AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050330


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050330.t1 MTR_7g104430 98.776 245 3 0 1 245 1 245 1.10e-177 488
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050330.t1 AT3G52760 69.650 257 66 4 1 245 1 257 1.01e-123 352
MS.gene050330.t1 AT2G36300 68.061 263 58 5 1 245 1 255 7.25e-116 332

Find 69 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCCACAGGGTGGTTTCTT+TGG 0.102268 7.2:-8362379 MS.gene050330:CDS
TGCTGGTCGAACTGGAAATT+TGG 0.208027 7.2:-8362476 MS.gene050330:CDS
TTCCACAGGGTGGTTTCTTT+GGG 0.249145 7.2:-8362378 MS.gene050330:CDS
GGAACCACCACCGCCGATTC+CGG 0.282867 7.2:+8362756 None:intergenic
GAACCACCACCGCCGATTCC+GGG 0.362735 7.2:+8362757 None:intergenic
GTATTCATCCGGATCAAATC+TGG 0.368693 7.2:-8362693 MS.gene050330:CDS
AACGCCATATAGAGAAGAAT+TGG 0.368721 7.2:+8362598 None:intergenic
TGGTCCAATTCTTCTCTATA+TGG 0.369922 7.2:-8362602 MS.gene050330:CDS
CATACTTGTACCAGTGTTGT+TGG 0.376301 7.2:-8362448 MS.gene050330:CDS
AACATGCTTGCTGGTCGAAC+TGG 0.376990 7.2:-8362484 MS.gene050330:CDS
CGGTATGGTTCACGCGAAAC+GGG 0.383392 7.2:+8362647 None:intergenic
CTCCTCGTCGTCGAAGTTAA+CGG 0.422501 7.2:+8362735 None:intergenic
TTTGGTTGGAACGGTGGTAT+TGG 0.423341 7.2:+8362856 None:intergenic
ATGAAAGGGATGCCGGAGTT+TGG 0.440296 7.2:+8362838 None:intergenic
ACGGTATGGTTCACGCGAAA+CGG 0.443655 7.2:+8362646 None:intergenic
ATCTACTCTGGTCCCGGAAT+CGG 0.456452 7.2:-8362769 MS.gene050330:CDS
CTTGTGGTTTCTCTTACTGA+TGG 0.457923 7.2:-8362304 MS.gene050330:CDS
GGTCCCGGAATCGGCGGTGG+TGG 0.458366 7.2:-8362760 MS.gene050330:CDS
TGGACCGGAGGAGGTGGAAA+CGG 0.462451 7.2:+8362792 None:intergenic
GGAGGAGGTGGAAACGGCGG+CGG 0.482053 7.2:+8362798 None:intergenic
CCGACGGAGGCGAAGGATAC+CGG 0.487942 7.2:+8362916 None:intergenic
ATTCCGGGACCAGAGTAGAT+TGG 0.488100 7.2:+8362772 None:intergenic
TGGGCTACTAGAGCTTCAAC+GGG 0.501360 7.2:-8362328 MS.gene050330:CDS
CACAAAGACTCTGATCTCTC+TGG 0.504242 7.2:-8362622 MS.gene050330:CDS
CGATGTCAAATGACATGAAA+GGG 0.504894 7.2:+8362824 None:intergenic
CCGGTATCCTTCGCCTCCGT+CGG 0.505190 7.2:-8362916 MS.gene050330:CDS
TCTGGTCCCGGAATCGGCGG+TGG 0.508217 7.2:-8362763 MS.gene050330:CDS
GTAGATTGGACCGGAGGAGG+TGG 0.509987 7.2:+8362786 None:intergenic
GCCGCCGTTTCCACCTCCTC+CGG 0.518829 7.2:-8362796 MS.gene050330:CDS
ATGCCGGAGTTTGGTTGGAA+CGG 0.525630 7.2:+8362847 None:intergenic
TAGAGCTTCAACGGGGCTTG+TGG 0.525930 7.2:-8362320 MS.gene050330:CDS
GGGGTTACCGACGGAGGCGA+AGG 0.531653 7.2:+8362909 None:intergenic
