AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380015591.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015591.01.T01 MTR_3g073040 85.507 276 4 2 1 240 1 276 4.19e-165 470
MsG0380015591.01.T01 MTR_3g073040 85.507 276 4 2 1 240 1 276 5.02e-163 470
MsG0380015591.01.T01 MTR_3g073040 85.507 276 4 2 1 240 1 276 5.99e-163 470
MsG0380015591.01.T01 MTR_5g459350 78.125 192 42 0 49 240 61 252 3.09e-90 282
MsG0380015591.01.T01 MTR_3g097270 57.732 194 78 4 49 240 82 273 7.12e-68 223
MsG0380015591.01.T01 MTR_3g086340 51.741 201 88 1 49 240 101 301 1.42e-64 213
MsG0380015591.01.T01 MTR_3g086340 51.741 201 88 1 49 240 101 301 2.34e-63 211
MsG0380015591.01.T01 MTR_4g101410 36.293 259 144 5 1 240 6 262 1.46e-44 159
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015591.01.T01 AT4G08180 75.000 196 45 2 49 240 115 310 1.51e-96 300
MsG0380015591.01.T01 AT4G08180 75.000 196 45 2 49 240 115 310 1.51e-96 300
MsG0380015591.01.T01 AT4G08180 75.000 196 45 2 49 240 115 310 1.58e-96 300
MsG0380015591.01.T01 AT4G08180 75.000 196 45 2 49 240 115 310 1.59e-96 300
MsG0380015591.01.T01 AT2G31020 72.081 197 50 1 49 240 100 296 1.00e-86 273
MsG0380015591.01.T01 AT1G77730 54.737 190 86 0 49 238 63 252 3.12e-69 214
MsG0380015591.01.T01 AT1G13170 55.224 201 80 3 49 240 104 303 1.27e-67 223
MsG0380015591.01.T01 AT1G13170 55.224 201 80 3 49 240 104 303 2.03e-67 223
MsG0380015591.01.T01 AT4G22540 37.200 250 146 6 1 240 6 254 1.74e-46 164
MsG0380015591.01.T01 AT4G22540 37.200 250 146 6 1 240 6 254 1.74e-46 164
MsG0380015591.01.T01 AT4G12460 40.609 197 110 4 49 240 37 231 9.72e-43 153
MsG0380015591.01.T01 AT4G12460 40.609 197 110 4 49 240 37 231 3.46e-42 152
MsG0380015591.01.T01 AT4G12460 40.609 197 110 4 49 240 37 231 3.46e-42 152
MsG0380015591.01.T01 AT4G12460 40.404 198 110 5 49 240 37 232 5.59e-41 148
MsG0380015591.01.T01 AT4G12460 40.404 198 110 5 49 240 37 232 1.59e-40 147

Find 51 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTTCCAATAGTGAATTAA+TGG 0.249195 3:+72262164 MsG0380015591.01.T01:CDS
AATTCACTATTGGAAATTCT+AGG 0.249524 3:-72262159 None:intergenic
GAAACTAAGAAATCGGCTTC+TGG 0.327367 3:+72262218 MsG0380015591.01.T01:CDS
CTCTCTTACTACAAGATTCA+TGG 0.337848 3:+72261752 MsG0380015591.01.T01:CDS
TGACACGTTACGCCATTTAG+AGG 0.339329 3:+72262353 MsG0380015591.01.T01:CDS
AATGATGTAGTACCTCTAAA+TGG 0.341796 3:-72262365 None:intergenic
AGTGAGTGAAGCGGCTATTC+AGG 0.343205 3:+72262248 MsG0380015591.01.T01:CDS
GTTAATCATGAAACTGAAAA+AGG 0.347607 3:+72261791 MsG0380015591.01.T01:CDS
AGGAGCCATTAATTCACTAT+TGG 0.357424 3:-72262169 None:intergenic
CGATGGTTTGTTCTTCAAGA+TGG 0.400251 3:+72261725 MsG0380015591.01.T01:CDS
