AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0751640


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0751640 MtrunA17_Chr5g0394361 97.143 210 5 1 1 210 1 209 9.60e-150 414
Msa0751640 MtrunA17_Chr1g0205591 89.888 89 9 0 122 210 1 89 3.30e-55 170
Msa0751640 MtrunA17_Chr1g0205601 49.533 107 29 3 1 100 1 89 1.10e-19 80.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0751640 AT1G03130.1 73.684 209 49 3 3 210 1 204 2.56e-105 302
Msa0751640 AT4G02770.1 72.770 213 48 4 3 210 1 208 7.72e-102 293

Find 63 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATTGAGGTTAAGTTTAC+TGG 0.199881 5_2:-5099256 Msa0751640:CDS
AAGGGGTTGGTCAGAATTTC+AGG 0.236961 5_2:-5099300 Msa0751640:CDS
AAAGAACAGTGTTTGGCTTT+AGG 0.250321 5_2:-5099445 Msa0751640:CDS
GATGGTTGTTTCCATGGTTT+AGG 0.251347 5_2:+5099796 None:intergenic
CCAGTAAACTTAACCTCAAT+TGG 0.255586 5_2:+5099256 None:intergenic
TGGCTTTAGGAAATAGATTA+AGG 0.256198 5_2:-5099432 Msa0751640:CDS
AACACACCTTCACCAATCTT+TGG 0.314938 5_2:-5099616 Msa0751640:CDS
GTTAGGACCTTCTCTCATTA+TGG 0.318870 5_2:+5099486 None:intergenic
CGACCAGGGTTAACCTTCTC+AGG 0.322720 5_2:+5099325 None:intergenic
AAATATTGAACCTCACCATT+AGG 0.330180 5_2:+5099370 None:intergenic
ATGGTTGTTTCCATGGTTTA+GGG 0.335226 5_2:+5099797 None:intergenic
CTTGCTAACTTAAGAAGGTT+AGG 0.358826 5_2:+5099469 None:intergenic
TGTTCTTGTTGTGAACTTGA+TGG 0.369555 5_2:+5099747 None:intergenic
GGTCAGAATTTCAGGTCTAT+TGG 0.371295 5_2:-5099292 Msa0751640:CDS
AAGATTGGTGAAGGTGTGTT+TGG 0.388416 5_2:+5099619 None:intergenic
AATATTGAACCTCACCATTA+GGG 0.389009 5_2:+5099371 None:intergenic
AGCAAGGAAAGAACAGTGTT+TGG 0.399243 5_2:-5099452 Msa0751640:CDS
GAGATGAAGGATAAAGTTGA+TGG 0.402382 5_2:+5099778 None:intergenic
CTTTCCTTGCTAACTTAAGA+AGG 0.421239 5_2:+5099464 None:intergenic
GGTGTGTTTGGGTCTAGTTC+AGG 0.421350 5_2:+5099631 None:intergenic
AAAGTTGATGGTTGTTTCCA+TGG 0.433796 5_2:+5099790 None:intergenic
GTTCTTGTTGTGAACTTGAT+GGG 0.443234 5_2:+5099748 None:intergenic
ATCTCAAAGATTTGTTCCTT+AGG 0.450732 5_2:+5099526 None:intergenic
CAGTAAACTTAACCTCAATT+GGG 0.469449 5_2:+5099257 None:intergenic
GATGGGTTTGAGAGAGATGA+AGG 0.471436 5_2:+5099765 None:intergenic
TCAGGGTACACACCATCCTT+AGG 0.473133 5_2:+5099343 None:intergenic
CAAATCTTTGAGATGCCAAC+TGG 0.474824 5_2:-5099517 Msa0751640:CDS
GTGAAACCAACTGGTGCAGC+AGG 0.478227 5_2:+5099658 None:intergenic
AGATTGGTGAAGGTGTGTTT+GGG 0.480790 5_2:+5099620 None:intergenic
CCAATCTTTGGAGGAAGCAC+TGG 0.483310 5_2:-5099604 Msa0751640:CDS
CACTGGTGGTTTGTTACGTA+AGG 0.494140 5_2:-5099587 Msa0751640:CDS
CCAGTGCTTCCTCCAAAGAT+TGG 0.498438 5_2:+5099604 None:intergenic
GTCACACCTTACACATCAAA+AGG 0.504279 5_2:+5099226 None:intergenic
TCAGGTGGAGTGAAACCAAC+TGG 0.512231 5_2:+5099649 None:intergenic
TGACCAACCCCTTCACGACC+AGG 0.514328 5_2:+5099310 None:intergenic
TAAGAACGTTAGCCCAATTG+AGG 0.521570 5_2:-5099269 Msa0751640:CDS
GGTTCAATATTTGCATCCTA+AGG 0.527977 5_2:-5099359 Msa0751640:CDS
CTAACCTTCTTAAGTTAGCA+AGG 0.531725 5_2:-5099468 Msa0751640:CDS
GAGAGGTGGAGTGAAGAGAG+AGG 0.532656 5_2:+5099825 None:intergenic
ACACCTTCACCAATCTTTGG+AGG 0.538603 5_2:-5099613 Msa0751640:CDS
GAAGCTCCTGCTGCACCAGT+TGG 0.541120 5_2:-5099664 Msa0751640:CDS
AAGGTTAACCCTGGTCGTGA+AGG 0.545203 5_2:-5099319 Msa0751640:CDS
ATCTTTGGAGGAAGCACTGG+TGG 0.547257 5_2:-5099601 Msa0751640:CDS
