AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021670.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021670.01.T01 MTR_5g089500 88.571 140 16 0 1 140 1 140 8.06e-88 252
MsG0480021670.01.T01 MTR_0180s0070 97.692 130 3 0 11 140 6 135 8.34e-85 244
MsG0480021670.01.T01 MTR_7g006340 50.413 121 60 0 2 122 1 121 1.02e-31 109
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021670.01.T01 AT5G01430 80.000 140 28 0 1 140 1 140 1.64e-81 236
MsG0480021670.01.T01 AT5G01430 80.000 140 28 0 1 140 1 140 1.64e-81 236
MsG0480021670.01.T01 AT3G49420 80.000 140 28 0 1 140 1 140 1.64e-81 236
MsG0480021670.01.T01 AT3G49420 80.000 140 28 0 1 140 1 140 1.64e-81 236
MsG0480021670.01.T01 AT3G49420 80.000 140 28 0 1 140 1 140 1.64e-81 236
MsG0480021670.01.T01 AT3G03180 76.429 140 33 0 1 140 1 140 6.49e-77 224
MsG0480021670.01.T01 AT3G03180 75.781 128 31 0 1 128 1 128 1.07e-68 206
MsG0480021670.01.T01 AT3G03180 74.510 102 26 0 39 140 1 102 8.51e-54 165
MsG0480021670.01.T01 AT1G05785 47.015 134 70 1 4 137 3 135 2.54e-39 129
MsG0480021670.01.T01 AT1G05785 47.015 134 70 1 4 137 3 135 2.54e-39 129
MsG0480021670.01.T01 AT1G05785 47.015 134 70 1 4 137 3 135 2.54e-39 129
MsG0480021670.01.T01 AT1G05785 46.154 130 70 0 4 133 3 132 1.17e-38 129
MsG0480021670.01.T01 AT1G05785 46.154 130 70 0 4 133 3 132 1.17e-38 129
MsG0480021670.01.T01 AT1G05785 48.760 121 62 0 4 124 3 123 1.50e-38 127
MsG0480021670.01.T01 AT1G05785 46.875 128 67 1 10 137 3 129 1.14e-35 120

Find 41 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCAGATCCTCTTTGTTTC+TGG 0.102218 4:-62704385 MsG0480021670.01.T01:intron
TATATTGGGATGGCCTATTT+TGG 0.127317 4:-62704156 MsG0480021670.01.T01:CDS
AGGATTCTTGATTCTTATAT+TGG 0.190758 4:-62704171 MsG0480021670.01.T01:CDS
TTGCAGAGGATTCCTGTTCT+TGG 0.230649 4:-62703987 MsG0480021670.01.T01:CDS
GAGATTGGATTGGGATTAAC+AGG 0.300780 4:-62704583 MsG0480021670.01.T01:CDS
GGAATGATTGTGGAATCTTA+TGG 0.317792 4:-62704134 MsG0480021670.01.T01:CDS
ATGGGTTCCTCGTACTCTTC+AGG 0.321975 4:-62704115 MsG0480021670.01.T01:intron
TTGCTTACAGATCGAATATA+TGG 0.343776 4:+62703948 None:intergenic
GGATTCTTGATTCTTATATT+GGG 0.348817 4:-62704170 MsG0480021670.01.T01:CDS
TCCACAATCATTCCCAAAAT+AGG 0.361752 4:+62704143 None:intergenic
CATGAAACGTAGTAATTTCA+AGG 0.366317 4:-62704320 MsG0480021670.01.T01:intron
GTGTAGGGGACAGTCTCATT+TGG 0.375348 4:-62704197 MsG0480021670.01.T01:intron
GGATTGGGATTAACAGGCTT+TGG 0.379485 4:-62704577 MsG0480021670.01.T01:CDS
GAATGATTGTGGAATCTTAT+GGG 0.399827 4:-62704133 MsG0480021670.01.T01:CDS
TGTAGGGGACAGTCTCATTT+GGG 0.433564 4:-62704196 MsG0480021670.01.T01:intron