CAACTGAGAAACTAAGAAAT+CGG 0.411924 3:+72262211 MsG0380015591.01.T01:CDS
AGATTCATCGCCGATAACTT+TGG 0.428593 3:-72261816 None:intergenic
ATGAATCGGAGCTGCCGAAT+CGG 0.438007 3:-72261568 None:intergenic
CAACATCGTCGAAAACCTTT+CGG 0.456810 3:+72261878 MsG0380015591.01.T01:CDS
ATTCACTATTGGAAATTCTA+GGG 0.475049 3:-72262158 None:intergenic
GCGACGGATGGTGGTGGAGG+AGG 0.478863 3:-72261537 None:intergenic
TATTTCCGACCAAGCTTCAC+CGG 0.500895 3:+72261479 MsG0380015591.01.T01:CDS
CTCGCTGACTACCGTTGCTA+TGG 0.503839 3:-72261599 None:intergenic
GAGGTTTCACCGGTGAAGCT+TGG 0.510958 3:-72261488 None:intergenic
GAAATTGTTACGTTATCCAC+AGG 0.511919 3:-72262189 None:intergenic
CGTCGCTGTTAGATCCGATT+CGG 0.518275 3:+72261554 MsG0380015591.01.T01:CDS
GGATGGTGGTGGAGGAGGCA+TGG 0.525114 3:-72261532 None:intergenic
CTATGGCTGTGACTATGAAT+CGG 0.529061 3:-72261582 None:intergenic
TGAGGATCGTGTGGCGTGGA+TGG 0.535282 3:+72262107 MsG0380015591.01.T01:CDS
AGAAATCGGCTTCTGGATGA+AGG 0.540164 3:+72262225 MsG0380015591.01.T01:CDS
ACAGCGACGGATGGTGGTGG+AGG 0.544436 3:-72261540 None:intergenic
TTGATTAACGAACCTTGAGA+TGG 0.547636 3:-72261907 None:intergenic
AACGGAGACGGAGGTTTCAC+CGG 0.553058 3:-72261498 None:intergenic
TTTCACCGGTGAAGCTTGGT+CGG 0.567810 3:-72261484 None:intergenic
TAGTGAATTAATGGCTCCTG+TGG 0.568682 3:+72262173 MsG0380015591.01.T01:CDS
GCGTAACGTGTCAATGAGGA+TGG 0.571861 3:-72262343 None:intergenic
TTTCGGTGAAATCCATCTCA+AGG 0.575656 3:+72261895 MsG0380015591.01.T01:CDS
CTAACAGCGACGGATGGTGG+TGG 0.587509 3:-72261543 None:intergenic
GTGAAGTCAGTGAACGGAGA+CGG 0.594981 3:-72261510 None:intergenic
GATCTAACAGCGACGGATGG+TGG 0.598948 3:-72261546 None:intergenic
TGAAGCTTGGTCGGAAATAG+CGG 0.604247 3:-72261475 None:intergenic
TCGGATCTAACAGCGACGGA+TGG 0.614767 3:-72261549 None:intergenic
ATAGCGGAGACGCAGCAGAA+AGG 0.622468 3:-72261459 None:intergenic
GGCATGGTGAAGTCAGTGAA+CGG 0.632703 3:-72261516 None:intergenic
CACGTGAGGATCGTGTGGCG+TGG 0.635301 3:+72262103 MsG0380015591.01.T01:CDS
TTGAGATGGATTTCACCGAA+AGG 0.638900 3:-72261893 None:intergenic
TCGGCGATGAATCTATTCGA+AGG 0.646280 3:+72261825 MsG0380015591.01.T01:CDS
GTAAAGGATGGAGACCTCGA+TGG 0.652126 3:+72261708 MsG0380015591.01.T01:intron
AGAGTCACGTGAGGATCGTG+TGG 0.664779 3:+72262098 MsG0380015591.01.T01:CDS
CATAGTCACAGCCATAGCAA+CGG 0.676128 3:+72261588 MsG0380015591.01.T01:CDS
AATGGCGTAACGTGTCAATG+AGG 0.676170 3:-72262347 None:intergenic
CGAATCGGATCTAACAGCGA+CGG 0.686757 3:-72261553 None:intergenic
AAGTCAGTGAACGGAGACGG+AGG 0.689651 3:-72261507 None:intergenic
TTTGAGAGCAGAGTCACGTG+AGG 0.696014 3:+72262089 MsG0380015591.01.T01:CDS
