AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025618

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025618 MtrunA17_Chr5g0403631 98.447 322 5 0 1 322 1 322 0.0 647
MsaG025618 MtrunA17_Chr3g0141401 54.103 329 119 8 2 322 8 312 5.71e-80 246
MsaG025618 MtrunA17_Chr1g0154651 37.975 316 111 8 9 322 14 246 2.05e-49 165
MsaG025618 MtrunA17_Chr2g0315211 43.750 352 132 12 6 323 3 322 8.71e-38 137
MsaG025618 MtrunA17_Chr2g0315201 42.075 347 138 12 6 323 3 315 2.54e-34 127
MsaG025618 MtrunA17_Chr5g0408851 60.714 56 22 0 20 75 61 116 1.59e-14 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025618 AT1G75080.2 54.303 337 105 12 9 322 23 333 5.55e-93 280
MsaG025618 AT1G75080.1 54.303 337 105 12 9 322 23 333 5.55e-93 280
MsaG025618 AT1G19350.5 54.006 337 106 12 9 322 22 332 3.13e-90 273
MsaG025618 AT1G19350.1 54.006 337 106 12 9 322 22 332 3.13e-90 273
MsaG025618 AT1G19350.6 54.006 337 106 12 9 322 22 332 3.13e-90 273
MsaG025618 AT1G19350.4 54.006 337 106 12 9 322 22 332 3.13e-90 273
MsaG025618 AT1G19350.3 54.006 337 106 12 9 322 44 354 3.17e-90 274
MsaG025618 AT3G50750.1 51.863 322 95 8 2 319 4 269 1.77e-76 236
MsaG025618 AT4G36780.1 71.859 199 49 5 9 203 16 211 1.11e-61 197
MsaG025618 AT1G78700.1 41.193 352 135 13 6 319 3 320 8.85e-45 155
MsaG025618 AT4G18890.1 40.729 329 136 12 6 323 3 283 6.16e-33 123
MsaG025618 AT2G45880.1 38.686 137 75 3 3 136 63 193 8.87e-15 75.5
MsaG025618 AT5G45300.1 53.521 71 30 1 20 90 97 164 1.39e-14 75.1
MsaG025618 AT5G45300.3 53.521 71 30 1 20 90 111 178 1.43e-14 75.1
MsaG025618 AT5G45300.2 54.545 66 27 1 20 85 97 159 5.78e-14 73.2

Find 110 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGCTGCTAAGATCTATTC+AGG 0.302180 5:+10624368 MsaT025618.1:CDS
TGGGGAGTGATCTGCATTGC+TGG 0.307829 5:-10625777 None:intergenic
GAAGAAAGAGGTGGCGTAAC+AGG 0.309981 5:-10625501 None:intergenic
GCATCTGACTCATCGCATTC+TGG 0.328895 5:-10625663 None:intergenic
GGAGTTCCTCCCACTTCATT+TGG 0.344592 5:-10625258 None:intergenic
GTGGCGAAACGTGGAGTTAA+AGG 0.345878 5:-10625574 None:intergenic
TTGGAGCTTACTCTAGGGTT+TGG 0.376143 5:+10625954 MsaT025618.1:CDS
TCATTATTATCACAGTGTTT+AGG 0.379828 5:-10624419 None:intergenic
GAACAAGCACTCATATTTGT+TGG 0.400165 5:-10625279 None:intergenic
CCTCCCACTTCATTTGGTAA+TGG 0.408872 5:-10625252 None:intergenic
AACGAAGAAGACTGTGGACT+TGG 0.429225 5:-10625336 None:intergenic
CTCTTTGTTCTGAAGCTGGT+TGG 0.433313 5:+10624453 MsaT025618.1:CDS
CTAAGGGGTGGAAGATTTGT+TGG 0.437346 5:-10625462 None:intergenic
TTACGTCGCGAAGGGCTTGA+TGG 0.441756 5:-10625618 None:intergenic
ATGACCGGCGGTGGATCCTC+CGG 0.444774 5:+10624284 MsaT025618.1:CDS