AAGGGATGCCGGAGTTTGGT+TGG 0.532020 7.2:+8362842 None:intergenic
CAGAGTCTTTGTGAACGGTA+TGG 0.533763 7.2:+8362632 None:intergenic
CGACGAGCTCGGTATTCATC+CGG 0.535700 7.2:-8362704 MS.gene050330:CDS
ATACCGAGCTCGTCGAGAAG+AGG 0.537974 7.2:+8362712 None:intergenic
GGTCCAATCTACTCTGGTCC+CGG 0.538685 7.2:-8362775 MS.gene050330:CDS
CCTTTCATGTCATTTGACAT+CGG 0.544673 7.2:-8362823 MS.gene050330:CDS
ATGGGCTACTAGAGCTTCAA+CGG 0.549815 7.2:-8362329 MS.gene050330:CDS
TTGTCCGGCGGGGTTACCGA+CGG 0.557825 7.2:+8362900 None:intergenic
TACTCTGGTCCCGGAATCGG+CGG 0.561190 7.2:-8362766 MS.gene050330:CDS
TGTCTCTTTCAATTACTCGC+CGG 0.564214 7.2:-8362574 MS.gene050330:CDS
GAGCCTCTTCTCGACGAGCT+CGG 0.565975 7.2:-8362715 MS.gene050330:CDS
AAATGACATGAAAGGGATGC+CGG 0.570013 7.2:+8362831 None:intergenic
GCCTCCGTCGGTAACCCCGC+CGG 0.572655 7.2:-8362904 MS.gene050330:CDS
TCCTCCGGTCCAATCTACTC+TGG 0.574768 7.2:-8362781 MS.gene050330:CDS
AGAGTAGATTGGACCGGAGG+AGG 0.576450 7.2:+8362783 None:intergenic
CCGGAGTTTGGTTGGAACGG+TGG 0.579512 7.2:+8362850 None:intergenic
CCACCGTTCCAACCAAACTC+CGG 0.614609 7.2:-8362850 MS.gene050330:CDS
GGGACCAGAGTAGATTGGAC+CGG 0.616175 7.2:+8362777 None:intergenic
TGGTTATTCTATGTTGCCAG+TGG 0.618449 7.2:-8362428 MS.gene050330:CDS
GGAACGGTGGTATTGGTACA+CGG 0.619478 7.2:+8362863 None:intergenic
CCGATGTCAAATGACATGAA+AGG 0.627556 7.2:+8362823 None:intergenic
GAGATCAGAGTCTTTGTGAA+CGG 0.628079 7.2:+8362627 None:intergenic
GAAAGAATTCAAAGTCCCAC+CGG 0.628112 7.2:-8362935 MS.gene050330:CDS
TCCGGCGGGGTTACCGACGG+AGG 0.630208 7.2:+8362903 None:intergenic
ACCAGAGTAGATTGGACCGG+AGG 0.633247 7.2:+8362780 None:intergenic
ACGGAGGCGAAGGATACCGG+TGG 0.636258 7.2:+8362919 None:intergenic
CATAGAATAACCAACAACAC+TGG 0.637689 7.2:+8362438 None:intergenic
TTCCGTTAACTTCGACGACG+AGG 0.637706 7.2:-8362737 MS.gene050330:CDS
ATTGCAGAGAAAATCACCAC+TGG 0.645448 7.2:+8362412 None:intergenic
ACCGGAGGAGGTGGAAACGG+CGG 0.648522 7.2:+8362795 None:intergenic
AATCTGGAGCAAAATCAGAT+CGG 0.650716 7.2:-8362677 MS.gene050330:CDS
CGGAGGCGAAGGATACCGGT+GGG 0.687481 7.2:+8362920 None:intergenic
AGCCCAAAGAAACCACCCTG+TGG 0.689092 7.2:+8362376 None:intergenic
ATGGCTGTGATGAACATCGT+GGG 0.690522 7.2:-8362285 MS.gene050330:CDS
GATGGCTGTGATGAACATCG+TGG 0.761743 7.2:-8362286 MS.gene050330:CDS
GGGCTACTAGAGCTTCAACG+GGG 0.801660 7.2:-8362327 MS.gene050330:CDS
ACGGTGGTATTGGTACACGG+CGG 0.809815 7.2:+8362866 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTCAATTCGGTGTGATTTT+AGG - chr7.2:8362618-8362637 MS.gene050330:CDS 30.0%
AACGCCATATAGAGAAGAAT+TGG + chr7.2:8362570-8362589 None:intergenic 35.0%
