AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031229

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031229 MtrunA17_Chr1g0203051 55.039 129 58 0 134 262 493 621 1.72e-41 155
MsaG031229 MtrunA17_Chr1g0203051 44.910 167 52 3 1 135 1 159 2.45e-31 126
MsaG031229 MtrunA17_Chr2g0308841 40.909 154 91 0 121 274 73 226 1.77e-33 126
MsaG031229 MtrunA17_Chr2g0287651 36.620 142 90 0 134 275 491 632 1.15e-21 97.8
MsaG031229 MtrunA17_Chr5g0448511 27.863 262 184 3 147 404 270 530 3.10e-20 92.8
MsaG031229 MtrunA17_Chr5g0448761 33.099 142 94 1 147 288 498 638 1.05e-17 85.5
MsaG031229 MtrunA17_Chr6g0473421 43.038 79 41 2 55 130 53 130 1.33e-17 79.3
MsaG031229 MtrunA17_Chr8g0389811 45.679 81 42 1 55 133 82 162 2.40e-17 80.1
MsaG031229 MtrunA17_Chr3g0118611 32.530 166 103 4 147 308 374 534 4.83e-16 80.5
MsaG031229 MtrunA17_Chr1g0171741 44.737 76 41 1 58 132 134 209 8.19e-15 73.9
MsaG031229 MtrunA17_Chr1g0172931 45.000 80 42 1 56 133 75 154 1.93e-14 70.5
MsaG031229 MtrunA17_Chr6g0458391 32.653 147 97 2 129 275 621 765 2.11e-14 75.1
MsaG031229 MtrunA17_Chr1g0203721 36.806 144 89 2 134 277 484 625 2.15e-14 75.5
MsaG031229 MtrunA17_Chr2g0331371 42.683 82 43 2 55 133 53 133 2.17e-13 68.9
MsaG031229 MtrunA17_Chr5g0440451 30.769 130 89 1 147 276 477 605 3.59e-13 71.6
MsaG031229 MtrunA17_Chr1g0202341 34.746 118 76 1 158 275 493 609 9.28e-13 70.1
MsaG031229 MtrunA17_Chr2g0287061 27.895 190 122 3 152 340 578 753 9.48e-12 67.0
MsaG031229 MtrunA17_Chr1g0207551 33.803 142 89 4 135 275 452 589 2.24e-11 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031229 AT2G27110.2 33.775 151 87 4 148 289 453 599 9.36e-18 86.3
MsaG031229 AT2G27110.1 33.775 151 87 4 148 289 453 599 9.36e-18 86.3
MsaG031229 AT2G27110.3 33.775 151 87 4 148 289 308 454 1.24e-17 85.5
MsaG031229 AT4G38180.1 34.848 132 85 1 147 278 507 637 2.90e-16 81.6
MsaG031229 AT4G38170.1 32.394 142 95 1 134 275 259 399 4.32e-15 77.4
MsaG031229 AT3G06250.2 33.071 127 84 1 152 278 582 707 2.10e-11 66.2
MsaG031229 AT3G06250.1 33.071 127 84 1 152 278 582 707 2.10e-11 66.2
MsaG031229 AT3G06250.3 33.071 127 84 1 152 278 582 707 2.10e-11 66.2
MsaG031229 AT5G18960.2 33.858 127 83 1 152 278 606 731 5.98e-11 65.1
MsaG031229 AT5G18960.1 33.858 127 83 1 152 278 606 731 5.98e-11 65.1

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTAAATGTCAACCGTTCT+TGG 0.283454 6:+22517553 None:intergenic
CAACTAAACGATCCTGAAAA+TGG 0.285819 6:+22522932 None:intergenic
