AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044340

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044340 MtrunA17_Chr8g0373331 76.296 405 37 3 1 401 1 350 0.0 602
MsaG044340 MtrunA17_Chr8g0373001 71.744 407 105 5 1 399 1 405 0.0 575
MsaG044340 MtrunA17_Chr8g0373361 66.585 410 121 7 1 404 11 410 2.03e-179 505
MsaG044340 MtrunA17_Chr5g0404321 60.341 411 149 7 1 399 1 409 1.41e-171 486
MsaG044340 MtrunA17_Chr1g0155301 46.479 426 190 10 1 399 1 415 4.84e-119 352
MsaG044340 MtrunA17_Chr2g0278511 43.294 425 210 13 1 399 1 420 1.00e-103 313
MsaG044340 MtrunA17_Chr2g0286441 45.879 364 179 7 45 399 32 386 8.51e-101 305
MsaG044340 MtrunA17_Chr1g0201891 42.361 432 208 15 1 399 1 424 1.22e-99 303
MsaG044340 MtrunA17_Chr8g0373351 48.000 375 90 10 36 397 3 285 1.32e-92 280
MsaG044340 MtrunA17_Chr1g0196071 40.678 413 213 10 1 399 1 395 4.92e-92 283
MsaG044340 MtrunA17_Chr2g0315641 43.646 362 165 7 45 399 35 364 3.73e-90 276
MsaG044340 MtrunA17_Chr8g0373341 47.487 398 129 11 1 396 1 320 4.69e-90 275
MsaG044340 MtrunA17_Chr2g0315651 40.970 371 173 11 40 399 25 360 6.13e-72 229
MsaG044340 MtrunA17_Chr1g0156151 47.196 214 102 4 1 205 1 212 9.90e-55 180
MsaG044340 MtrunA17_Chr3g0091401 46.739 92 47 1 96 187 10 99 2.54e-18 80.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044340 AT2G18280.2 50.490 408 171 11 1 399 1 386 1.66e-124 365
MsaG044340 AT2G18280.1 50.490 408 171 11 1 399 1 386 1.66e-124 365
MsaG044340 AT2G47900.2 43.826 413 204 10 1 399 1 399 2.85e-104 314
MsaG044340 AT2G47900.1 43.826 413 204 10 1 399 1 399 2.85e-104 314
MsaG044340 AT2G47900.3 43.720 414 204 10 1 399 1 400 6.21e-104 313
MsaG044340 AT1G47270.3 43.885 417 180 13 1 399 1 381 7.83e-101 305
MsaG044340 AT1G47270.1 44.096 415 178 13 1 397 26 404 1.56e-100 305
MsaG044340 AT1G47270.2 44.096 415 178 13 1 397 25 403 1.88e-100 305
MsaG044340 AT1G25280.1 43.814 388 180 10 47 399 54 438 3.19e-96 295
MsaG044340 AT1G76900.2 40.766 444 206 14 1 399 17 448 2.42e-94 291
MsaG044340 AT1G76900.1 40.766 444 206 14 1 399 17 448 2.42e-94 291
MsaG044340 AT1G76900.3 40.766 444 206 14 1 399 17 448 2.42e-94 291
MsaG044340 AT1G43640.1 40.460 435 206 17 1 397 1 420 7.48e-91 281
MsaG044340 AT1G53320.1 44.413 358 160 7 52 399 44 372 7.73e-90 276
MsaG044340 AT5G18680.1 42.192 365 181 10 48 399 35 382 6.61e-83 259