GGATGAAGGAGTGAGTGAAG+CGG 0.698470 3:+72262239 MsG0380015591.01.T01:CDS
TCTTGAAGAACAAACCATCG+AGG 0.774029 3:-72261722 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTCCAATAGTGAATTAA+TGG + Chr3:72262164-72262183 MsG0380015591.01.T01:CDS 20.0%
!! ATATTGATAAACTGTGATTT+AGG + Chr3:72261996-72262015 MsG0380015591.01.T01:intron 20.0%
! AATTCACTATTGGAAATTCT+AGG - Chr3:72262162-72262181 None:intergenic 25.0%
! ATTCACTATTGGAAATTCTA+GGG - Chr3:72262161-72262180 None:intergenic 25.0%
! GTTAATCATGAAACTGAAAA+AGG + Chr3:72261791-72261810 MsG0380015591.01.T01:CDS 25.0%
!! ATCAGATGATAAGAGATTTT+CGG + Chr3:72262041-72262060 MsG0380015591.01.T01:CDS 25.0%
!! TGATTAACGATGATTTTATC+AGG - Chr3:72261779-72261798 None:intergenic 25.0%
!!! TTCAAACATAGTTGATGAAT+TGG - Chr3:72261938-72261957 None:intergenic 25.0%
AATGATGTAGTACCTCTAAA+TGG - Chr3:72262368-72262387 None:intergenic 30.0%
CAACTGAGAAACTAAGAAAT+CGG + Chr3:72262211-72262230 MsG0380015591.01.T01:CDS 30.0%
CTGTATAAATGGGTGAATTA+CGG + Chr3:72261686-72261705 MsG0380015591.01.T01:intron 30.0%
AAATGGGTGAATTACGGTAA+AGG + Chr3:72261692-72261711 MsG0380015591.01.T01:intron 35.0%
AGGAGCCATTAATTCACTAT+TGG - Chr3:72262172-72262191 None:intergenic 35.0%
ATCTCGGGATACTGTATAAA+TGG + Chr3:72261675-72261694 MsG0380015591.01.T01:intron 35.0%
CTCTCTTACTACAAGATTCA+TGG + Chr3:72261752-72261771 MsG0380015591.01.T01:CDS 35.0%
GAAAAAGGCTCCAAAGTTAT+CGG + Chr3:72261806-72261825 MsG0380015591.01.T01:CDS 35.0%
GAAATTGTTACGTTATCCAC+AGG - Chr3:72262192-72262211 None:intergenic 35.0%
TCTCGGGATACTGTATAAAT+GGG + Chr3:72261676-72261695 MsG0380015591.01.T01:intron 35.0%
TTGATTAACGAACCTTGAGA+TGG - Chr3:72261910-72261929 None:intergenic 35.0%
!!! TAAGAGATTTTCGGTGTTCA+CGG + Chr3:72262050-72262069 MsG0380015591.01.T01:CDS 35.0%
AGATTCATCGCCGATAACTT+TGG - Chr3:72261819-72261838 None:intergenic 40.0%
CAACATCGTCGAAAACCTTT+CGG + Chr3:72261878-72261897 MsG0380015591.01.T01:CDS 40.0%
CTATGGCTGTGACTATGAAT+CGG - Chr3:72261585-72261604 None:intergenic 40.0%
TAGTGAATTAATGGCTCCTG+TGG + Chr3:72262173-72262192 MsG0380015591.01.T01:CDS 40.0%
TCTTGAAGAACAAACCATCG+AGG - Chr3:72261725-72261744 None:intergenic 40.0%
TTTCGGTGAAATCCATCTCA+AGG + Chr3:72261895-72261914 MsG0380015591.01.T01:CDS 40.0%
! AGGTTTTCGACGATGTTGAT+AGG - Chr3:72261876-72261895 None:intergenic 40.0%
! GAAACTAAGAAATCGGCTTC+TGG + Chr3:72262218-72262237 MsG0380015591.01.T01:CDS 40.0%
! GGTTTTCGACGATGTTGATA+GGG - Chr3:72261875-72261894 None:intergenic 40.0%
! TTGAGATGGATTTCACCGAA+AGG - Chr3:72261896-72261915 None:intergenic 40.0%
!! CGATGGTTTGTTCTTCAAGA+TGG + Chr3:72261725-72261744 MsG0380015591.01.T01:CDS 40.0%