AAAGCTCTTTGTTCTGAAGC+TGG 0.450319 5:+10624449 MsaT025618.1:CDS
GTTTCATAAGATTAAAAGTA+GGG 0.465742 5:-10625755 None:intergenic
GAATGGTAGGAGAAAGGAAG+AGG 0.471644 5:-10625418 None:intergenic
CTCGTAGGGTATGATGGTAT+TGG 0.473170 5:-10625366 None:intergenic
GGAAGGAGGAGCTGCACCAT+GGG 0.477201 5:-10625733 None:intergenic
CTCTTCGCCGGAACGATGAC+CGG 0.477263 5:+10624269 None:intergenic
CAACAAATCTTCCACCCCTT+AGG 0.481611 5:+10625463 MsaT025618.1:CDS
TAAGGGGTGGAAGATTTGTT+GGG 0.482571 5:-10625461 None:intergenic
GAAGAGTTGGAGCTTACTCT+AGG 0.484349 5:+10625948 MsaT025618.1:CDS
AATGAGGAAGATTGTGGACT+TGG 0.485039 5:-10625312 None:intergenic
GTATCATATCCATCGAACTC+TGG 0.485353 5:-10625797 None:intergenic
TATCATATCCATCGAACTCT+GGG 0.486116 5:-10625796 None:intergenic
CGCATTCTGGAATGGTGGAA+GGG 0.492428 5:-10625650 None:intergenic
CGATGAGTCAGATGCTTCTA+CGG 0.496132 5:+10625671 MsaT025618.1:CDS
GCCGGAACGATGACCGGCGG+TGG 0.500980 5:+10624275 None:intergenic
GGGTATGATGGTATTGGACT+CGG 0.506930 5:-10625360 None:intergenic
TCAGCTACTGAGAGAGGTAG+AGG 0.507163 5:+10625852 MsaT025618.1:CDS
GAACTTCTCGGAGAAGAAAG+AGG 0.507602 5:-10625513 None:intergenic
GTTAAAGGAAGCATTACAAA+GGG 0.511164 5:-10625559 None:intergenic
TGGCGTAACAGGGGCACTGT+TGG 0.513188 5:-10625490 None:intergenic
GAAGTTATGTTGCGGATGAA+TGG 0.514169 5:-10625435 None:intergenic
AATGGTAGGAGAAAGGAAGA+GGG 0.515787 5:-10625417 None:intergenic
CGAGGTAGGAATGGAAGAGT+TGG 0.519042 5:+10625935 MsaT025618.1:CDS
GAAGCCATGCAATGGAGTGC+AGG 0.519451 5:+10625828 MsaT025618.1:CDS
TTTCCATGTTGGTAATCTCC+CGG 0.520653 5:-10624303 None:intergenic
CTTCTACGGTGGACTCTGGT+AGG 0.522842 5:+10625685 MsaT025618.1:CDS
GCGGATGAATGGTAGGAGAA+AGG 0.522930 5:-10625424 None:intergenic
GGGCACTGTTGGAAATCCTA+AGG 0.524569 5:-10625479 None:intergenic
TGACCGGCGGTGGATCCTCC+GGG 0.535108 5:+10624285 MsaT025618.1:CDS
GGTAAGTGGTTACGTCGCGA+AGG 0.535768 5:-10625627 None:intergenic
TGACTCATCGCATTCTGGAA+TGG 0.535852 5:-10625658 None:intergenic
GTTGGACTCGTAGGGTATGA+TGG 0.536021 5:-10625372 None:intergenic
TCGCATTCTGGAATGGTGGA+AGG 0.536086 5:-10625651 None:intergenic
GGTTGGATCGTTGAAGAAGA+TGG 0.537404 5:+10624470 MsaT025618.1:CDS
AGACTGTGGACTTGGGAATG+AGG 0.539676 5:-10625328 None:intergenic
GCATTCTGGAATGGTGGAAG+GGG 0.540873 5:-10625649 None:intergenic
CTACGGTGGACTCTGGTAGG+TGG 0.546694 5:+10625688 MsaT025618.1:CDS
GAGAATTCACGAGGTAGGAA+TGG 0.546800 5:+10625926 MsaT025618.1:CDS
ATAAGATTAAAAGTAGGGGA+AGG 0.548784 5:-10625750 None:intergenic
ACGAGTCCAACTCGCATGGA+TGG 0.553802 5:+10625384 MsaT025618.1:CDS
ATGGCAGAGTCGTGAAGCCG+TGG 0.556658 5:+10625895 MsaT025618.1:CDS