MsaG044340 AT1G43640.2 41.758 364 172 13 64 397 1 354 1.06e-82 258
MsaG044340 AT3G06380.1 43.137 357 178 10 52 399 33 373 2.84e-82 257
MsaG044340 AT5G18680.2 41.196 301 148 9 111 399 7 290 1.11e-60 199
MsaG044340 AT3G06380.2 40.956 293 149 9 115 399 5 281 1.28e-57 190
MsaG044340 AT1G25280.3 39.313 262 128 10 167 399 1 260 3.03e-45 157
MsaG044340 AT1G25280.2 39.313 262 128 10 167 399 1 260 3.03e-45 157
MsaG044340 AT1G61940.2 56.180 89 39 0 55 143 1 89 9.68e-29 113
MsaG044340 AT1G61940.1 51.351 74 33 1 55 128 1 71 8.60e-17 79.7

Find 96 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCCTACTTGGTCGAAAATT+TGG 0.160953 8:+58790881 None:intergenic
ATTACCTGCTTCAATGAAAT+AGG 0.248006 8:+58792307 None:intergenic
GTTCTACCGGAGAAACATTA+TGG 0.250734 8:+58790435 None:intergenic
ATCTGATACAATGCTTTATT+AGG 0.257864 8:-58792182 MsaT044340.1:CDS
TCTACCACCTGAATTGCTTT+TGG 0.262620 8:-58792473 MsaT044340.1:CDS
ATGATGCAGTACATTCTTCT+TGG 0.288249 8:+58790770 None:intergenic
TAACATTGTTACCACTATTC+AGG 0.289550 8:-58790741 MsaT044340.1:CDS
TATGGCAGGTCTGATTTCTT+TGG 0.289591 8:-58790956 MsaT044340.1:intron
ATTCCTGCTGTACTTAGGTT+TGG 0.322750 8:-58792139 MsaT044340.1:CDS
TGCCCACTGTCCCTGTTGAA+TGG 0.329076 8:+58792498 None:intergenic
CTACATGCTCGAACTCTTCT+TGG 0.336761 8:+58790836 None:intergenic
GTGTTGGTGTTTAGACTTCA+TGG 0.351367 8:-58790519 MsaT044340.1:CDS
TTTACCAACATATTTGTTGC+TGG 0.356694 8:+58791078 None:intergenic
CCCTGTTGAATGGGTTCAAT+TGG 0.359494 8:+58792508 None:intergenic
ATTACATCCAAAAGCAATTC+AGG 0.366022 8:+58792466 None:intergenic
GCCCACTGTCCCTGTTGAAT+GGG 0.376767 8:+58792499 None:intergenic
TCCAATTGAACCCATTCAAC+AGG 0.387257 8:-58792509 MsaT044340.1:CDS
GGTGCTGGTGAAGGAGAAAA+AGG 0.398092 8:+58790668 None:intergenic
GAAAGGGTAGTCTTGCAGTT+TGG 0.405279 8:-58790410 MsaT044340.1:CDS
GCAGAGTATGAATTTGTCAT+TGG 0.417833 8:+58790632 None:intergenic
TTCTCCTTCACCAGCACCTA+AGG 0.417934 8:-58790663 MsaT044340.1:CDS
ACAAATATGTTGGTAAAGTC+AGG 0.442655 8:-58791072 MsaT044340.1:intron
TCTACATTCCTGCTGTACTT+AGG 0.445236 8:-58792144 MsaT044340.1:CDS
CAGACAACAATGGCACGGGC+AGG 0.450413 8:+58792412 None:intergenic
GCATGCCCATCAGAGCTACT+AGG 0.452217 8:-58790611 MsaT044340.1:CDS
CATTGTTGTCTGTTGTGCTT+CGG 0.457188 8:-58792401 MsaT044340.1:CDS
