AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026733.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026733.01.T01 MTR_1g116080 98.621 145 2 0 3 147 177 321 8.82e-103 297
MsG0580026733.01.T01 MTR_1g116080 96.226 106 4 0 3 108 178 283 1.98e-71 216
MsG0580026733.01.T01 MTR_3g104850 35.766 137 85 2 1 137 159 292 2.81e-27 103
MsG0580026733.01.T01 MTR_3g104850 35.766 137 85 2 1 137 209 342 4.69e-27 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026733.01.T01 AT4G08790 80.435 138 27 0 4 141 170 307 9.99e-80 238
MsG0580026733.01.T01 AT5G12040 34.307 137 87 2 1 137 221 354 2.77e-25 99.4
MsG0580026733.01.T01 AT5G12040 41.667 72 41 1 1 72 221 291 3.62e-14 68.2

Find 31 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACAGTCCTATTGGGCATT+TGG 0.314552 5:-43201258 MsG0580026733.01.T01:CDS
GACAGTCCTATTGGGCATTT+GGG 0.322031 5:-43201257 MsG0580026733.01.T01:CDS
GTCATAGCTGCTGCGCCAGC+TGG 0.322213 5:-43200495 MsG0580026733.01.T01:CDS
TAAATAATTACCTTAGCAAT+AGG 0.343586 5:+43199976 None:intergenic
GTTGCAGTAGACAGTCCTAT+TGG 0.373114 5:-43201266 MsG0580026733.01.T01:CDS
CTAAGGCCCAAATGCCCAAT+AGG 0.389538 5:+43201251 None:intergenic
AAAGGAAGCCATTTGACTTC+TGG 0.391324 5:-43199789 MsG0580026733.01.T01:CDS
TTGCAGTAGACAGTCCTATT+GGG 0.421780 5:-43201265 MsG0580026733.01.T01:CDS
GTTTCAGATCGTTTGTCTAC+GGG 0.424933 5:-43200054 MsG0580026733.01.T01:intron
AGTGACTGGTGAAGCGCATT+GGG 0.431572 5:-43201055 MsG0580026733.01.T01:CDS
TGTTTCAGATCGTTTGTCTA+CGG 0.457934 5:-43200055 MsG0580026733.01.T01:intron
ACCGTTGTTGGTCGCTTACC+AGG 0.473865 5:-43200414 MsG0580026733.01.T01:intron
GCAGCTTTCCAGAAGTCAAA+TGG 0.488007 5:+43199781 None:intergenic
GTGCATTGTCCAGATACTAT+TGG 0.490967 5:-43201097 MsG0580026733.01.T01:intron
TTGTCATTGTGTGTGCCAGC+TGG 0.491293 5:+43200480 None:intergenic
CACCTTGATTATCGATCCAT+GGG 0.496778 5:-43200439 MsG0580026733.01.T01:CDS
AAGTGACTGGTGAAGCGCAT+TGG 0.514907 5:-43201056 MsG0580026733.01.T01:CDS
CAGTTGTTGCGTTTCCAACA+TGG 0.520574 5:-43201194 MsG0580026733.01.T01:CDS
ACACCTTGATTATCGATCCA+TGG 0.520694 5:-43200440 MsG0580026733.01.T01:CDS
CGCAACAACTGATAAAGCTC+AGG 0.529790 5:+43201206 None:intergenic
TTAATACCTGTGCTCCATGT+TGG 0.536239 5:+43201180 None:intergenic
TCGTTTGTCTACGGGAATTG+TGG 0.555672 5:-43200046 MsG0580026733.01.T01:CDS
TCAAATCATAGCAAACACTA+AGG 0.560660 5:+43201234 None:intergenic
AGAGAAGATGCCTATTGCTA+AGG 0.563526 5:-43199986 MsG0580026733.01.T01:intron
AATGACAAAAGAGAAAGTTA+TGG 0.563585 5:-43200465 MsG0580026733.01.T01:CDS