GCGGATTATGCATCTTCTTT+TGG 0.297889 6:-22517780 MsaT031229.1:CDS
CCTCTGAACCTTCCGCATTA+AGG 0.302211 6:+22523250 None:intergenic
CGTTCCATCACAAGACATTC+TGG 0.328402 6:+22517447 None:intergenic
GCTTAATGATTCCAATGTTT+CGG 0.343715 6:+22517239 None:intergenic
GGTCAGTGTTTAAGCAGTTT+AGG 0.345467 6:-22517695 MsaT031229.1:CDS
CCCAATGTAAGCGACATAAC+TGG 0.364706 6:-22523282 MsaT031229.1:CDS
TTGTGCTGAGTTTGCAAAAC+GGG 0.375014 6:+22517753 None:intergenic
TGCAAAAGATTCGAGACATT+TGG 0.377751 6:-22517525 MsaT031229.1:CDS
GATTCCATCTTTAGCACGTT+TGG 0.386420 6:+22517419 None:intergenic
CATCCACATATGCCACATTT+CGG 0.392359 6:+22517075 None:intergenic
TTTGTCATAGAGAAGGTTAC+AGG 0.397074 6:-22522807 MsaT031229.1:CDS
AGGGTATTTGAAAACATTGT+AGG 0.400513 6:+22517608 None:intergenic
TATACACAAAACCATGGAAA+TGG 0.430787 6:-22517274 MsaT031229.1:CDS
CCCAGTTATGTCGCTTACAT+TGG 0.430950 6:+22523281 None:intergenic
AAAGCCGTGTTGTTAAGAAC+AGG 0.447436 6:-22522858 MsaT031229.1:CDS
TAAGCAGTTTAGGCCCGTAT+TGG 0.451250 6:-22517685 MsaT031229.1:CDS
ACCCTAGGGATGATATTCAT+TGG 0.456636 6:-22517590 MsaT031229.1:CDS
CCAGTTATGTCGCTTACATT+GGG 0.461886 6:+22523282 None:intergenic
CCAATGTAAGCGACATAACT+GGG 0.477737 6:-22523281 MsaT031229.1:CDS
ATGTGGCATATGTGGATGTA+AGG 0.482825 6:-22517070 MsaT031229.1:CDS
AACTAGTAGGTGTGGTTGCA+TGG 0.492607 6:-22522743 MsaT031229.1:CDS
CATGGACAATAGCTCTTGTT+CGG 0.498690 6:-22523102 MsaT031229.1:CDS
AAACATTGGAATCATTAAGC+AGG 0.500216 6:-22517236 MsaT031229.1:CDS
GAGAGCAGAAGCCAACTAGT+AGG 0.503280 6:-22522756 MsaT031229.1:CDS
CCGACTAGATCTCTCCAATA+CGG 0.511443 6:+22517671 None:intergenic
TCGTCATCTCGTAATGTAAG+TGG 0.513912 6:-22517117 MsaT031229.1:CDS
TGGACCAAACGTGCTAAAGA+TGG 0.531683 6:-22517423 MsaT031229.1:CDS
TGCGGAAGGTTCAGAGGTAG+AGG 0.537083 6:-22523244 MsaT031229.1:intron
ACCTTTGTTTGTCATAGAGA+AGG 0.542041 6:-22522814 MsaT031229.1:CDS
AAGCGGAGTTCGCCGAAATG+TGG 0.543560 6:-22517087 MsaT031229.1:CDS
TGTTAGATACAGAGAAATTG+AGG 0.546396 6:-22517802 MsaT031229.1:CDS
CATATGTGGATGTAAGGGTC+TGG 0.546501 6:-22517064 MsaT031229.1:CDS
TCGCCGAAATGTGGCATATG+TGG 0.547405 6:-22517078 MsaT031229.1:CDS
TCCACACTTCAACACGGCAT+TGG 0.549156 6:+22517308 None:intergenic
ATGCAACCACACCTACTAGT+TGG 0.551707 6:+22522745 None:intergenic
AATTTGTACGGTTGTGTACG+TGG 0.562187 6:-22522895 MsaT031229.1:CDS
AACATTGGAATCATTAAGCA+GGG 0.567060 6:-22517235 MsaT031229.1:CDS
TTTGTGCTGAGTTTGCAAAA+CGG 0.567191 6:+22517752 None:intergenic
TTCTCGTAGACGACAGATCA+CGG 0.570898 6:+22517041 None:intergenic