GTGTTTGGGTCTAGTTCAGG+TGG 0.547713 5_2:+5099634 None:intergenic
AGGTTAACCCTGGTCGTGAA+GGG 0.550600 5_2:-5099318 Msa0751640:CDS
CAATATTTGCATCCTAAGGA+TGG 0.551649 5_2:-5099355 Msa0751640:CDS
GGTTTAGGGCTTGAGAGAGG+TGG 0.569137 5_2:+5099811 None:intergenic
CATGGTTTAGGGCTTGAGAG+AGG 0.581991 5_2:+5099808 None:intergenic
AACCCTGGTCGTGAAGGGGT+TGG 0.582674 5_2:-5099313 Msa0751640:CDS
CTCTCTCAAGCCCTAAACCA+TGG 0.587901 5_2:-5099807 Msa0751640:CDS
GATCACATGGGAGTCACCTA+AGG 0.589857 5_2:-5099542 Msa0751640:CDS
GGATGGTGTGTACCCTGAGA+AGG 0.597067 5_2:-5099338 Msa0751640:CDS
AAGAATTCTATGTGATCACA+TGG 0.598132 5_2:-5099555 Msa0751640:CDS
CTTCCTCCAAAGATTGGTGA+AGG 0.600903 5_2:+5099610 None:intergenic
ATTATGGCTGCACCACCAGT+TGG 0.609110 5_2:+5099502 None:intergenic
GACCAACCCCTTCACGACCA+GGG 0.637725 5_2:+5099311 None:intergenic
GGTGCAGCCATAATGAGAGA+AGG 0.648728 5_2:-5099493 Msa0751640:CDS
GGTTAACCCTGGTCGTGAAG+GGG 0.649178 5_2:-5099317 Msa0751640:CDS
TACCCTGAGAAGGTTAACCC+TGG 0.651425 5_2:-5099328 Msa0751640:CDS
ATTCATCAACAACATGGCAA+TGG 0.658103 5_2:-5099857 None:intergenic
GACCAGGGTTAACCTTCTCA+GGG 0.658939 5_2:+5099326 None:intergenic
ATCTTTGAGATGCCAACTGG+TGG 0.674480 5_2:-5099514 Msa0751640:CDS
AGAATTCTATGTGATCACAT+GGG 0.727784 5_2:-5099554 Msa0751640:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTAAGTATCAGTTTTAC+AGG - chr5_2:5099679-5099698 Msa0751640:CDS 25.0%
!! GATTAAGTATCAGTTTTACA+GGG - chr5_2:5099680-5099699 Msa0751640:CDS 25.0%
AAGAATTCTATGTGATCACA+TGG - chr5_2:5099523-5099542 Msa0751640:CDS 30.0%
AGAATTCTATGTGATCACAT+GGG - chr5_2:5099524-5099543 Msa0751640:CDS 30.0%
! ATCTCAAAGATTTGTTCCTT+AGG + chr5_2:5099555-5099574 None:intergenic 30.0%
!! TGGCTTTAGGAAATAGATTA+AGG - chr5_2:5099646-5099665 Msa0751640:CDS 30.0%
AATATTGAACCTCACCATTA+GGG + chr5_2:5099710-5099729 None:intergenic 30.0%
AAATATTGAACCTCACCATT+AGG + chr5_2:5099711-5099730 None:intergenic 30.0%
CAGTAAACTTAACCTCAATT+GGG + chr5_2:5099824-5099843 None:intergenic 30.0%
! ATGGTTGTTTCCATGGTTTA+GGG + chr5_2:5099284-5099303 None:intergenic 35.0%
!! AAAGTTGATGGTTGTTTCCA+TGG + chr5_2:5099291-5099310 None:intergenic 35.0%
GAGATGAAGGATAAAGTTGA+TGG + chr5_2:5099303-5099322 None:intergenic 35.0%
! GTTCTTGTTGTGAACTTGAT+GGG + chr5_2:5099333-5099352 None:intergenic 35.0%
! TGTTCTTGTTGTGAACTTGA+TGG + chr5_2:5099334-5099353 None:intergenic 35.0%
CTTGCTAACTTAAGAAGGTT+AGG + chr5_2:5099612-5099631 None:intergenic 35.0%
CTAACCTTCTTAAGTTAGCA+AGG - chr5_2:5099610-5099629 Msa0751640:CDS 35.0%
CTTTCCTTGCTAACTTAAGA+AGG + chr5_2:5099617-5099636 None:intergenic 35.0%
!! AAAGAACAGTGTTTGGCTTT+AGG - chr5_2:5099633-5099652 Msa0751640:CDS 35.0%
! TTTTACAGGGTTTTCCCTAA+TGG - chr5_2:5099693-5099712 Msa0751640:CDS 35.0%
GGTTCAATATTTGCATCCTA+AGG - chr5_2:5099719-5099738 Msa0751640:CDS 35.0%
CAATATTTGCATCCTAAGGA+TGG - chr5_2:5099723-5099742 Msa0751640:CDS 35.0%
CCAGTAAACTTAACCTCAAT+TGG + chr5_2:5099825-5099844 None:intergenic 35.0%
CCAATTGAGGTTAAGTTTAC+TGG - chr5_2:5099822-5099841 Msa0751640:CDS 35.0%
! GATGGTTGTTTCCATGGTTT+AGG + chr5_2:5099285-5099304 None:intergenic 40.0%
! GCTTCTTCTTTTGTTGCAAC+TGG + chr5_2:5099399-5099418 None:intergenic 40.0%
! AGATTGGTGAAGGTGTGTTT+GGG + chr5_2:5099461-5099480 None:intergenic 40.0%
! AAGATTGGTGAAGGTGTGTT+TGG + chr5_2:5099462-5099481 None:intergenic 40.0%
