAGAATTTTAATAAGAGAGGAAAGTTTGAGTGTACTACTTGTAACAAAATCTTTCATTCTTATCAAGCTCTTGGAGGTCATAGAGCTAGTCATAAAAAGAACAAAGGGTGTTTTGCTTCTAAGATTGAGAGCAGTGAAAACAGCATTGAATTTGAAACTGATCTCTCTCATGAACCAACAACTGAAAGCAAGCTCATGAAGATAAGTGATAACATTGAATATGTTCAAAATATGGGAGAAACAGTTAGAGATTCCAAGAAGAAGATTAAAGGGCATCATGAGTGTCCAATTTGCTTTAAGGTTTTTCAATCTGGTCAAGCCTTAGGTGGACATAAAAGATCTCATATGGTTGCTGCTGGTTCTGAGAGTAGAGTTGTACTTGAGGAACAAGTTCCACAGATTAGGGACTTTCTTGATCTTAATCTTCCTGCTGCTACTGAGGAAGAAAGTAATAGTCATGCTGATTCTAACAGACCTTGGTGGATAGTTGAAGGCAACCATAATCAAGAGGCACTTGTAGGGTACGGACTCATATCTAGCTAA
Protein sequence

>MsaT045271.1

MEEDQIQEFKHACKFCSKSFPCGRSLGGHMRSHINNLSAEKTEHKEKQLISSTKKNDSIGSEAATNGSYGLRENPKKTWRKRIADSSEDSYVYDKFCKECGKCFHSWQALFGHMKCHSEKERVSNSLEDQDSWTNNAKDDQSDNEITAPNRKKRSKRTRTRYNMVAAATASSSVSEVEHEQEEVAMSLIMLSRDVSPWSGLHYLAAESSDNNSVYFEARSSVRTNLVTKFDANMKQSENKKCELGNSVSKNLKFKGKSLEILDAEKGFKMIKTGVCIKGFLKSTKSELDYLSTLEDSEVENRKSRVNGTESVLSKSATIRSSVNKPHHDHDHEDEFIKNFNKRGKFECTTCNKIFHSYQALGGHRASHKKNKGCFASKIESSENSIEFETDLSHEPTTESKLMKISDNIEYVQNMGETVRDSKKKIKGHHECPICFKVFQSGQALGGHKRSHMVAAGSESRVVLEEQVPQIRDFLDLNLPAATEEESNSHADSNRPWWIVEGNHNQEALVGYGLISS*