CCGCAACGGCTTAAGAAAAG+AGG 0.575682 6:-22517156 MsaT031229.1:CDS
CAACGGCTTAAGAAAAGAGG+TGG 0.576611 6:-22517153 MsaT031229.1:CDS
ATCCAATGAATATCATCCCT+AGG 0.577004 6:+22517588 None:intergenic
ACATACGTAGTTACAAATGC+AGG 0.577104 6:+22517360 None:intergenic
GGAGAGTGATGTATGTTCCT+CGG 0.577170 6:-22523081 MsaT031229.1:CDS
CGACTAGATCTCTCCAATAC+GGG 0.579381 6:+22517672 None:intergenic
TCCAATGAATATCATCCCTA+GGG 0.582068 6:+22517589 None:intergenic
CAGAAGCCAACTAGTAGGTG+TGG 0.587238 6:-22522751 MsaT031229.1:CDS
TGAATATATACACAAAACCA+TGG 0.595738 6:-22517280 MsaT031229.1:CDS
CCTTAATGCGGAAGGTTCAG+AGG 0.595778 6:-22523250 MsaT031229.1:CDS
CGTGTTGTTAAGAACAGGGA+TGG 0.599865 6:-22522853 MsaT031229.1:CDS
TTGTCATAGAGAAGGTTACA+GGG 0.601328 6:-22522806 MsaT031229.1:CDS
AAAGTTTAGGCAATCCGCAA+CGG 0.604435 6:-22517170 MsaT031229.1:CDS
CATCCCTGTTCTTAACAACA+CGG 0.608258 6:+22522854 None:intergenic
GCCAATGCCGTGTTGAAGTG+TGG 0.608683 6:-22517309 MsaT031229.1:CDS
GGATGCAACCTTAATGCGGA+AGG 0.614546 6:-22523258 MsaT031229.1:CDS
GTTGATGAATTGCATGTGGT+CGG 0.615415 6:-22517207 MsaT031229.1:CDS
TCTAGTCGGTGCAAAGTCGA+AGG 0.615809 6:-22517657 MsaT031229.1:CDS
ACCTTCTCTATGACAAACAA+AGG 0.615884 6:+22522813 None:intergenic
CGTTGAGCGATGTAAGAGGA+TGG 0.618826 6:-22517331 MsaT031229.1:CDS
TGTTCGTTGAGCGATGTAAG+AGG 0.622081 6:-22517335 MsaT031229.1:CDS
TTGAAAGTAATGCCGCCGAA+AGG 0.632750 6:-22522783 MsaT031229.1:CDS
TAGTTACAAATGCAGGATCA+CGG 0.636049 6:+22517367 None:intergenic
TGTGGCATATGTGGATGTAA+GGG 0.657824 6:-22517069 MsaT031229.1:CDS
ACTGCCAGAATGTCTTGTGA+TGG 0.666806 6:-22517451 MsaT031229.1:CDS
TGTCTTGACATCTTCATCCG+AGG 0.667515 6:+22523064 None:intergenic
TAGGGTCGGATGAAATCATG+AGG 0.679042 6:-22522957 MsaT031229.1:CDS
CAATGTAAGCGACATAACTG+GGG 0.679402 6:-22523280 MsaT031229.1:CDS
AAGCCGTGTTGTTAAGAACA+GGG 0.681295 6:-22522857 MsaT031229.1:CDS
GTCGAAGGTGATGTGCGCAG+TGG 0.682048 6:-22517642 MsaT031229.1:CDS
AGGATCTCCACACTTCAACA+CGG 0.684367 6:+22517302 None:intergenic
ACATGTAAGATATGTTCACA+AGG 0.686637 6:+22517498 None:intergenic
CCGTATTGGAGAGATCTAGT+CGG 0.690217 6:-22517671 MsaT031229.1:CDS
TGAAGTTGATGAATTGCATG+TGG 0.704725 6:-22517211 MsaT031229.1:CDS
AATGTCTTGTGATGGAACGA+TGG 0.705741 6:-22517443 MsaT031229.1:CDS
ACATTGGAATCATTAAGCAG+GGG 0.706809 6:-22517234 MsaT031229.1:CDS
AATGTAAGCGACATAACTGG+GGG 0.709527 6:-22523279 MsaT031229.1:CDS
TAGATACAGAGAAATTGAGG+CGG 0.729517 6:-22517799 MsaT031229.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 22517020 22523340 22517020 ID=MsaG031229