GTCACTTTAGTGAATGCTGC+AGG 0.565579 5:+43201072 None:intergenic
GCGTTTCCAACATGGAGCAC+AGG 0.566309 5:-43201186 MsG0580026733.01.T01:intron
GCAGCATTCACTAAAGTGAC+TGG 0.576618 5:-43201069 MsG0580026733.01.T01:CDS
ACCTGGTAAGCGACCAACAA+CGG 0.588128 5:+43200413 None:intergenic
ACCTTGATTATCGATCCATG+GGG 0.739227 5:-43200438 MsG0580026733.01.T01:CDS
CCTTGATTATCGATCCATGG+GGG 0.771910 5:-43200437 MsG0580026733.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAACAAAGTATCATAATTT+TGG + Chr5:43200189-43200208 None:intergenic 15.0%
!!! AATTTTTTGAATAGTAATGT+TGG + Chr5:43200511-43200530 None:intergenic 15.0%
!! ATAAAGAAGAGAAAAAAAGA+CGG + Chr5:43200967-43200986 None:intergenic 20.0%
!! GATGTTATATGATATTTCTT+AGG + Chr5:43200804-43200823 None:intergenic 20.0%
!! TAAATAATTACCTTAGCAAT+AGG + Chr5:43201085-43201104 None:intergenic 20.0%
! AACCATTAGAAAAGATTTAG+AGG - Chr5:43200259-43200278 MsG0580026733.01.T01:intron 25.0%
! AATGACAAAAGAGAAAGTTA+TGG - Chr5:43200593-43200612 MsG0580026733.01.T01:intron 25.0%
! AGTAAGAATATACATGAAGA+TGG + Chr5:43200144-43200163 None:intergenic 25.0%
! GAAAGTTATTAAGAAAGCTA+TGG - Chr5:43200401-43200420 MsG0580026733.01.T01:intron 25.0%
! GTAAGAATATACATGAAGAT+GGG + Chr5:43200143-43200162 None:intergenic 25.0%
! GTTCTATCAAAAACCATATT+TGG + Chr5:43200299-43200318 None:intergenic 25.0%
! TAATTAGTTGTTAGAAACGT+TGG + Chr5:43200488-43200507 None:intergenic 25.0%
!!! TATTTTGAGTATCATTACGA+AGG + Chr5:43200768-43200787 None:intergenic 25.0%
AAAAAAAGACGGTATCATTG+TGG + Chr5:43200956-43200975 None:intergenic 30.0%
CGAGAGTTGAATAAAGTAAT+TGG + Chr5:43200462-43200481 None:intergenic 30.0%
GATTTGATGAATGACTTATC+AGG - Chr5:43200541-43200560 MsG0580026733.01.T01:intron 30.0%
TCAAATCATAGCAAACACTA+AGG + Chr5:43199827-43199846 None:intergenic 30.0%
! GACCTCTAAATCTTTTCTAA+TGG + Chr5:43200264-43200283 None:intergenic 30.0%
! TATGGTTTTTGATAGAACAC+TGG - Chr5:43200301-43200320 MsG0580026733.01.T01:intron 30.0%
! TTTTCTAATGGTTTCTCGAA+TGG + Chr5:43200252-43200271 None:intergenic 30.0%
!! CAATGAGTTGATTCCAAATA+TGG - Chr5:43200283-43200302 MsG0580026733.01.T01:intron 30.0%
AAGATGGGAATGATGAAATC+AGG + Chr5:43200128-43200147 None:intergenic 35.0%
AAGGAAGAAAGAAACAAGGA+AGG + Chr5:43200749-43200768 None:intergenic 35.0%
ACCAATACTAGAGAATGAGA+TGG - Chr5:43201124-43201143 MsG0580026733.01.T01:intron 35.0%
TACGAAGGAAGAAAGAAACA+AGG + Chr5:43200753-43200772 None:intergenic 35.0%
TCCATCTCATTCTCTAGTAT+TGG + Chr5:43201128-43201147 None:intergenic 35.0%