TGAATTCTCTCACCTTCCCA+CGG 0.561289 5:-10625912 None:intergenic
TACGGTGGACTCTGGTAGGT+GGG 0.563236 5:+10625689 MsaT025618.1:CDS
GGTTTCATAAGATTAAAAGT+AGG 0.565689 5:-10625756 None:intergenic
AAGAGTTGGAGCTTACTCTA+GGG 0.569146 5:+10625949 MsaT025618.1:CDS
GGGAAGGAGGAGCTGCACCA+TGG 0.569302 5:-10625734 None:intergenic
TATTCAGGTTTACGAGCTCA+AGG 0.569731 5:+10624383 MsaT025618.1:CDS
GGTGCAGAGGTAGCGAAAAG+AGG 0.575220 5:-10625597 None:intergenic
GGCACTGTTGGAAATCCTAA+GGG 0.576349 5:-10625478 None:intergenic
GATCACTCCCCAGAGTTCGA+TGG 0.577805 5:+10625788 MsaT025618.1:CDS
CCCTACGAGTCCAACTCGCA+TGG 0.578171 5:+10625380 MsaT025618.1:CDS
TTATGTTGCGGATGAATGGT+AGG 0.578326 5:-10625431 None:intergenic
GATGCTTCTACGGTGGACTC+TGG 0.578522 5:+10625681 MsaT025618.1:CDS
GTAAGTGGTTACGTCGCGAA+GGG 0.578993 5:-10625626 None:intergenic
AAGAAAGAGGTGGCGTAACA+GGG 0.579366 5:-10625500 None:intergenic
AGAGTCGTGAAGCCGTGGGA+AGG 0.580925 5:+10625900 MsaT025618.1:CDS
GTAATTCCATCCATGCGAGT+TGG 0.581360 5:-10625390 None:intergenic
ACGAAGAAGACTGTGGACTT+GGG 0.581874 5:-10625335 None:intergenic
GAGACCATTACCAAATGAAG+TGG 0.582291 5:+10625248 MsaT025618.1:CDS
CTCATCGCATTCTGGAATGG+TGG 0.583351 5:-10625655 None:intergenic
AGATTAAAAGTAGGGGAAGG+AGG 0.584415 5:-10625747 None:intergenic
GTGCAGAGGTAGCGAAAAGA+GGG 0.584857 5:-10625596 None:intergenic
CCTCCGGGAGATTACCAACA+TGG 0.594081 5:+10624300 MsaT025618.1:CDS
GGTATGATGGTATTGGACTC+GGG 0.595404 5:-10625359 None:intergenic
TCCATGCGAGTTGGACTCGT+AGG 0.595405 5:-10625381 None:intergenic
GGTGAGAGAATTCACGAGGT+AGG 0.595934 5:+10625921 MsaT025618.1:CDS
TTTCAGACAACAACTGCCCA+TGG 0.605613 5:+10625717 MsaT025618.1:CDS
GTATGAATGAAGCCATGCAA+TGG 0.607575 5:+10625820 MsaT025618.1:CDS
TGAACCTGCACTCCATTGCA+TGG 0.609662 5:-10625832 None:intergenic
ATGGTAGGAGAAAGGAAGAG+GGG 0.614566 5:-10625416 None:intergenic
CCATGCGAGTTGGACTCGTA+GGG 0.617530 5:-10625380 None:intergenic
CTTGGGAATGAGGAAGATTG+TGG 0.619428 5:-10625318 None:intergenic
GCAGGTTCAGCTACTGAGAG+AGG 0.625141 5:+10625846 MsaT025618.1:CDS
CATTCTGGAATGGTGGAAGG+GGG 0.627664 5:-10625648 None:intergenic
GAAAAGAGGGTGGCGAAACG+TGG 0.629619 5:-10625583 None:intergenic
AGATGGTACTACTTATCGAA+AGG 0.630271 5:+10624487 MsaT025618.1:CDS
TTGGGATTGAAGTTATGTTG+CGG 0.631769 5:-10625443 None:intergenic
AGTTAAAGGAAGCATTACAA+AGG 0.631880 5:-10625560 None:intergenic
CTGTTGGAAATCCTAAGGGG+TGG 0.634143 5:-10625474 None:intergenic
TGAGTCAGATGCTTCTACGG+TGG 0.636061 5:+10625674 MsaT025618.1:CDS
CGAAGGGCTTGATGGTGCAG+AGG 0.637998 5:-10625610 None:intergenic
TTTCATAAGATTAAAAGTAG+GGG 0.644722 5:-10625754 None:intergenic
TCTCCCGGAGGATCCACCGC+CGG 0.650116 5:-10624288 None:intergenic