Chr6 mRNA 22517020 22523340 22517020 ID=MsaT031229.1;Parent=MsaG031229
Chr6 exon 22517020 22517847 22517020 ID=MsaT031229.1.exon4;Parent=MsaT031229.1
Chr6 CDS 22517020 22517847 22517020 ID=cds.MsaT031229.1;Parent=MsaT031229.1
Chr6 exon 22522732 22522976 22522732 ID=MsaT031229.1.exon3;Parent=MsaT031229.1
Chr6 CDS 22522732 22522976 22522732 ID=cds.MsaT031229.1;Parent=MsaT031229.1
Chr6 exon 22523063 22523126 22523063 ID=MsaT031229.1.exon2;Parent=MsaT031229.1
Chr6 CDS 22523063 22523126 22523063 ID=cds.MsaT031229.1;Parent=MsaT031229.1
Chr6 exon 22523245 22523340 22523245 ID=MsaT031229.1.exon1;Parent=MsaT031229.1
Chr6 CDS 22523245 22523340 22523245 ID=cds.MsaT031229.1;Parent=MsaT031229.1
Gene Sequence

>MsaT031229.1

ATGGATATTCATGAAATTCTAGAAATTTTCGGAATTCCCAATGTAAGCGACATAACTGGGGGATGCAACCTTAATGCGGAAGGTTCAGAGGTAGAGGACATGGACAATAGCTCTTGTTCGGAGAGTGATGTATGTTCCTCGGATGAAGATGTCAAGACATGGTCGGATGAAATCATGAGGTACCATTTTCAGGATCGTTTAGTTGCATTCAAGTTTTACAATTTGTACGGTTGTGTACGTGGATTTTCCGGTAGAAAAAGCCGTGTTGTTAAGAACAGGGATGGCGATGTTGTTCAACAAACCTTTGTTTGTCATAGAGAAGGTTACAGGGTTGAAAGTAATGCCGCCGAAAGGAAAAGAGAGCAGAAGCCAACTAGTAGGTGTGGTTGCATGGCAAAAATTCAACATTTTTTGCGATGGCTGAATTATGTTAGATACAGAGAAATTGAGGCGGATTATGCATCTTCTTTTGGTGAACCCGTTTTGCAAACTCAGCACAAAAAATTAGAGAAGTCAGCGTCAAAAATTTATACAAGGTCAGTGTTTAAGCAGTTTAGGCCCGTATTGGAGAGATCTAGTCGGTGCAAAGTCGAAGGTGATGTGCGCAGTGGTTCCATTTTTACCTACAATGTTTTCAAATACCCTAGGGATGATATTCATTGGATCGTGACATTTTGCCAAGAACGGTTGACATTTAAATGTTCATGCAAAAGATTCGAGACATTTGGTATTCCTTGTGAACATATCTTACATGTTCTAGTGCATTTAAACATTGTTGTACTGCCAGAATGTCTTGTGATGGAACGATGGACCAAACGTGCTAAAGATGGAATCAATGCTCAAAATGCTAATAGTTCAAGTCACCGTGATCCTGCATTTGTAACTACGTATGTGATGTTCGTTGAGCGATGTAAGAGGATGGCCAATGCCGTGTTGAAGTGTGGAGATCCTGAATATATACACAAAACCATGGAAATGGTTGAAAAACACACCGAAACATTGGAATCATTAAGCAGGGGTGAAGTTGATGAATTGCATGTGGTCGGTTCAGTGACAGAAAAAAGTTTAGGCAATCCGCAACGGCTTAAGAAAAGAGGTGGAGCAGCAGCTGCGTCGTCATCTCGTAATGTAAGTGGAAATAAAAAGCGGAGTTCGCCGAAATGTGGCATATGTGGATGTAAGGGTCTGGCCGTGATCTGTCGTCTACGAGAAGACTTTAATGTACAGTCATAG
Protein sequence

>MsaT031229.1

MDIHEILEIFGIPNVSDITGGCNLNAEGSEVEDMDNSSCSESDVCSSDEDVKTWSDEIMRYHFQDRLVAFKFYNLYGCVRGFSGRKSRVVKNRDGDVVQQTFVCHREGYRVESNAAERKREQKPTSRCGCMAKIQHFLRWLNYVRYREIEADYASSFGEPVLQTQHKKLEKSASKIYTRSVFKQFRPVLERSSRCKVEGDVRSGSIFTYNVFKYPRDDIHWIVTFCQERLTFKCSCKRFETFGIPCEHILHVLVHLNIVVLPECLVMERWTKRAKDGINAQNANSSSHRDPAFVTTYVMFVERCKRMANAVLKCGDPEYIHKTMEMVEKHTETLESLSRGEVDELHVVGSVTEKSLGNPQRLKKRGGAAAASSSRNVSGNKKRSSPKCGICGCKGLAVICRLREDFNVQS*