TGTTTCAGATCGTTTGTCTA+CGG - Chr5:43201003-43201022 MsG0580026733.01.T01:intron 35.0%
TTAGTTGTTAGAAACGTTGG+TGG + Chr5:43200485-43200504 None:intergenic 35.0%
! CTGCTTAAAATATGCTGCTT+AGG - Chr5:43199918-43199937 MsG0580026733.01.T01:intron 35.0%
! GAAGTATCAAGTTTCTTACC+TGG + Chr5:43200665-43200684 None:intergenic 35.0%
! GTTTCTCGAATGGTTTTCTT+AGG + Chr5:43200242-43200261 None:intergenic 35.0%
!! TCTCATTCTCTAGTATTGGT+CGG + Chr5:43201124-43201143 None:intergenic 35.0%
AACATCATATGCAAGAGCTG+AGG - Chr5:43200818-43200837 MsG0580026733.01.T01:intron 40.0%
AAGACTTATCCCACTAAGTG+GGG + Chr5:43200350-43200369 None:intergenic 40.0%
ACACCTTGATTATCGATCCA+TGG - Chr5:43200618-43200637 MsG0580026733.01.T01:intron 40.0%
ACCTTGATTATCGATCCATG+GGG - Chr5:43200620-43200639 MsG0580026733.01.T01:intron 40.0%
AGAGAAGATGCCTATTGCTA+AGG - Chr5:43201072-43201091 MsG0580026733.01.T01:CDS 40.0%
CAAGACTTATCCCACTAAGT+GGG + Chr5:43200351-43200370 None:intergenic 40.0%
CACCTTGATTATCGATCCAT+GGG - Chr5:43200619-43200638 MsG0580026733.01.T01:intron 40.0%
CCTAGCAATACTTCTCTTCT+CGG - Chr5:43200086-43200105 MsG0580026733.01.T01:intron 40.0%
CTTCCTTTGCTGAAACGAAA+AGG + Chr5:43201257-43201276 None:intergenic 40.0%
GTGCATTGTCCAGATACTAT+TGG - Chr5:43199961-43199980 MsG0580026733.01.T01:intron 40.0%
GTTTCAGATCGTTTGTCTAC+GGG - Chr5:43201004-43201023 MsG0580026733.01.T01:intron 40.0%
TGTAATACACCCCACTTAGT+GGG + Chr5:43200917-43200936 None:intergenic 40.0%
TTAATACCTGTGCTCCATGT+TGG + Chr5:43199881-43199900 None:intergenic 40.0%
TTGCAGTAGACAGTCCTATT+GGG - Chr5:43199793-43199812 MsG0580026733.01.T01:CDS 40.0%
! AAAGGAAGCCATTTGACTTC+TGG - Chr5:43201269-43201288 MsG0580026733.01.T01:CDS 40.0%
! GTACCTTTTCGTTTCAGCAA+AGG - Chr5:43201251-43201270 MsG0580026733.01.T01:CDS 40.0%
!! CTCATTCTCTAGTATTGGTC+GGG + Chr5:43201123-43201142 None:intergenic 40.0%
ACAGGACAGCAAAAACAACC+AGG - Chr5:43200885-43200904 MsG0580026733.01.T01:intron 45.0%
AGACAGTCCTATTGGGCATT+TGG - Chr5:43199800-43199819 MsG0580026733.01.T01:intron 45.0%
CAGTTGTTGCGTTTCCAACA+TGG - Chr5:43199864-43199883 MsG0580026733.01.T01:intron 45.0%
CCAAGACTTATCCCACTAAG+TGG + Chr5:43200352-43200371 None:intergenic 45.0%
CCACTTAGTGGGATAAGTCT+TGG - Chr5:43200349-43200368 MsG0580026733.01.T01:intron 45.0%
CCTTGATTATCGATCCATGG+GGG - Chr5:43200621-43200640 MsG0580026733.01.T01:intron 45.0%
CGCAACAACTGATAAAGCTC+AGG + Chr5:43199855-43199874 None:intergenic 45.0%
CTGTAATACACCCCACTTAG+TGG + Chr5:43200918-43200937 None:intergenic 45.0%