CATAAAACAGAGATTGGATT+GGG 0.436662 4:-62704592 MsG0480021670.01.T01:intron
TGGATTTCAGTCCAATGGTC+AGG 0.446122 4:+62704356 None:intergenic
TCTTGATTCTTATATTGGGA+TGG 0.451561 4:-62704166 MsG0480021670.01.T01:CDS
GACAAGGGTTTGCTAGCAAT+GGG 0.452057 4:-62704517 MsG0480021670.01.T01:CDS
AGAGGATTCCTGTTCTTGGT+TGG 0.473898 4:-62703983 MsG0480021670.01.T01:CDS
CGTTATATTCTTCTTCGACA+AGG 0.477898 4:-62704533 MsG0480021670.01.T01:CDS
CGACAAGGGTTTGCTAGCAA+TGG 0.479749 4:-62704518 MsG0480021670.01.T01:CDS
GTTATATTCTTCTTCGACAA+GGG 0.489982 4:-62704532 MsG0480021670.01.T01:CDS
TGAACAAACCAACCAAGAAC+AGG 0.496033 4:+62703975 None:intergenic
TCTGGAGTATCCCTGACCAT+TGG 0.509875 4:-62704367 MsG0480021670.01.T01:CDS
ACATAAAACAGAGATTGGAT+TGG 0.534212 4:-62704593 MsG0480021670.01.T01:intron
GGGACAGTCTCATTTGGGAT+AGG 0.538151 4:-62704191 MsG0480021670.01.T01:CDS
CAGATCCAGAGCTGTTACAC+AGG 0.547574 4:+62703528 None:intergenic
CATGGTGGATTTCAGTCCAA+TGG 0.562388 4:+62704351 None:intergenic
TGAACGCTATCGAGGTAGGC+GGG 0.562724 4:-62703553 MsG0480021670.01.T01:CDS
CTTGCGATCATTCATCTCAA+AGG 0.568561 4:+62704926 None:intergenic
TGTTTGAACGCTATCGAGGT+AGG 0.608217 4:-62703557 MsG0480021670.01.T01:CDS
GGATTTCAGTCCAATGGTCA+GGG 0.609217 4:+62704357 None:intergenic
CGAAGAAGAATATAACGCCA+AGG 0.616854 4:+62704539 None:intergenic
ACGTTTCATGAAGAATTGCA+TGG 0.620008 4:+62704333 None:intergenic
TTGAACGCTATCGAGGTAGG+CGG 0.621081 4:-62703554 MsG0480021670.01.T01:CDS
CAGCTGTTTGAACGCTATCG+AGG 0.639687 4:-62703561 MsG0480021670.01.T01:CDS
GGGATACTCCAGAAACAAAG+AGG 0.640829 4:+62704377 None:intergenic
TGCAAGAAAACTGACAGTGT+AGG 0.675829 4:+62704005 None:intergenic
AACAAAACCTGAAGAGTACG+AGG 0.678654 4:+62704108 None:intergenic
TTTCATGAAGAATTGCATGG+TGG 0.687707 4:+62704336 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATAAATATTTGAATGAA+AGG + Chr4:62704574-62704593 None:intergenic 10.0%
!! TTTCATTCAAATATTTATAT+AGG - Chr4:62704573-62704592 MsG0480021670.01.T01:CDS 10.0%
!!! ATTTTTATTTTTGTTTATGC+TGG - Chr4:62703591-62703610 MsG0480021670.01.T01:intron 15.0%
!! ATGTAAATACAATTACAGAT+AGG + Chr4:62703783-62703802 None:intergenic 20.0%
! AGGATTCTTGATTCTTATAT+TGG - Chr4:62704304-62704323 MsG0480021670.01.T01:intron 25.0%
! ATGAACATCCATTAATTATG+TGG + Chr4:62704656-62704675 None:intergenic 25.0%
! GGATTCTTGATTCTTATATT+GGG - Chr4:62704305-62704324 MsG0480021670.01.T01:intron 25.0%
! TTGTAAATTCAATTCTGACA+TGG - Chr4:62703718-62703737 MsG0480021670.01.T01:intron 25.0%
! TTGTCATATCTAATTGCTAA+TGG - Chr4:62704419-62704438 MsG0480021670.01.T01:intron 25.0%