CATAGAATAACCAACAACAC+TGG + chr7.2:8362730-8362749 None:intergenic 35.0%
CGATGTCAAATGACATGAAA+GGG + chr7.2:8362344-8362363 None:intergenic 35.0%
TGGTCCAATTCTTCTCTATA+TGG - chr7.2:8362563-8362582 MS.gene050330:CDS 35.0%
! AATCTGGAGCAAAATCAGAT+CGG - chr7.2:8362488-8362507 MS.gene050330:CDS 35.0%
! ATTTTGCTCCAGATTTGATC+CGG + chr7.2:8362483-8362502 None:intergenic 35.0%
! CACACCGAATTGAATTTTTC+CGG + chr7.2:8362613-8362632 None:intergenic 35.0%
! CCTTTCATGTCATTTGACAT+CGG - chr7.2:8362342-8362361 MS.gene050330:CDS 35.0%
! TTTTGAATATTTTGTCCGGC+GGG + chr7.2:8362279-8362298 None:intergenic 35.0%
!! GTTTTGAATATTTTGTCCGG+CGG + chr7.2:8362280-8362299 None:intergenic 35.0%
!!! AATATCGCTTTTTCTTCCAC+AGG - chr7.2:8362773-8362792 MS.gene050330:CDS 35.0%
!!! AATTCGGTGTGATTTTAGGT+TGG - chr7.2:8362622-8362641 MS.gene050330:CDS 35.0%
!!! ATATCGCTTTTTCTTCCACA+GGG - chr7.2:8362774-8362793 MS.gene050330:CDS 35.0%
!!! GCGGTTTTGAATATTTTGTC+CGG + chr7.2:8362283-8362302 None:intergenic 35.0%
AAATGACATGAAAGGGATGC+CGG + chr7.2:8362337-8362356 None:intergenic 40.0%
ATTGCAGAGAAAATCACCAC+TGG + chr7.2:8362756-8362775 None:intergenic 40.0%
CATACTTGTACCAGTGTTGT+TGG - chr7.2:8362717-8362736 MS.gene050330:CDS 40.0%
CCGATGTCAAATGACATGAA+AGG + chr7.2:8362345-8362364 None:intergenic 40.0%
CTCGCCGGAAAAATTCAATT+CGG - chr7.2:8362606-8362625 MS.gene050330:CDS 40.0%
CTTGTGGTTTCTCTTACTGA+TGG - chr7.2:8362861-8362880 MS.gene050330:CDS 40.0%
GAAAGAATTCAAAGTCCCAC+CGG - chr7.2:8362230-8362249 MS.gene050330:CDS 40.0%
GAGATCAGAGTCTTTGTGAA+CGG + chr7.2:8362541-8362560 None:intergenic 40.0%
GTATTCATCCGGATCAAATC+TGG - chr7.2:8362472-8362491 MS.gene050330:CDS 40.0%
TGGTTATTCTATGTTGCCAG+TGG - chr7.2:8362737-8362756 MS.gene050330:CDS 40.0%
TGTCTCTTTCAATTACTCGC+CGG - chr7.2:8362591-8362610 MS.gene050330:CDS 40.0%
! CGCTGCGATTTTTGTTCTAT+GGG - chr7.2:8362818-8362837 MS.gene050330:CDS 40.0%
! TCGCTGCGATTTTTGTTCTA+TGG - chr7.2:8362817-8362836 MS.gene050330:CDS 40.0%
! TTTGAATATTTTGTCCGGCG+GGG + chr7.2:8362278-8362297 None:intergenic 40.0%
!! GTTGTTTTCAACATGCTTGC+TGG - chr7.2:8362672-8362691 MS.gene050330:CDS 40.0%
!!! TGTGATTTTAGGTTGGATCG+TGG - chr7.2:8362629-8362648 MS.gene050330:CDS 40.0%
ATGGCTGTGATGAACATCGT+GGG - chr7.2:8362880-8362899 MS.gene050330:CDS 45.0%
CACAAAGACTCTGATCTCTC+TGG - chr7.2:8362543-8362562 MS.gene050330:CDS 45.0%
CAGAGTCTTTGTGAACGGTA+TGG + chr7.2:8362536-8362555 None:intergenic 45.0%
TGCTGGTCGAACTGGAAATT+TGG - chr7.2:8362689-8362708 MS.gene050330:CDS 45.0%