GACAGTCCTATTGGGCATTT+GGG - Chr5:43199801-43199820 MsG0580026733.01.T01:intron 45.0%
GCAGCATTCACTAAAGTGAC+TGG - Chr5:43199989-43200008 MsG0580026733.01.T01:CDS 45.0%
GCAGCTTTCCAGAAGTCAAA+TGG + Chr5:43201280-43201299 None:intergenic 45.0%
GTTGCAGTAGACAGTCCTAT+TGG - Chr5:43199792-43199811 MsG0580026733.01.T01:CDS 45.0%
TCGTTTGTCTACGGGAATTG+TGG - Chr5:43201012-43201031 MsG0580026733.01.T01:intron 45.0%
! GTCACTTTAGTGAATGCTGC+AGG + Chr5:43199989-43200008 None:intergenic 45.0%
!! CCGAGAAGAGAAGTATTGCT+AGG + Chr5:43200089-43200108 None:intergenic 45.0%
AAGTGACTGGTGAAGCGCAT+TGG - Chr5:43200002-43200021 MsG0580026733.01.T01:CDS 50.0%
ACACCCCACTTAGTGGGAAA+AGG + Chr5:43200911-43200930 None:intergenic 50.0%
ACCTGGTAAGCGACCAACAA+CGG + Chr5:43200648-43200667 None:intergenic 50.0%
AGTGACTGGTGAAGCGCATT+GGG - Chr5:43200003-43200022 MsG0580026733.01.T01:CDS 50.0%
ATGGCTTACCTCAGGGAGAT+GGG - Chr5:43200847-43200866 MsG0580026733.01.T01:intron 50.0%
CCCCCATGGATCGATAATCA+AGG + Chr5:43200624-43200643 None:intergenic 50.0%
CTAAGGCCCAAATGCCCAAT+AGG + Chr5:43199810-43199829 None:intergenic 50.0%
CTGCAGGCACCAATAGTATC+TGG + Chr5:43199973-43199992 None:intergenic 50.0%
CTTATCCCACTAAGTGGGGT+CGG + Chr5:43200346-43200365 None:intergenic 50.0%
GCCTCATATGGCTTACCTCA+GGG - Chr5:43200840-43200859 MsG0580026733.01.T01:intron 50.0%
TATGGCTTACCTCAGGGAGA+TGG - Chr5:43200846-43200865 MsG0580026733.01.T01:intron 50.0%
TCCCTGAGGTAAGCCATATG+AGG + Chr5:43200844-43200863 None:intergenic 50.0%
TTGTCATTGTGTGTGCCAGC+TGG + Chr5:43200581-43200600 None:intergenic 50.0%
! AGGCCTTTTCCCACTAAGTG+GGG - Chr5:43200905-43200924 MsG0580026733.01.T01:intron 50.0%
! CAGGCCTTTTCCCACTAAGT+GGG - Chr5:43200904-43200923 MsG0580026733.01.T01:intron 50.0%
! GGGGAAGGAGTGTGTATTAC+AGG - Chr5:43200867-43200886 MsG0580026733.01.T01:intron 50.0%
ACCGTTGTTGGTCGCTTACC+AGG - Chr5:43200644-43200663 MsG0580026733.01.T01:intron 55.0%
ACTAAGTGGGGTCGGCTACA+TGG + Chr5:43200338-43200357 None:intergenic 55.0%
ATGTAGCCGACCCCACTTAG+TGG - Chr5:43200337-43200356 MsG0580026733.01.T01:intron 55.0%
CCACTTAGTGGGAAAAGGCC+TGG + Chr5:43200906-43200925 None:intergenic 55.0%
GCAAGAGCTGAGGCCTCATA+TGG - Chr5:43200828-43200847 MsG0580026733.01.T01:intron 55.0%
GCGTTTCCAACATGGAGCAC+AGG - Chr5:43199872-43199891 MsG0580026733.01.T01:intron 55.0%
GGCCTCATATGGCTTACCTC+AGG - Chr5:43200839-43200858 MsG0580026733.01.T01:intron 55.0%
TGGCTTACCTCAGGGAGATG+GGG - Chr5:43200848-43200867 MsG0580026733.01.T01:intron 55.0%