CTCAGTCCTAGTAGCTCTGA+TGG 0.460252 8:+58790605 None:intergenic
ATTTCCTATTTCATTGAAGC+AGG 0.465510 8:-58792311 MsaT044340.1:intron
TTCTACCGGAGAAACATTAT+GGG 0.481885 8:+58790436 None:intergenic
TTGAAGAGAGTGAGACATCT+TGG 0.483464 8:-58792435 MsaT044340.1:CDS
TCAAGCAGATGGCGAAGGCT+TGG 0.484081 8:+58790333 None:intergenic
TCAAAAGCAAGGATTGCATA+AGG 0.485337 8:-58790556 MsaT044340.1:CDS
TATCAGATAATCACTGGGAC+CGG 0.491936 8:+58792197 None:intergenic
ACTGTCGTATATAGTGAAAT+CGG 0.492029 8:+58790931 None:intergenic
TAGGTAACAATGTTGGAGAC+GGG 0.492846 8:+58790705 None:intergenic
GTCCGATCTTGTCATATCCT+TGG 0.492960 8:-58791122 MsaT044340.1:CDS
GTCTTGCAGTTTGGAAAGAT+CGG 0.499553 8:-58790401 MsaT044340.1:CDS
CACAACAGACAACAATGGCA+CGG 0.500310 8:+58792407 None:intergenic
TCCATCCCATAATGTTTCTC+CGG 0.504105 8:-58790441 MsaT044340.1:CDS
GCATTGTATCAGATAATCAC+TGG 0.505327 8:+58792191 None:intergenic
CAAAAGCAAGGATTGCATAA+GGG 0.506662 8:-58790555 MsaT044340.1:CDS
ATGATCAGAAATGTAGTTTG+AGG 0.507424 8:+58790297 None:intergenic
TTTCTCCGGTAGAACGAGAA+AGG 0.508143 8:-58790427 MsaT044340.1:CDS
TGATACAATGCTTTATTAGG+AGG 0.523462 8:-58792179 MsaT044340.1:CDS
ACAAGGGTTGGATCGAGCCT+TGG 0.530280 8:+58790582 None:intergenic
ACCCTTGTTGCTCAAAAGCA+AGG 0.534064 8:-58790567 MsaT044340.1:CDS
TTAGAATTAAACATCCTACT+TGG 0.534072 8:+58790869 None:intergenic
ACAACAGACAACAATGGCAC+GGG 0.534843 8:+58792408 None:intergenic
TGATCAGAAATGTAGTTTGA+GGG 0.540321 8:+58790298 None:intergenic
GCAGATGGCGAAGGCTTGGA+AGG 0.544242 8:+58790337 None:intergenic
ACTACCCTTTCTCGTTCTAC+CGG 0.546215 8:+58790422 None:intergenic
TGTTGGTGTTTAGACTTCAT+GGG 0.546310 8:-58790518 MsaT044340.1:CDS
CTTGACAATCTCTAATGTGA+TGG 0.550167 8:+58792360 None:intergenic
GCTCCAAACCTAAGTACAGC+AGG 0.551793 8:+58792136 None:intergenic
TTAGGTAACAATGTTGGAGA+CGG 0.553086 8:+58790704 None:intergenic
TCTCAATTGCGTCAAGCAGA+TGG 0.556178 8:+58790322 None:intergenic
TGTTACCACTATTCAGGAAG+GGG 0.558841 8:-58790735 MsaT044340.1:CDS
CAAGCCAGCAACAAATATGT+TGG 0.565774 8:-58791082 MsaT044340.1:CDS
TCTCCTTCACCAGCACCTAA+GGG 0.569799 8:-58790662 MsaT044340.1:CDS
TTTCCCTTAGGTGCTGGTGA+AGG 0.570670 8:+58790659 None:intergenic
TTCTCCGGTAGAACGAGAAA+GGG 0.571393 8:-58790426 MsaT044340.1:CDS
AGGAAATGGTGCTAACAAGA+TGG 0.575547 8:+58790813 None:intergenic
AAGCATAGTCTGCAAACTCA+AGG 0.577080 8:-58792623 MsaT044340.1:CDS