!!! AAGAGATTTTCGGTGTTCAC+GGG + Chr3:72262051-72262070 MsG0380015591.01.T01:CDS 40.0%
AATGGCGTAACGTGTCAATG+AGG - Chr3:72262350-72262369 None:intergenic 45.0%
CATAGTCACAGCCATAGCAA+CGG + Chr3:72261588-72261607 MsG0380015591.01.T01:CDS 45.0%
GGGTGAATTACGGTAAAGGA+TGG + Chr3:72261696-72261715 MsG0380015591.01.T01:intron 45.0%
TATTTCCGACCAAGCTTCAC+CGG + Chr3:72261479-72261498 MsG0380015591.01.T01:CDS 45.0%
TCGGCGATGAATCTATTCGA+AGG + Chr3:72261825-72261844 MsG0380015591.01.T01:CDS 45.0%
TGAAGCTTGGTCGGAAATAG+CGG - Chr3:72261478-72261497 None:intergenic 45.0%
TGACACGTTACGCCATTTAG+AGG + Chr3:72262353-72262372 MsG0380015591.01.T01:CDS 45.0%
TTCAAATCAACAACCACCGC+CGG - Chr3:72261630-72261649 None:intergenic 45.0%
TTGAAGATCAACGACCTCGT+CGG + Chr3:72261645-72261664 MsG0380015591.01.T01:intron 45.0%
! AGAAATCGGCTTCTGGATGA+AGG + Chr3:72262225-72262244 MsG0380015591.01.T01:CDS 45.0%
AGTGAGTGAAGCGGCTATTC+AGG + Chr3:72262248-72262267 MsG0380015591.01.T01:CDS 50.0%
ATCAACGACCTCGTCGGAAA+TGG + Chr3:72261651-72261670 MsG0380015591.01.T01:intron 50.0%
ATGAATCGGAGCTGCCGAAT+CGG - Chr3:72261571-72261590 None:intergenic 50.0%
CCTCGTCGGAAATGGAATCT+CGG + Chr3:72261659-72261678 MsG0380015591.01.T01:intron 50.0%
CGAATCGGATCTAACAGCGA+CGG - Chr3:72261556-72261575 None:intergenic 50.0%
CGTCGCTGTTAGATCCGATT+CGG + Chr3:72261554-72261573 MsG0380015591.01.T01:CDS 50.0%
CTCGTCGGAAATGGAATCTC+GGG + Chr3:72261660-72261679 MsG0380015591.01.T01:intron 50.0%
GCGTAACGTGTCAATGAGGA+TGG - Chr3:72262346-72262365 None:intergenic 50.0%
GGATGAAGGAGTGAGTGAAG+CGG + Chr3:72262239-72262258 MsG0380015591.01.T01:CDS 50.0%
GGCATGGTGAAGTCAGTGAA+CGG - Chr3:72261519-72261538 None:intergenic 50.0%
GTAAAGGATGGAGACCTCGA+TGG + Chr3:72261708-72261727 MsG0380015591.01.T01:intron 50.0%
GTGAAGTCAGTGAACGGAGA+CGG - Chr3:72261513-72261532 None:intergenic 50.0%
TTTCACCGGTGAAGCTTGGT+CGG - Chr3:72261487-72261506 None:intergenic 50.0%
TTTGAGAGCAGAGTCACGTG+AGG + Chr3:72262089-72262108 MsG0380015591.01.T01:CDS 50.0%
AACGGAGACGGAGGTTTCAC+CGG - Chr3:72261501-72261520 None:intergenic 55.0%
AAGTCAGTGAACGGAGACGG+AGG - Chr3:72261510-72261529 None:intergenic 55.0%
AGAGTCACGTGAGGATCGTG+TGG + Chr3:72262098-72262117 MsG0380015591.01.T01:CDS 55.0%
CCGAGATTCCATTTCCGACG+AGG - Chr3:72261662-72261681 None:intergenic 55.0%
GAGGTTTCACCGGTGAAGCT+TGG - Chr3:72261491-72261510 None:intergenic 55.0%
GATCTAACAGCGACGGATGG+TGG - Chr3:72261549-72261568 None:intergenic 55.0%
TCGGATCTAACAGCGACGGA+TGG - Chr3:72261552-72261571 None:intergenic 55.0%
! ATAGCGGAGACGCAGCAGAA+AGG - Chr3:72261462-72261481 None:intergenic 55.0%
! CTCGCTGACTACCGTTGCTA+TGG - Chr3:72261602-72261621 None:intergenic 55.0%
