AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002919

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002919 MtrunA17_Chr1g0179561 91.252 503 34 5 1 500 1 496 0.0 781
MsaG002919 MtrunA17_Chr7g0265561 55.647 487 164 10 2 485 1 438 1.06e-153 446
MsaG002919 MtrunA17_Chr2g0328901 37.665 454 208 10 40 487 29 413 2.44e-82 262
MsaG002919 MtrunA17_Chr1g0201951 35.837 466 228 14 42 488 34 447 8.54e-72 235
MsaG002919 MtrunA17_Chr6g0463911 64.085 142 49 2 114 254 106 246 1.73e-53 186
MsaG002919 MtrunA17_Chr6g0463911 52.000 75 36 0 412 486 368 442 4.53e-18 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002919 AT1G76870.2 49.735 189 84 4 67 253 28 207 2.50e-55 190
MsaG002919 AT1G76870.1 49.735 189 84 4 67 253 28 207 2.50e-55 190
MsaG002919 AT1G76870.3 49.735 189 84 4 67 253 28 207 2.50e-55 190
MsaG002919 AT3G10040.1 56.701 97 42 0 396 492 322 418 6.31e-31 124
MsaG002919 AT1G21200.1 43.590 78 44 0 409 486 362 439 2.85e-15 78.6
MsaG002919 AT1G21200.2 43.590 78 44 0 409 486 362 439 2.85e-15 78.6

Find 100 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTCTTCAGCTTGAAAATT+TGG 0.110218 1:+49285135 None:intergenic
CTGTTGTTGATGTTTGTTCT+TGG 0.169378 1:+49285194 None:intergenic
CTAACTTCATCTTTCATCTT+AGG 0.178877 1:+49284763 None:intergenic
TCAAGGGCTATGATGGAAAA+AGG 0.210514 1:-49284928 MsaT002919.1:CDS
AGTTTAATGATTTGAATAAA+AGG 0.261559 1:-49284873 MsaT002919.1:CDS
GGATTGAGAATGTTGAAAAT+TGG 0.301263 1:-49284499 MsaT002919.1:CDS
TCAAGGTTTGTTGGATTCAA+TGG 0.337077 1:-49284794 MsaT002919.1:CDS
GGTTGTTCAAAGGGTCAAAT+TGG 0.342793 1:-49284388 MsaT002919.1:CDS
TTCCACTTCCACCCTCTACT+TGG 0.350671 1:+49284644 None:intergenic
TTGTTCTTGGATGAAGAAAA+TGG 0.352317 1:+49285207 None:intergenic
TTGAAAAGCAAAGGTTGAAA+TGG 0.354388 1:-49284120 MsaT002919.1:CDS
GCTGTTGTTGTTGGTGTAAA+GGG 0.358499 1:+49285376 None:intergenic
GAGAATGGTGTAGGGAGTTT+AGG 0.360554 1:-49284538 MsaT002919.1:CDS
GCTCTGGTGGTGATCCAAAA+AGG 0.376950 1:-49285113 MsaT002919.1:CDS
CAGTTGGAGGAACAGAAAAT+AGG 0.378255 1:-49284166 MsaT002919.1:CDS
TGTGTCAGTGTCATGATGTT+GGG 0.383213 1:+49285269 None:intergenic
AATGGTAAGGCTATTGATAA+TGG 0.397789 1:-49285052 MsaT002919.1:CDS
AAGATTAGAAAATGAGAGAA+TGG 0.405714 1:-49284035 MsaT002919.1:CDS
CTAAGATGAAAGATGAAGTT+AGG 0.406494 1:-49284762 MsaT002919.1:CDS
TAGCAAGAAAGAGAGGGAAA+TGG 0.407922 1:-49284086 MsaT002919.1:CDS
ATCTGTTTCAAGGGCTATGA+TGG 0.408066 1:-49284935 MsaT002919.1:CDS
GTCACTCCTTCTGGTTTGCT+TGG 0.409854 1:-49285414 MsaT002919.1:CDS