ATTGTTACCACTATTCAGGA+AGG 0.577100 8:-58790737 MsaT044340.1:CDS
CGGAAAAGACATATTCGTCA+TGG 0.577291 8:-58790381 MsaT044340.1:CDS
TCAGTCCTAGTAGCTCTGAT+GGG 0.580231 8:+58790606 None:intergenic
ATCAGATAATCACTGGGACC+GGG 0.582037 8:+58792198 None:intergenic
ACCCATTCAACAGGGACAGT+GGG 0.600727 8:-58792500 MsaT044340.1:CDS
ACCGGAGAAACATTATGGGA+TGG 0.601201 8:+58790440 None:intergenic
TTGTTACCACTATTCAGGAA+GGG 0.603135 8:-58790736 MsaT044340.1:CDS
TTGCGTCAAGCAGATGGCGA+AGG 0.606195 8:+58790328 None:intergenic
TGCCAAGGATATGACAAGAT+CGG 0.607478 8:+58791120 None:intergenic
AGCATAGTCTGCAAACTCAA+GGG 0.610947 8:-58792622 MsaT044340.1:CDS
AAGGCTTGGAAGGCAGAGAG+TGG 0.612756 8:+58790347 None:intergenic
GAGTTACATCTAGTGTAACA+TGG 0.616069 8:+58792530 None:intergenic
AGATCAAGCATAGGCTCCGT+CGG 0.617033 8:-58792561 MsaT044340.1:CDS
CATTGTATCAGATAATCACT+GGG 0.618360 8:+58792192 None:intergenic
AACCCATTCAACAGGGACAG+TGG 0.626967 8:-58792501 MsaT044340.1:CDS
TCTCACTCTCTTCAACCCTA+CGG 0.632526 8:+58792443 None:intergenic
GTTACCACTATTCAGGAAGG+GGG 0.635875 8:-58790734 MsaT044340.1:CDS
GGTTGAACTGCAGCATCATG+TGG 0.636955 8:+58790902 None:intergenic
TAACATGGGACTTCGTCCGA+CGG 0.648548 8:+58792545 None:intergenic
AGGCTTGGAAGGCAGAGAGT+GGG 0.650720 8:+58790348 None:intergenic
GTCAAGACTCCTCAGCAATG+TGG 0.658064 8:-58792343 MsaT044340.1:CDS
AGTTACATCTAGTGTAACAT+GGG 0.658395 8:+58792531 None:intergenic
CCAATTGAACCCATTCAACA+GGG 0.672357 8:-58792508 MsaT044340.1:CDS
AGGTAACAATGTTGGAGACG+GGG 0.672550 8:+58790706 None:intergenic
CTTCGGTATGTAAATCGTGG+AGG 0.672621 8:-58792384 MsaT044340.1:CDS
GAGCTACTAGGACTGAGCCA+AGG 0.685945 8:-58790599 MsaT044340.1:CDS
ACATCCAAAAGCAATTCAGG+TGG 0.687047 8:+58792469 None:intergenic
CGAAGCACAACAGACAACAA+TGG 0.693040 8:+58792402 None:intergenic
GTAAGCGTTCCACATTGCTG+AGG 0.696256 8:+58792334 None:intergenic
AGAGTGCTGAGATCAAGCAT+AGG 0.696911 8:-58792570 MsaT044340.1:CDS
GGGATGAGCAGCGAAAGTGT+TGG 0.703904 8:-58790535 MsaT044340.1:CDS
TGAACTGCAGCATCATGTGG+AGG 0.706539 8:+58790905 None:intergenic
GTGCTTCGGTATGTAAATCG+TGG 0.718786 8:-58792387 MsaT044340.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 58790301 58792656 58790301 ID=MsaG044340
Chr8 mRNA 58790301 58792656 58790301 ID=MsaT044340.1;Parent=MsaG044340