AGACCATTACCAAATGAAGT+GGG 0.650170 5:+10625249 MsaT025618.1:CDS
AGAAAGAGGTGGCGTAACAG+GGG 0.653614 5:-10625499 None:intergenic
TGGCAGAGTCGTGAAGCCGT+GGG 0.659403 5:+10625896 MsaT025618.1:CDS
CAGAGGTAGCGAAAAGAGGG+TGG 0.659824 5:-10625593 None:intergenic
TTCGCCGGAACGATGACCGG+CGG 0.661466 5:+10624272 None:intergenic
CTCGGGAACGAAGAAGACTG+TGG 0.666027 5:-10625342 None:intergenic
CCATGTTGGTAATCTCCCGG+AGG 0.694898 5:-10624300 None:intergenic
CCATTACCAAATGAAGTGGG+AGG 0.695189 5:+10625252 MsaT025618.1:CDS
GCACTGTTGGAAATCCTAAG+GGG 0.700815 5:-10625477 None:intergenic
CTTCTCGGAGAAGAAAGAGG+TGG 0.713886 5:-10625510 None:intergenic
ATCATATCCATCGAACTCTG+GGG 0.720256 5:-10625795 None:intergenic
GGAAGGTGAGAGAATTCACG+AGG 0.745542 5:+10625917 MsaT025618.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 10624284 10625986 10624284 ID=MsaG025618
Chr5 mRNA 10624284 10625986 10624284 ID=MsaT025618.1;Parent=MsaG025618
Chr5 exon 10624284 10624508 10624284 ID=MsaT025618.1.exon1;Parent=MsaT025618.1
Chr5 CDS 10624284 10624508 10624284 ID=cds.MsaT025618.1;Parent=MsaT025618.1
Chr5 exon 10625240 10625986 10625240 ID=MsaT025618.1.exon2;Parent=MsaT025618.1
Chr5 CDS 10625240 10625986 10625240 ID=cds.MsaT025618.1;Parent=MsaT025618.1
Gene Sequence

>MsaT025618.1

ATGACCGGCGGTGGATCCTCCGGGAGATTACCAACATGGAAAGAGAGAGAAAACAACAAAAGAAGAGAGAGAAGAAGAAGAGCTATTGCTGCTAAGATCTATTCAGGTTTACGAGCTCAAGGTAATTTTAAGCTTCCTAAACACTGTGATAATAATGAAGTCTTGAAAGCTCTTTGTTCTGAAGCTGGTTGGATCGTTGAAGAAGATGGTACTACTTATCGAAAGGGAAGTAAGAGACCATTACCAAATGAAGTGGGAGGAACTCCAACAAATATGAGTGCTTGTTCTTCAATGCAACCAAGTCCACAATCTTCCTCATTCCCAAGTCCACAGTCTTCTTCGTTCCCGAGTCCAATACCATCATACCCTACGAGTCCAACTCGCATGGATGGAATTACAAACCCCTCTTCCTTTCTCCTACCATTCATCCGCAACATAACTTCAATCCCAACAAATCTTCCACCCCTTAGGATTTCCAACAGTGCCCCTGTTACGCCACCTCTTTCTTCTCCGAGAAGTTCAAAGCGAAAAGCAGATTTTGAATCCCTTTGTAATGCTTCCTTTAACTCCACGTTTCGCCACCCTCTTTTCGCTACCTCTGCACCATCAAGCCCTTCGCGACGTAACCACTTACCCCCTTCCACCATTCCAGAATGCGATGAGTCAGATGCTTCTACGGTGGACTCTGGTAGGTGGGTTAGTTTTCAGACAACAACTGCCCATGGTGCAGCTCCTCCTTCCCCTACTTTTAATCTTATGAAACCAGCAATGCAGATCACTCCCCAGAGTTCGATGGATATGATACGTATGAATGAAGCCATGCAATGGAGTGCAGGTTCAGCTACTGAGAGAGGTAGAGGCTCAGATTTTGACTTTGAGAATGGCAGAGTCGTGAAGCCGTGGGAAGGTGAGAGAATTCACGAGGTAGGAATGGAAGAGTTGGAGCTTACTCTAGGGTTTGGAAAGACCTGA
Protein sequence

>MsaT025618.1

MTGGGSSGRLPTWKERENNKRRERRRRAIAAKIYSGLRAQGNFKLPKHCDNNEVLKALCSEAGWIVEEDGTTYRKGSKRPLPNEVGGTPTNMSACSSMQPSPQSSSFPSPQSSSFPSPIPSYPTSPTRMDGITNPSSFLLPFIRNITSIPTNLPPLRISNSAPVTPPLSSPRSSKRKADFESLCNASFNSTFRHPLFATSAPSSPSRRNHLPPSTIPECDESDASTVDSGRWVSFQTTTAHGAAPPSPTFNLMKPAMQITPQSSMDMIRMNEAMQWSAGSATERGRGSDFDFENGRVVKPWEGERIHEVGMEELELTLGFGKT*