!! ACATAATTAATGGATGTTCA+TGG - Chr4:62704655-62704674 MsG0480021670.01.T01:intron 25.0%
ACATAAAACAGAGATTGGAT+TGG - Chr4:62703882-62703901 MsG0480021670.01.T01:intron 30.0%
ATGTCATGCAAATTAATGCA+TGG + Chr4:62704857-62704876 None:intergenic 30.0%
CATAAAACAGAGATTGGATT+GGG - Chr4:62703883-62703902 MsG0480021670.01.T01:intron 30.0%
CATATCTAATTGCTAATGGT+GGG - Chr4:62704423-62704442 MsG0480021670.01.T01:intron 30.0%
CATGAAACGTAGTAATTTCA+AGG - Chr4:62704155-62704174 MsG0480021670.01.T01:CDS 30.0%
CTAATATACGTGTTTGCATT+TGG - Chr4:62703858-62703877 MsG0480021670.01.T01:intron 30.0%
GAATGATTGTGGAATCTTAT+GGG - Chr4:62704342-62704361 MsG0480021670.01.T01:CDS 30.0%
GTTATATTCTTCTTCGACAA+GGG - Chr4:62703943-62703962 MsG0480021670.01.T01:intron 30.0%
TACATTTATACCAGTATGCA+TGG - Chr4:62704628-62704647 MsG0480021670.01.T01:intron 30.0%
TATCATTATGTGGTTGTGTA+GGG - Chr4:62704263-62704282 MsG0480021670.01.T01:intron 30.0%
TCATATCTAATTGCTAATGG+TGG - Chr4:62704422-62704441 MsG0480021670.01.T01:intron 30.0%
TCTGTCAAGTGATTATTGAA+TGG - Chr4:62704769-62704788 MsG0480021670.01.T01:intron 30.0%
TCTTGATTCTTATATTGGGA+TGG - Chr4:62704309-62704328 MsG0480021670.01.T01:intron 30.0%
TGAACACAAAATGAAAGAGT+GGG + Chr4:62704200-62704219 None:intergenic 30.0%
TGATTTGAGAGATGAAACAA+AGG + Chr4:62704075-62704094 None:intergenic 30.0%
TTATCATTATGTGGTTGTGT+AGG - Chr4:62704262-62704281 MsG0480021670.01.T01:intron 30.0%
TTGAACACAAAATGAAAGAG+TGG + Chr4:62704201-62704220 None:intergenic 30.0%
TTGCTTACAGATCGAATATA+TGG + Chr4:62704530-62704549 None:intergenic 30.0%
TTGGAACATAAAACAGAGAT+TGG - Chr4:62703877-62703896 MsG0480021670.01.T01:intron 30.0%
! GGTATATTTTTCTCATTCCT+TGG - Chr4:62703919-62703938 MsG0480021670.01.T01:intron 30.0%
ACGTTTCATGAAGAATTGCA+TGG + Chr4:62704145-62704164 None:intergenic 35.0%
ATCATTATGTGGTTGTGTAG+GGG - Chr4:62704264-62704283 MsG0480021670.01.T01:intron 35.0%
CACGTCAACTTATCATTATG+TGG - Chr4:62704253-62704272 MsG0480021670.01.T01:intron 35.0%
CGTTATATTCTTCTTCGACA+AGG - Chr4:62703942-62703961 MsG0480021670.01.T01:intron 35.0%
GCATGGTACCACATAATTAA+TGG - Chr4:62704645-62704664 MsG0480021670.01.T01:intron 35.0%
GGAATGATTGTGGAATCTTA+TGG - Chr4:62704341-62704360 MsG0480021670.01.T01:CDS 35.0%
TCAAGTGATTATTGAATGGC+AGG - Chr4:62704773-62704792 MsG0480021670.01.T01:intron 35.0%
TCCACAATCATTCCCAAAAT+AGG + Chr4:62704335-62704354 None:intergenic 35.0%
TTACAGATAGGACAAGTAGA+TGG + Chr4:62703771-62703790 None:intergenic 35.0%
TTTCATGAAGAATTGCATGG+TGG + Chr4:62704142-62704161 None:intergenic 35.0%
! AATCAGATCCTCTTTGTTTC+TGG - Chr4:62704090-62704109 MsG0480021670.01.T01:intron 35.0%