TTCCACAGGGTGGTTTCTTT+GGG - chr7.2:8362787-8362806 MS.gene050330:CDS 45.0%
TTTGGTTGGAACGGTGGTAT+TGG + chr7.2:8362312-8362331 None:intergenic 45.0%
! ATGGGCTACTAGAGCTTCAA+CGG - chr7.2:8362836-8362855 MS.gene050330:CDS 45.0%
ACGGTATGGTTCACGCGAAA+CGG + chr7.2:8362522-8362541 None:intergenic 50.0%
ATCTACTCTGGTCCCGGAAT+CGG - chr7.2:8362396-8362415 MS.gene050330:CDS 50.0%
ATGAAAGGGATGCCGGAGTT+TGG + chr7.2:8362330-8362349 None:intergenic 50.0%
ATGCCGGAGTTTGGTTGGAA+CGG + chr7.2:8362321-8362340 None:intergenic 50.0%
ATTCCGGGACCAGAGTAGAT+TGG + chr7.2:8362396-8362415 None:intergenic 50.0%
CTCCTCGTCGTCGAAGTTAA+CGG + chr7.2:8362433-8362452 None:intergenic 50.0%
CTTCCACAGGGTGGTTTCTT+TGG - chr7.2:8362786-8362805 MS.gene050330:CDS 50.0%
GATGGCTGTGATGAACATCG+TGG - chr7.2:8362879-8362898 MS.gene050330:CDS 50.0%
TGGGCTACTAGAGCTTCAAC+GGG - chr7.2:8362837-8362856 MS.gene050330:CDS 50.0%
TTCCGTTAACTTCGACGACG+AGG - chr7.2:8362428-8362447 MS.gene050330:CDS 50.0%
! AACATGCTTGCTGGTCGAAC+TGG - chr7.2:8362681-8362700 MS.gene050330:CDS 50.0%
!! GGAACGGTGGTATTGGTACA+CGG + chr7.2:8362305-8362324 None:intergenic 50.0%
!!! TCGCTTTTTCTTCCACAGGG+TGG - chr7.2:8362777-8362796 MS.gene050330:CDS 50.0%
AAGGGATGCCGGAGTTTGGT+TGG + chr7.2:8362326-8362345 None:intergenic 55.0%
ACCAGAGTAGATTGGACCGG+AGG + chr7.2:8362388-8362407 None:intergenic 55.0%
AGAGTAGATTGGACCGGAGG+AGG + chr7.2:8362385-8362404 None:intergenic 55.0%
AGCCCAAAGAAACCACCCTG+TGG + chr7.2:8362792-8362811 None:intergenic 55.0%
ATACCGAGCTCGTCGAGAAG+AGG + chr7.2:8362456-8362475 None:intergenic 55.0%
CCACCGTTCCAACCAAACTC+CGG - chr7.2:8362315-8362334 MS.gene050330:CDS 55.0%
CGACGAGCTCGGTATTCATC+CGG - chr7.2:8362461-8362480 MS.gene050330:CDS 55.0%
CGGTATGGTTCACGCGAAAC+GGG + chr7.2:8362521-8362540 None:intergenic 55.0%
GGGACCAGAGTAGATTGGAC+CGG + chr7.2:8362391-8362410 None:intergenic 55.0%
GGGCTACTAGAGCTTCAACG+GGG - chr7.2:8362838-8362857 MS.gene050330:CDS 55.0%
GGTCCAATCTACTCTGGTCC+CGG - chr7.2:8362390-8362409 MS.gene050330:CDS 55.0%
TAGAGCTTCAACGGGGCTTG+TGG - chr7.2:8362845-8362864 MS.gene050330:CDS 55.0%
TCCTCCGGTCCAATCTACTC+TGG - chr7.2:8362384-8362403 MS.gene050330:CDS 55.0%
!! ACGGTGGTATTGGTACACGG+CGG + chr7.2:8362302-8362321 None:intergenic 55.0%
CCGGAGTTTGGTTGGAACGG+TGG + chr7.2:8362318-8362337 None:intergenic 60.0%
GAGCCTCTTCTCGACGAGCT+CGG - chr7.2:8362450-8362469 MS.gene050330:CDS 60.0%
GTAGATTGGACCGGAGGAGG+TGG + chr7.2:8362382-8362401 None:intergenic 60.0%
TACTCTGGTCCCGGAATCGG+CGG - chr7.2:8362399-8362418 MS.gene050330:CDS 60.0%
TGGACCGGAGGAGGTGGAAA+CGG + chr7.2:8362376-8362395 None:intergenic 60.0%