CGGTAGTCAGCGAGAACAGC+CGG + Chr3:72261608-72261627 MsG0380015591.01.T01:intron 60.0%
TAGTCAGCGAGAACAGCCGG+CGG + Chr3:72261611-72261630 MsG0380015591.01.T01:intron 60.0%
TGAGGATCGTGTGGCGTGGA+TGG + Chr3:72262107-72262126 MsG0380015591.01.T01:CDS 60.0%
! CTAACAGCGACGGATGGTGG+TGG - Chr3:72261546-72261565 None:intergenic 60.0%
CACGTGAGGATCGTGTGGCG+TGG + Chr3:72262103-72262122 MsG0380015591.01.T01:CDS 65.0%
!! ACAGCGACGGATGGTGGTGG+AGG - Chr3:72261543-72261562 None:intergenic 65.0%
!! GGATGGTGGTGGAGGAGGCA+TGG - Chr3:72261535-72261554 None:intergenic 65.0%
TCAGCGAGAACAGCCGGCGG+TGG + Chr3:72261614-72261633 MsG0380015591.01.T01:intron 70.0%
!! GCGACGGATGGTGGTGGAGG+AGG - Chr3:72261540-72261559 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 72261453 72262392 72261453 ID=MsG0380015591.01;Name=MsG0380015591.01
Chr3 mRNA 72261453 72262392 72261453 ID=MsG0380015591.01.T01;Parent=MsG0380015591.01;Name=MsG0380015591.01.T01;_AED=0.46;_eAED=0.47;_QI=0|0.5|0|1|1|1|3|0|244
Chr3 exon 72261453 72261609 72261453 ID=MsG0380015591.01.T01:exon:632;Parent=MsG0380015591.01.T01
Chr3 exon 72261714 72261916 72261714 ID=MsG0380015591.01.T01:exon:633;Parent=MsG0380015591.01.T01
Chr3 exon 72262018 72262392 72262018 ID=MsG0380015591.01.T01:exon:634;Parent=MsG0380015591.01.T01
Chr3 CDS 72261453 72261609 72261453 ID=MsG0380015591.01.T01:cds;Parent=MsG0380015591.01.T01
Chr3 CDS 72261714 72261916 72261714 ID=MsG0380015591.01.T01:cds;Parent=MsG0380015591.01.T01
Chr3 CDS 72262018 72262392 72262018 ID=MsG0380015591.01.T01:cds;Parent=MsG0380015591.01.T01
Gene Sequence

>MsG0380015591.01.T01

ATGCATCCTTTCTGCTGCGTCTCCGCTATTTCCGACCAAGCTTCACCGGTGAAACCTCCGTCTCCGTTCACTGACTTCACCATGCCTCCTCCACCACCATCCGTCGCTGTTAGATCCGATTCGGCAGCTCCGATTCATAGTCACAGCCATAGCAACGGATGGAGACCTCGATGGTTTGTTCTTCAAGATGGAGTTCTCTCTTACTACAAGATTCATGGACCTGATAAAATCATCGTTAATCATGAAACTGAAAAAGGCTCCAAAGTTATCGGCGATGAATCTATTCGAAGGATCAATCGCAATCGTAATTCTTATCCCTATCAACATCGTCGAAAACCTTTCGGTGAAATCCATCTCAAGGTTTCAACGATTCGCGAGAGTAAATCAGATGATAAGAGATTTTCGGTGTTCACGGGAATGAAGAGACTTCATTTGAGAGCAGAGTCACGTGAGGATCGTGTGGCGTGGATGGAAGCTTTGCAAGCAGTGAAAGATATGTTCCCTAGAATTTCCAATAGTGAATTAATGGCTCCTGTGGATAACGTAACAATTTCAACTGAGAAACTAAGAAATCGGCTTCTGGATGAAGGAGTGAGTGAAGCGGCTATTCAGGACAGTGAACAAATTATGAAAACTGAGTTTGCAGCGTTACAGAATCAATTAGTGTTGCTTAAGCAGAAGCATTCCATCCTCATTGACACGTTACGCCATTTAGAGGTACTACATCATTTTTAA

Protein sequence

>MsG0380015591.01.T01

MHPFCCVSAISDQASPVKPPSPFTDFTMPPPPPSVAVRSDSAAPIHSHSHSNGWRPRWFVLQDGVLSYYKIHGPDKIIVNHETEKGSKVIGDESIRRINRNRNSYPYQHRRKPFGEIHLKVSTIRESKSDDKRFSVFTGMKRLHLRAESREDRVAWMEALQAVKDMFPRISNSELMAPVDNVTISTEKLRNRLLDEGVSEAAIQDSEQIMKTEFAALQNQLVLLKQKHSILIDTLRHLEVLHHF*