! ATATTGGGATGGCCTATTTT+GGG - Chr4:62704320-62704339 MsG0480021670.01.T01:intron 35.0%
! CACATAATGATAAGTTGACG+TGG + Chr4:62704255-62704274 None:intergenic 35.0%
! TATATTGGGATGGCCTATTT+TGG - Chr4:62704319-62704338 MsG0480021670.01.T01:intron 35.0%
! TTATATTTTGCAGTGGCTTC+TGG - Chr4:62704447-62704466 MsG0480021670.01.T01:intron 35.0%
! TTTTCTCTGATCTTCTTTCG+TGG - Chr4:62704221-62704240 MsG0480021670.01.T01:intron 35.0%
CGAAGAAGAATATAACGCCA+AGG + Chr4:62703939-62703958 None:intergenic 40.0%
CTTGCGATCATTCATCTCAA+AGG + Chr4:62703552-62703571 None:intergenic 40.0%
TGAACAAACCAACCAAGAAC+AGG + Chr4:62704503-62704522 None:intergenic 40.0%
TGCAAGAAAACTGACAGTGT+AGG + Chr4:62704473-62704492 None:intergenic 40.0%
TTATGTGGTACCATGCATAC+TGG + Chr4:62704641-62704660 None:intergenic 40.0%
! AACAAAACCTGAAGAGTACG+AGG + Chr4:62704370-62704389 None:intergenic 40.0%
! GAGATTGGATTGGGATTAAC+AGG - Chr4:62703892-62703911 MsG0480021670.01.T01:intron 40.0%
! GGTGGGATTATATTTTGCAG+TGG - Chr4:62704440-62704459 MsG0480021670.01.T01:intron 40.0%
!! GCCTATTTTGGGAATGATTG+TGG - Chr4:62704331-62704350 MsG0480021670.01.T01:CDS 40.0%
AGAGGATTCCTGTTCTTGGT+TGG - Chr4:62704492-62704511 MsG0480021670.01.T01:intron 45.0%
ATTGCAGCTGTGACAGATTG+TGG - Chr4:62704690-62704709 MsG0480021670.01.T01:intron 45.0%
GGATTGGGATTAACAGGCTT+TGG - Chr4:62703898-62703917 MsG0480021670.01.T01:intron 45.0%
GGATTTCAGTCCAATGGTCA+GGG + Chr4:62704121-62704140 None:intergenic 45.0%
GGGATACTCCAGAAACAAAG+AGG + Chr4:62704101-62704120 None:intergenic 45.0%
TGGATTTCAGTCCAATGGTC+AGG + Chr4:62704122-62704141 None:intergenic 45.0%
TGTAGGGGACAGTCTCATTT+GGG - Chr4:62704279-62704298 MsG0480021670.01.T01:intron 45.0%
TGTTTGAACGCTATCGAGGT+AGG - Chr4:62704918-62704937 MsG0480021670.01.T01:intron 45.0%
TTGCAGAGGATTCCTGTTCT+TGG - Chr4:62704488-62704507 MsG0480021670.01.T01:intron 45.0%
TTGCAGCTGTGACAGATTGT+GGG - Chr4:62704691-62704710 MsG0480021670.01.T01:intron 45.0%
! CACTGTCAGTTTTCTTGCAG+AGG - Chr4:62704474-62704493 MsG0480021670.01.T01:intron 45.0%
!! CATGGTGGATTTCAGTCCAA+TGG + Chr4:62704127-62704146 None:intergenic 45.0%
!! GACAAGGGTTTGCTAGCAAT+GGG - Chr4:62703958-62703977 MsG0480021670.01.T01:CDS 45.0%
ATGGGTTCCTCGTACTCTTC+AGG - Chr4:62704360-62704379 MsG0480021670.01.T01:CDS 50.0%
CAGCTGCATGTCGACAGAAA+AGG + Chr4:62704900-62704919 None:intergenic 50.0%
CAGCTGTTTGAACGCTATCG+AGG - Chr4:62704914-62704933 MsG0480021670.01.T01:intron 50.0%
GTGTAGGGGACAGTCTCATT+TGG - Chr4:62704278-62704297 MsG0480021670.01.T01:intron 50.0%
TGCAGCTGTGACAGATTGTG+GGG - Chr4:62704692-62704711 MsG0480021670.01.T01:intron 50.0%