TGCTGTTGTTGTTGGTGTAA+AGG 0.412114 1:+49285375 None:intergenic
TTAGGTGTTTCAAGAGGAGA+GGG 0.418284 1:-49284520 MsaT002919.1:CDS
AAGATGGAGGGAAGAGTCCT+TGG 0.426883 1:-49284222 MsaT002919.1:CDS
CACCATGGCAAAGAATGAAA+TGG 0.442437 1:-49285083 MsaT002919.1:CDS
GAAAGTGGAAATCTGTTTCA+AGG 0.446222 1:-49284945 MsaT002919.1:CDS
TGTAGAGTTGTTGAGAATCA+AGG 0.448501 1:-49284811 MsaT002919.1:CDS
TGTTGAGAATCAAGGTTTGT+TGG 0.449421 1:-49284803 MsaT002919.1:CDS
GATGAGGATGAAGATGAATC+TGG 0.451554 1:-49284415 MsaT002919.1:CDS
TCTTGAATGATGGAAGCTAA+TGG 0.466883 1:-49285450 None:intergenic
TGCTGTTGATGCTGCTGTTG+AGG 0.472559 1:+49284601 None:intergenic
TAGTGGGTTGTTACAGAAGA+AGG 0.473118 1:-49284968 MsaT002919.1:CDS
CACCAAGTAGAGGGTGGAAG+TGG 0.477622 1:-49284646 MsaT002919.1:CDS
GTCCATTTCATTCTTTGCCA+TGG 0.478175 1:+49285081 None:intergenic
TGAAAAGCAAAGGTTGAAAT+GGG 0.482868 1:-49284119 MsaT002919.1:CDS
CATTCATCAGAGAATGGTGT+AGG 0.490758 1:-49284547 MsaT002919.1:CDS
AGTGGTGTGTTTCAAGATGG+AGG 0.493576 1:-49284235 MsaT002919.1:CDS
TTTCAAGCTGAAGAAAGCTC+TGG 0.499001 1:-49285129 MsaT002919.1:CDS
AGATGAAGAGGATGAGTCAG+AGG 0.503353 1:-49284446 MsaT002919.1:CDS
TGTGGTCATGGTGCTGGTGG+TGG 0.504086 1:-49284682 MsaT002919.1:CDS
GAGCTAAACTTGAGAATGAA+AGG 0.504094 1:-49284060 MsaT002919.1:CDS
TTGTGTCAGTGTCATGATGT+TGG 0.505427 1:+49285268 None:intergenic
AATAGTTGTGGTCATGGTGC+TGG 0.506112 1:-49284688 MsaT002919.1:CDS
CAAGATGAAGAAGAGAATGA+TGG 0.507615 1:-49284352 MsaT002919.1:CDS
CATCATCATTCAATGAAACA+TGG 0.509386 1:-49285237 MsaT002919.1:CDS
TCTGGAGAAGGTTGTTCAAA+GGG 0.509510 1:-49284397 MsaT002919.1:CDS
AGAGGATGATGAAGATGAAG+AGG 0.511662 1:-49284458 MsaT002919.1:CDS
TATTACATTGGTGATGAAGC+TGG 0.519299 1:-49285024 MsaT002919.1:CDS
CATTTCAGCTTGAAAAGCAA+AGG 0.520923 1:-49284129 MsaT002919.1:CDS
TCAAGGAAAAGAGCAAGAAA+AGG 0.523804 1:-49284322 MsaT002919.1:CDS
GGGAGTTTAGGTGTTTCAAG+AGG 0.525348 1:-49284526 MsaT002919.1:CDS
AGAATGTTGAAAATTGGAAG+TGG 0.527059 1:-49284493 MsaT002919.1:CDS
GTGAATGATATACTTGGTAA+AGG 0.529083 1:-49284841 MsaT002919.1:CDS
TGCTGTTGAGGTTGATTCTG+AGG 0.531228 1:+49284613 None:intergenic
TTTAGGTGTTTCAAGAGGAG+AGG 0.532646 1:-49284521 MsaT002919.1:CDS
AATGAAATGGACTGATACAA+TGG 0.534079 1:-49285070 MsaT002919.1:CDS
GGTATAGTAGCAAGAAAGAG+AGG 0.534687 1:-49284093 MsaT002919.1:CDS
AACTTATCTTCACATTGTTG+AGG 0.538324 1:+49284892 None:intergenic
TGTTACAGAAGAAGGGAAAG+TGG 0.544015 1:-49284960 MsaT002919.1:CDS