AACACACCTTCACCAATCTT+TGG - chr5_2:5099462-5099481 Msa0751640:CDS 40.0%
!! CAAATCTTTGAGATGCCAAC+TGG - chr5_2:5099561-5099580 Msa0751640:CDS 40.0%
GTTAGGACCTTCTCTCATTA+TGG + chr5_2:5099595-5099614 None:intergenic 40.0%
AGCAAGGAAAGAACAGTGTT+TGG - chr5_2:5099626-5099645 Msa0751640:CDS 40.0%
! GGTCAGAATTTCAGGTCTAT+TGG - chr5_2:5099786-5099805 Msa0751640:CDS 40.0%
TAAGAACGTTAGCCCAATTG+AGG - chr5_2:5099809-5099828 Msa0751640:CDS 40.0%
! GATGGGTTTGAGAGAGATGA+AGG + chr5_2:5099316-5099335 None:intergenic 45.0%
ACACCTTCACCAATCTTTGG+AGG - chr5_2:5099465-5099484 Msa0751640:CDS 45.0%
CTTCCTCCAAAGATTGGTGA+AGG + chr5_2:5099471-5099490 None:intergenic 45.0%
!! CACTGGTGGTTTGTTACGTA+AGG - chr5_2:5099491-5099510 Msa0751640:CDS 45.0%
!! ATCTTTGAGATGCCAACTGG+TGG - chr5_2:5099564-5099583 Msa0751640:CDS 45.0%
!! AAGGGGTTGGTCAGAATTTC+AGG - chr5_2:5099778-5099797 Msa0751640:CDS 45.0%
! CATGGTTTAGGGCTTGAGAG+AGG + chr5_2:5099273-5099292 None:intergenic 50.0%
CTCTCTCAAGCCCTAAACCA+TGG - chr5_2:5099271-5099290 Msa0751640:CDS 50.0%
TCAGGTGGAGTGAAACCAAC+TGG + chr5_2:5099432-5099451 None:intergenic 50.0%
! GTGTTTGGGTCTAGTTCAGG+TGG + chr5_2:5099447-5099466 None:intergenic 50.0%
! GGTGTGTTTGGGTCTAGTTC+AGG + chr5_2:5099450-5099469 None:intergenic 50.0%
CCAGTGCTTCCTCCAAAGAT+TGG + chr5_2:5099477-5099496 None:intergenic 50.0%
! CCAATCTTTGGAGGAAGCAC+TGG - chr5_2:5099474-5099493 Msa0751640:CDS 50.0%
!! ATCTTTGGAGGAAGCACTGG+TGG - chr5_2:5099477-5099496 Msa0751640:CDS 50.0%
GATCACATGGGAGTCACCTA+AGG - chr5_2:5099536-5099555 Msa0751640:CDS 50.0%
ATTATGGCTGCACCACCAGT+TGG + chr5_2:5099579-5099598 None:intergenic 50.0%
GGTGCAGCCATAATGAGAGA+AGG - chr5_2:5099585-5099604 Msa0751640:CDS 50.0%
! CAGGGTTTTCCCTAATGGTG+AGG - chr5_2:5099698-5099717 Msa0751640:CDS 50.0%
TCAGGGTACACACCATCCTT+AGG + chr5_2:5099738-5099757 None:intergenic 50.0%
TACCCTGAGAAGGTTAACCC+TGG - chr5_2:5099750-5099769 Msa0751640:CDS 50.0%
GACCAGGGTTAACCTTCTCA+GGG + chr5_2:5099755-5099774 None:intergenic 50.0%
AAGGTTAACCCTGGTCGTGA+AGG - chr5_2:5099759-5099778 Msa0751640:CDS 50.0%
AGGTTAACCCTGGTCGTGAA+GGG - chr5_2:5099760-5099779 Msa0751640:CDS 50.0%
GAGAGGTGGAGTGAAGAGAG+AGG + chr5_2:5099256-5099275 None:intergenic 55.0%
! GGTTTAGGGCTTGAGAGAGG+TGG + chr5_2:5099270-5099289 None:intergenic 55.0%
GTGAAACCAACTGGTGCAGC+AGG + chr5_2:5099423-5099442 None:intergenic 55.0%
GGATGGTGTGTACCCTGAGA+AGG - chr5_2:5099740-5099759 Msa0751640:CDS 55.0%
CGACCAGGGTTAACCTTCTC+AGG + chr5_2:5099756-5099775 None:intergenic 55.0%
GGTTAACCCTGGTCGTGAAG+GGG - chr5_2:5099761-5099780 Msa0751640:CDS 55.0%
GAAGCTCCTGCTGCACCAGT+TGG - chr5_2:5099414-5099433 Msa0751640:CDS 60.0%
AACCCTGGTCGTGAAGGGGT+TGG - chr5_2:5099765-5099784 Msa0751640:CDS 60.0%
GACCAACCCCTTCACGACCA+GGG + chr5_2:5099770-5099789 None:intergenic 60.0%
TGACCAACCCCTTCACGACC+AGG + chr5_2:5099771-5099790 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr5_2 gene 5099234 5099866 5099234 ID=Msa0751640;Name=Msa0751640
chr5_2 mRNA 5099234 5099866 5099234 ID=Msa0751640-mRNA-1;Parent=Msa0751640;Name=Msa0751640-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|210
chr5_2 exon 5099234 5099866 5099234 ID=Msa0751640-mRNA-1:exon:2067;Parent=Msa0751640-mRNA-1
chr5_2 CDS 5099234 5099866 5099234 ID=Msa0751640-mRNA-1:cds;Parent=Msa0751640-mRNA-1
Gene Sequence