TTGAACGCTATCGAGGTAGG+CGG - Chr4:62704921-62704940 MsG0480021670.01.T01:intron 50.0%
! GGGACAGTCTCATTTGGGAT+AGG - Chr4:62704284-62704303 MsG0480021670.01.T01:intron 50.0%
! TCTGGAGTATCCCTGACCAT+TGG - Chr4:62704108-62704127 MsG0480021670.01.T01:intron 50.0%
!! CGACAAGGGTTTGCTAGCAA+TGG - Chr4:62703957-62703976 MsG0480021670.01.T01:CDS 50.0%
GCAGCTGTGACAGATTGTGG+GGG - Chr4:62704693-62704712 MsG0480021670.01.T01:intron 55.0%
TGAACGCTATCGAGGTAGGC+GGG - Chr4:62704922-62704941 MsG0480021670.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 62703542 62704955 62703542 ID=MsG0480021670.01;Name=MsG0480021670.01
Chr4 mRNA 62703542 62704955 62703542 ID=MsG0480021670.01.T01;Parent=MsG0480021670.01;Name=MsG0480021670.01.T01;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|0.2|0.33|6|0|140
Chr4 exon 62704925 62704955 62704925 ID=MsG0480021670.01.T01:exon:1851;Parent=MsG0480021670.01.T01
Chr4 exon 62704513 62704604 62704513 ID=MsG0480021670.01.T01:exon:1850;Parent=MsG0480021670.01.T01
Chr4 exon 62704321 62704401 62704321 ID=MsG0480021670.01.T01:exon:1849;Parent=MsG0480021670.01.T01
Chr4 exon 62704116 62704213 62704116 ID=MsG0480021670.01.T01:exon:1848;Parent=MsG0480021670.01.T01
Chr4 exon 62703956 62704037 62703956 ID=MsG0480021670.01.T01:exon:1847;Parent=MsG0480021670.01.T01
Chr4 exon 62703542 62703580 62703542 ID=MsG0480021670.01.T01:exon:1846;Parent=MsG0480021670.01.T01
Chr4 CDS 62704925 62704955 62704925 ID=MsG0480021670.01.T01:cds;Parent=MsG0480021670.01.T01
Chr4 CDS 62704513 62704604 62704513 ID=MsG0480021670.01.T01:cds;Parent=MsG0480021670.01.T01
Chr4 CDS 62704321 62704401 62704321 ID=MsG0480021670.01.T01:cds;Parent=MsG0480021670.01.T01
Chr4 CDS 62704116 62704213 62704116 ID=MsG0480021670.01.T01:cds;Parent=MsG0480021670.01.T01
Chr4 CDS 62703956 62704037 62703956 ID=MsG0480021670.01.T01:cds;Parent=MsG0480021670.01.T01
Chr4 CDS 62703542 62703580 62703542 ID=MsG0480021670.01.T01:cds;Parent=MsG0480021670.01.T01
Gene Sequence

>MsG0480021670.01.T01

ATGGTTTCCTTTGAGATGAATGATCGCAAGAAGATTGGATTGGGATTAACAGGCTTTGGTATATTTTTCTCATTCCTTGGCGTTATATTCTTCTTCGACAAGGGTTTGCTAGCAATGGGAAATATCCTCTTTGTTTCTGGAGTATCCCTGACCATTGGACTGAAATCCACCATGCAATTCTTCATGAAACGTAGTAATTTCAAGGGGACAGTCTCATTTGGGATAGGATTCTTGATTCTTATATTGGGATGGCCTATTTTGGGAATGATTGTGGAATCTTATGGGTTCCTCGTACTCTTCAGTGGCTTCTGGCCTACACTGTCAGTTTTCTTGCAGAGGATTCCTGTTCTTGGTTGGTTTGTTCAACAGCCATATATTCGATCTCTGTTTGAACGCTATCGAGGTAGGCGGGTGCCTGTGTAA

Protein sequence

>MsG0480021670.01.T01

MVSFEMNDRKKIGLGLTGFGIFFSFLGVIFFFDKGLLAMGNILFVSGVSLTIGLKSTMQFFMKRSNFKGTVSFGIGFLILILGWPILGMIVESYGFLVLFSGFWPTLSVFLQRIPVLGWFVQQPYIRSLFERYRGRRVPV*