ATAATGGCTGTTTATTACAT+TGG 0.545685 1:-49285036 MsaT002919.1:CDS
AGATGGAGGGAAGAGTCCTT+GGG 0.547861 1:-49284221 MsaT002919.1:CDS
AAGGAACAGGATAATGCAGT+TGG 0.551721 1:-49284182 MsaT002919.1:CDS
CAAATGAACAATGAAATAAG+TGG 0.554110 1:-49284253 MsaT002919.1:CDS
AAGTGGAGATGTTGAAGAAG+AGG 0.561038 1:-49284476 MsaT002919.1:CDS
GAACAGGATAATGCAGTTGG+AGG 0.568779 1:-49284179 MsaT002919.1:CDS
ATCTGGAGAAGGTTGTTCAA+AGG 0.569921 1:-49284398 MsaT002919.1:CDS
TATCATAATAGTTGTGGTCA+TGG 0.573317 1:-49284694 MsaT002919.1:CDS
GTGGTGTGTTTCAAGATGGA+GGG 0.573587 1:-49284234 MsaT002919.1:CDS
CAAGCTGAAGAAAGCTCTGG+TGG 0.575821 1:-49285126 MsaT002919.1:CDS
GGGGAGCATAGGAAACAACT+TGG 0.576375 1:+49285289 None:intergenic
GTCATGATGTTGGGGAGCAT+AGG 0.579377 1:+49285278 None:intergenic
GTGTCAGTGTCATGATGTTG+GGG 0.580760 1:+49285270 None:intergenic
ATCATCATTCAATGAAACAT+GGG 0.582829 1:-49285236 MsaT002919.1:CDS
AGTTGTGGTCATGGTGCTGG+TGG 0.583142 1:-49284685 MsaT002919.1:CDS
TCTTGGATGAAGAAAATGGA+GGG 0.591048 1:+49285211 None:intergenic
TCTAACAAATTTCATCTAGG+TGG 0.592393 1:+49283949 None:intergenic
AAGAGAGTGAATGATATACT+TGG 0.593533 1:-49284847 MsaT002919.1:CDS
AGGAAAAGAGCAAGAAAAGG+AGG 0.594032 1:-49284319 MsaT002919.1:CDS
AAAGTGGAAATCTGTTTCAA+GGG 0.595878 1:-49284944 MsaT002919.1:CDS
ATTCATCAGAGAATGGTGTA+GGG 0.597498 1:-49284546 MsaT002919.1:CDS
CATAGGAAACAACTTGGGAA+TGG 0.599175 1:+49285295 None:intergenic
AGAATGATGGAAAATCATCA+AGG 0.600165 1:-49284339 MsaT002919.1:CDS
AATGGACTGATACAATGGTA+AGG 0.602489 1:-49285065 MsaT002919.1:CDS
AGTGGGTTGTTACAGAAGAA+GGG 0.604261 1:-49284967 MsaT002919.1:CDS
GATGAAGATGAATCTGGAGA+AGG 0.611259 1:-49284409 MsaT002919.1:CDS
AGCAAAGGTTGAAATGGGCA+AGG 0.613121 1:-49284114 MsaT002919.1:CDS
TGTTGAGGTTGATTCTGAGG+TGG 0.615009 1:+49284616 None:intergenic
TTCTTGGATGAAGAAAATGG+AGG 0.615525 1:+49285210 None:intergenic
TAATGTTCAACACCAAGTAG+AGG 0.621278 1:-49284656 MsaT002919.1:CDS
GTATAGTAGCAAGAAAGAGA+GGG 0.621792 1:-49284092 MsaT002919.1:CDS
AATGTTCAACACCAAGTAGA+GGG 0.626977 1:-49284655 MsaT002919.1:CDS
ATAAGTGGTGTGTTTCAAGA+TGG 0.626979 1:-49284238 MsaT002919.1:CDS
TGTGCTTATCATAATAGTTG+TGG 0.648505 1:-49284700 MsaT002919.1:CDS
GTTCAACACCAAGTAGAGGG+TGG 0.655493 1:-49284652 MsaT002919.1:CDS
AAGCAAACCAGAAGGAGTGA+CGG 0.671704 1:+49285416 None:intergenic
GGGAGCATAGGAAACAACTT+GGG 0.683513 1:+49285290 None:intergenic
TGGGAATGGTGCAAATGATG+AGG 0.685441 1:+49285309 None:intergenic
CAAACCAGAAGGAGTGACGG+TGG 0.686466 1:+49285419 None:intergenic