>Msa0751640

ATGGCAATGGCAACTCAAGCCTCTCTCTTCACTCCACCTCTCTCAAGCCCTAAACCATGGAAACAACCATCAACTTTATCCTTCATCTCTCTCAAACCCATCAAGTTCACAACAAGAACAACAAAAATCTCAGCTGCAGATGACAAAACAGAAGCAGCAGCACCAGTTGCAACAAAAGAAGAAGCTCCTGCTGCACCAGTTGGTTTCACTCCACCTGAACTAGACCCAAACACACCTTCACCAATCTTTGGAGGAAGCACTGGTGGTTTGTTACGTAAGGCACAAGTTGAAGAATTCTATGTGATCACATGGGAGTCACCTAAGGAACAAATCTTTGAGATGCCAACTGGTGGTGCAGCCATAATGAGAGAAGGTCCTAACCTTCTTAAGTTAGCAAGGAAAGAACAGTGTTTGGCTTTAGGAAATAGATTAAGGTCTAAGTACAAGATTAAGTATCAGTTTTACAGGGTTTTCCCTAATGGTGAGGTTCAATATTTGCATCCTAAGGATGGTGTGTACCCTGAGAAGGTTAACCCTGGTCGTGAAGGGGTTGGTCAGAATTTCAGGTCTATTGGTAAGAACGTTAGCCCAATTGAGGTTAAGTTTACTGGTAAGCAACCTTTTGATGTGTAA

Protein sequence

>Msa0751640

MAMATQASLFTPPLSSPKPWKQPSTLSFISLKPIKFTTRTTKISAADDKTEAAAPVATKEEAPAAPVGFTPPELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGNRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGREGVGQNFRSIGKNVSPIEVKFTGKQPFDV*