TGTAGCCGACCCCACTTAGT+GGG - Chr5:43200338-43200357 MsG0580026733.01.T01:intron 55.0%
TTACCTCAGGGAGATGGGGA+AGG - Chr5:43200852-43200871 MsG0580026733.01.T01:intron 55.0%
! CCAGGCCTTTTCCCACTAAG+TGG - Chr5:43200903-43200922 MsG0580026733.01.T01:intron 55.0%
ACTCCTTCCCCATCTCCCTG+AGG + Chr5:43200858-43200877 None:intergenic 60.0%
GATCCATGGGGGACCGTTGT+TGG - Chr5:43200632-43200651 MsG0580026733.01.T01:intron 60.0%
CGACCAACAACGGTCCCCCA+TGG + Chr5:43200638-43200657 None:intergenic 65.0%
GTCATAGCTGCTGCGCCAGC+TGG - Chr5:43200563-43200582 MsG0580026733.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 43199771 43201309 43199771 ID=MsG0580026733.01;Name=MsG0580026733.01
Chr5 mRNA 43199771 43201309 43199771 ID=MsG0580026733.01.T01;Parent=MsG0580026733.01;Name=MsG0580026733.01.T01;_AED=0.26;_eAED=0.26;_QI=0|0|0|1|1|1|5|0|147
Chr5 exon 43201187 43201309 43201187 ID=MsG0580026733.01.T01:exon:13610;Parent=MsG0580026733.01.T01
Chr5 exon 43201014 43201106 43201014 ID=MsG0580026733.01.T01:exon:13609;Parent=MsG0580026733.01.T01
Chr5 exon 43200415 43200517 43200415 ID=MsG0580026733.01.T01:exon:13608;Parent=MsG0580026733.01.T01
Chr5 exon 43199987 43200069 43199987 ID=MsG0580026733.01.T01:exon:13607;Parent=MsG0580026733.01.T01
Chr5 exon 43199771 43199812 43199771 ID=MsG0580026733.01.T01:exon:13606;Parent=MsG0580026733.01.T01
Chr5 CDS 43201187 43201309 43201187 ID=MsG0580026733.01.T01:cds;Parent=MsG0580026733.01.T01
Chr5 CDS 43201014 43201106 43201014 ID=MsG0580026733.01.T01:cds;Parent=MsG0580026733.01.T01
Chr5 CDS 43200415 43200517 43200415 ID=MsG0580026733.01.T01:cds;Parent=MsG0580026733.01.T01
Chr5 CDS 43199987 43200069 43199987 ID=MsG0580026733.01.T01:cds;Parent=MsG0580026733.01.T01
Chr5 CDS 43199771 43199812 43199771 ID=MsG0580026733.01.T01:cds;Parent=MsG0580026733.01.T01
Gene Sequence

>MsG0580026733.01.T01

ATGTTTTCAGGCAAGGATATTGTTGCAGTAGACAGTCCTATTGGGCATTTGGGCCTTAGTGTTTGCTATGATTTGAGATTTCCTGAGCTTTATCAGTTGTTGCGTTTCCAACATGGAGCACAGATACTATTGGTGCCTGCAGCATTCACTAAAGTGACTGGTGAAGCGCATTGGGAGATTCTTCTTCGTGCTCGTGCAATTGAAAATCAATGCTATGTCATAGCTGCTGCGCCAGCTGGCACACACAATGACAAAAGAGAAAGTTATGGTGACACCTTGATTATCGATCCATGGGGGACCGTTGTTGGTCGCTTACCAGATCGTTTGTCTACGGGAATTGTGGTAGCTGATATTGATTTATCATTAGTTGATTCAGTAAGAGAGAAGATGCCTATTGCTAAGCAAAGGAAGCCATTTGACTTCTGGAAAGCTGCTTCTCTATAG
Protein sequence

>MsG0580026733.01.T01

MFSGKDIVAVDSPIGHLGLSVCYDLRFPELYQLLRFQHGAQILLVPAAFTKVTGEAHWEILLRARAIENQCYVIAAAPAGTHNDKRESYGDTLIIDPWGTVVGRLPDRLSTGIVVADIDLSLVDSVREKMPIAKQRKPFDFWKAASL*