ACCGGAGGAGGTGGAAACGG+CGG + chr7.2:8362373-8362392 None:intergenic 65.0%
ACGGAGGCGAAGGATACCGG+TGG + chr7.2:8362249-8362268 None:intergenic 65.0%
CCGACGGAGGCGAAGGATAC+CGG + chr7.2:8362252-8362271 None:intergenic 65.0%
CCGGTATCCTTCGCCTCCGT+CGG - chr7.2:8362249-8362268 MS.gene050330:CDS 65.0%
CGGAGGCGAAGGATACCGGT+GGG + chr7.2:8362248-8362267 None:intergenic 65.0%
TTGTCCGGCGGGGTTACCGA+CGG + chr7.2:8362268-8362287 None:intergenic 65.0%
!! GAACCACCACCGCCGATTCC+GGG + chr7.2:8362411-8362430 None:intergenic 65.0%
!! GGAACCACCACCGCCGATTC+CGG + chr7.2:8362412-8362431 None:intergenic 65.0%
GCCGCCGTTTCCACCTCCTC+CGG - chr7.2:8362369-8362388 MS.gene050330:CDS 70.0%
GGAGGAGGTGGAAACGGCGG+CGG + chr7.2:8362370-8362389 None:intergenic 70.0%
GGGGTTACCGACGGAGGCGA+AGG + chr7.2:8362259-8362278 None:intergenic 70.0%
TCTGGTCCCGGAATCGGCGG+TGG - chr7.2:8362402-8362421 MS.gene050330:CDS 70.0%
GCCTCCGTCGGTAACCCCGC+CGG - chr7.2:8362261-8362280 MS.gene050330:CDS 75.0%
GGTCCCGGAATCGGCGGTGG+TGG - chr7.2:8362405-8362424 MS.gene050330:CDS 75.0%
TCCGGCGGGGTTACCGACGG+AGG + chr7.2:8362265-8362284 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 8362225 8362962 8362225 ID=MS.gene050330
chr7.2 mRNA 8362225 8362962 8362225 ID=MS.gene050330.t1;Parent=MS.gene050330
chr7.2 exon 8362225 8362962 8362225 ID=MS.gene050330.t1.exon1;Parent=MS.gene050330.t1
chr7.2 CDS 8362225 8362962 8362225 ID=cds.MS.gene050330.t1;Parent=MS.gene050330.t1
Gene Sequence

>MS.gene050330

ATGGAGAAAGAATTCAAAGTCCCACCGGTATCCTTCGCCTCCGTCGGTAACCCCGCCGGACAAAATATTCAAAACCGCCGTGTACCAATACCACCGTTCCAACCAAACTCCGGCATCCCTTTCATGTCATTTGACATCGGCTCCGCCGCCGTTTCCACCTCCTCCGGTCCAATCTACTCTGGTCCCGGAATCGGCGGTGGTGGTTCCGTTAACTTCGACGACGAGGAGCCTCTTCTCGACGAGCTCGGTATTCATCCGGATCAAATCTGGAGCAAAATCAGATCGGTTCTTAACCCGTTTCGCGTGAACCATACCGTTCACAAAGACTCTGATCTCTCTGGTCCAATTCTTCTCTATATGGCGTTTTGTCTCTTTCAATTACTCGCCGGAAAAATTCAATTCGGTGTGATTTTAGGTTGGATCGTGGTTTCTTCGATCTTTTTGTACGTTGTTTTCAACATGCTTGCTGGTCGAACTGGAAATTTGGATCTACATACTTGTACCAGTGTTGTTGGTTATTCTATGTTGCCAGTGGTGATTTTCTCTGCAATATCGCTTTTTCTTCCACAGGGTGGTTTCTTTGGGCTTGCTATCGCTGCGATTTTTGTTCTATGGGCTACTAGAGCTTCAACGGGGCTTGTGGTTTCTCTTACTGATGGCTGTGATGAACATCGTGGGTTGATAGCGTACGCGTGTTTCTTGATTTACACTCTGTTTTCGTTGCTTGTGATTTTCTAG

Protein sequence

>MS.gene050330.t1

MEKEFKVPPVSFASVGNPAGQNIQNRRVPIPPFQPNSGIPFMSFDIGSAAVSTSSGPIYSGPGIGGGGSVNFDDEEPLLDELGIHPDQIWSKIRSVLNPFRVNHTVHKDSDLSGPILLYMAFCLFQLLAGKIQFGVILGWIVVSSIFLYVVFNMLAGRTGNLDLHTCTSVVGYSMLPVVIFSAISLFLPQGGFFGLAIAAIFVLWATRASTGLVVSLTDGCDEHRGLIAYACFLIYTLFSLLVIF