Chr8 exon 58790301 58790970 58790301 ID=MsaT044340.1.exon4;Parent=MsaT044340.1
Chr8 CDS 58790301 58790970 58790301 ID=cds.MsaT044340.1;Parent=MsaT044340.1
Chr8 exon 58791073 58791190 58791073 ID=MsaT044340.1.exon3;Parent=MsaT044340.1
Chr8 CDS 58791073 58791190 58791073 ID=cds.MsaT044340.1;Parent=MsaT044340.1
Chr8 exon 58792133 58792220 58792133 ID=MsaT044340.1.exon2;Parent=MsaT044340.1
Chr8 CDS 58792133 58792220 58792133 ID=cds.MsaT044340.1;Parent=MsaT044340.1
Chr8 exon 58792312 58792656 58792312 ID=MsaT044340.1.exon1;Parent=MsaT044340.1
Chr8 CDS 58792312 58792656 58792312 ID=cds.MsaT044340.1;Parent=MsaT044340.1
Gene Sequence

>MsaT044340.1

ATGTCATTGAAAAGCATAGTCTGCAAACTCAAGGGCATGAAAAATGAACTAGGTAGCATATCAAAGAGTGCTGAGATCAAGCATAGGCTCCGTCGGACGAAGTCCCATGTTACACTAGATGTAACTCCAATTGAACCCATTCAACAGGGACAGTGGGCAAGTCTACCACCTGAATTGCTTTTGGATGTAATCCGTAGGGTTGAAGAGAGTGAGACATCTTGGCCTGCCCGTGCCATTGTTGTCTGTTGTGCTTCGGTATGTAAATCGTGGAGGTCCATCACATTAGAGATTGTCAAGACTCCTCAGCAATGTGGAACGCTTACATTTCCTATTTCATTGAAGCAGCCCGGTCCCAGTGATTATCTGATACAATGCTTTATTAGGAGGAATAAAAGAACGTCTACATTCCTGCTGTACTTAGGTTTGGAGCCATCGAAGAATGAGAGAAATAAGTTGTTATTAGCTGCCAAAAAGATAAGGTCCGATCTTGTCATATCCTTGGCAACAGACGATTTTTGTCAAGCCAGCAACAAATATGTTGGTAAAGTCAGGTCTGATTTCTTTGGCACCGATTTCACTATATACGACAGTCAACCTCCACATGATGCTGCAGTTCAACCAAATTTTCGACCAAGTAGGATGTTTAATTCTAAGCATGTGTCACCAAGAAGAGTTCGAGCATGTAGCCATCTTGTTAGCACCATTTCCTATGAGTTTTTCGATAAAATGCCAAGAAGAATGTACTGCATCATGAACTCTAACATTGTTACCACTATTCAGGAAGGGGGAAACGCCCCGTCTCCAACATTGTTACCTAAAATATTTGATGAACCTTTTTCTCCTTCACCAGCACCTAAGGGAAAAAGTCCAATGACAAATTCATACTCTGCATGCCCATCAGAGCTACTAGGACTGAGCCAAGGCTCGATCCAACCCTTGTTGCTCAAAAGCAAGGATTGCATAAGGGATGAGCAGCGAAAGTGTTGGTGTTTAGACTTCATGGGTCGTGAAATAGTGCGCTCTTCAAAGAACTTTGAACTTGTAGAAGATGTTGTTGATCCATCCCATAATGTTTCTCCGGTAGAACGAGAAAGGGTAGTCTTGCAGTTTGGAAAGATCGGAAAAGACATATTCGTCATGGACTACTCTTACCCACTCTCTGCCTTCCAAGCCTTCGCCATCTGCTTGACGCAATTGAGAGCCCTCAAACTACATTTCTGA
Protein sequence

>MsaT044340.1

MSLKSIVCKLKGMKNELGSISKSAEIKHRLRRTKSHVTLDVTPIEPIQQGQWASLPPELLLDVIRRVEESETSWPARAIVVCCASVCKSWRSITLEIVKTPQQCGTLTFPISLKQPGPSDYLIQCFIRRNKRTSTFLLYLGLEPSKNERNKLLLAAKKIRSDLVISLATDDFCQASNKYVGKVRSDFFGTDFTIYDSQPPHDAAVQPNFRPSRMFNSKHVSPRRVRACSHLVSTISYEFFDKMPRRMYCIMNSNIVTTIQEGGNAPSPTLLPKIFDEPFSPSPAPKGKSPMTNSYSACPSELLGLSQGSIQPLLLKSKDCIRDEQRKCWCLDFMGREIVRSSKNFELVEDVVDPSHNVSPVERERVVLQFGKIGKDIFVMDYSYPLSAFQAFAICLTQLRALKLHF*