ACTACACCAAGCAAACCAGA+AGG 0.693850 1:+49285408 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 49283964 49285466 49283964 ID=MsaG002919
Chr1 mRNA 49283964 49285466 49283964 ID=MsaT002919.1;Parent=MsaG002919
Chr1 exon 49283964 49285466 49283964 ID=MsaT002919.1.exon1;Parent=MsaT002919.1
Chr1 CDS 49283964 49285466 49283964 ID=cds.MsaT002919.1;Parent=MsaT002919.1
Gene Sequence

>MsaT002919.1

ATGATGGAAGCTAATGGCATGTTTTCCACCGTCACTCCTTCTGGTTTGCTTGGTGTAGTTGATAATATCCCTTTACACCAACAACAACAGCAAAAACAACAGAATCTCCCTAATCAACAACAACAACAACAAAATCCTCATCATTTGCACCATTCCCAAGTTGTTTCCTATGCTCCCCAACATCATGACACTGACACAAATCAACAACATCATCATTCAATGAAACATGGGTTCCCTCCATTTTCTTCATCCAAGAACAAACATCAACAACAGCAGCAACAAAGTTCTCAGATGAGTGATGAAGATGAACCAAATTTTCAAGCTGAAGAAAGCTCTGGTGGTGATCCAAAAAGGAAGATTTCACCATGGCAAAGAATGAAATGGACTGATACAATGGTAAGGCTATTGATAATGGCTGTTTATTACATTGGTGATGAAGCTGGTTCTGAAGTGACTGATCCAAATAAGAAAAAGACTAGTGGGTTGTTACAGAAGAAGGGAAAGTGGAAATCTGTTTCAAGGGCTATGATGGAAAAAGGGTTTTATGTGTCACCTCAACAATGTGAAGATAAGTTTAATGATTTGAATAAAAGGTATAAGAGAGTGAATGATATACTTGGTAAAGGAACAGCTTGTAGAGTTGTTGAGAATCAAGGTTTGTTGGATTCAATGGATTTGTCACCTAAGATGAAAGATGAAGTTAGGAAATTGCTTAATTCTAAGCATCTTTTCTTTAGGGAAATGTGTGCTTATCATAATAGTTGTGGTCATGGTGCTGGTGGTGGTTCTAATGTTCAACACCAAGTAGAGGGTGGAAGTGGAACAACACCACCTCAGAATCAACCTCAACAGCAGCATCAACAGCAGCAGCAGCATCAGCAGCAACAACATTGTTTTCATTCATCAGAGAATGGTGTAGGGAGTTTAGGTGTTTCAAGAGGAGAGGGATTGAGAATGTTGAAAATTGGAAGTGGAGATGTTGAAGAAGAGGATGATGAAGATGAAGAGGATGAGTCAGAGGATTTTTCTGATGAGGATGAAGATGAATCTGGAGAAGGTTGTTCAAAGGGTCAAATTGGTCATATAAATGATCAAGATGAAGAAGAGAATGATGGAAAATCATCAAGGAAAAGAGCAAGAAAAGGAGGATTTTCATTTTCAAGGTCATCATCATCAACACAATTGATGAATCAAATGAACAATGAAATAAGTGGTGTGTTTCAAGATGGAGGGAAGAGTCCTTGGGAGAAAAAACAATGGATAAGGAACAGGATAATGCAGTTGGAGGAACAGAAAATAGGATATGAGTCACAAGCATTTCAGCTTGAAAAGCAAAGGTTGAAATGGGCAAGGTATAGTAGCAAGAAAGAGAGGGAAATGGAAAGAGCTAAACTTGAGAATGAAAGGAGAAGATTAGAAAATGAGAGAATGGTTTTGCTTATTAGGAAAAAGGAGATTGAGTTGATGCATATTCAACAACAGCAGCAACACTCTTCCACCTAG
Protein sequence

>MsaT002919.1

MMEANGMFSTVTPSGLLGVVDNIPLHQQQQQKQQNLPNQQQQQQNPHHLHHSQVVSYAPQHHDTDTNQQHHHSMKHGFPPFSSSKNKHQQQQQQSSQMSDEDEPNFQAEESSGGDPKRKISPWQRMKWTDTMVRLLIMAVYYIGDEAGSEVTDPNKKKTSGLLQKKGKWKSVSRAMMEKGFYVSPQQCEDKFNDLNKRYKRVNDILGKGTACRVVENQGLLDSMDLSPKMKDEVRKLLNSKHLFFREMCAYHNSCGHGAGGGSNVQHQVEGGSGTTPPQNQPQQQHQQQQQHQQQQHCFHSSENGVGSLGVSRGEGLRMLKIGSGDVEEEDDEDEEDESEDFSDEDEDESGEGCSKGQIGHINDQDEEENDGKSSRKRARKGGFSFSRSSSSTQLMNQMNNEISGVFQDGGKSPWEKKQWIRNRIMQLEEQKIGYESQAFQLEKQRLKWARYSSKKEREMERAKLENERRRLENERMVLLIRKKEIELMHIQQQQQHSST*