AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016006.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016006.01.T01 MTR_3g081500 92.661 218 12 3 5 220 1 216 6.81e-106 304
MsG0380016006.01.T01 MTR_2g035850 44.037 109 55 3 1 103 1 109 2.24e-18 80.9
MsG0380016006.01.T01 MTR_4g094698 41.525 118 52 5 2 116 4 107 8.59e-15 69.7
MsG0380016006.01.T01 MTR_5g063310 62.791 43 16 0 71 113 155 197 2.83e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016006.01.T01 AT4G39720 38.060 134 69 4 66 193 110 235 1.62e-14 71.2
MsG0380016006.01.T01 AT4G39720 38.060 134 69 4 66 193 110 235 1.74e-14 71.2
MsG0380016006.01.T01 AT4G39720 38.060 134 69 4 66 193 110 235 1.80e-14 71.2
MsG0380016006.01.T01 AT4G39720 38.060 134 69 4 66 193 110 235 1.80e-14 71.2
MsG0380016006.01.T01 AT3G22160 71.667 60 16 1 57 115 41 100 1.79e-12 64.3
MsG0380016006.01.T01 AT1G35830 62.222 45 17 0 71 115 100 144 2.43e-11 62.4
MsG0380016006.01.T01 AT4G15120 80.851 47 9 0 59 105 39 85 4.68e-11 60.1
MsG0380016006.01.T01 AT5G65170 62.791 43 16 0 71 113 140 182 5.90e-11 61.6

Find 69 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGATTCATCATGGTTGATTC+AGG 0.196823 3:+77832560 None:intergenic
CCTGCTAGGGTTGAGAAATT+AGG 0.223903 3:+77832338 None:intergenic
TTGCACCATGGCACGGAAAT+TGG 0.234013 3:+77832418 None:intergenic
GTGTAAGGAGGGGTTTGATT+AGG 0.284979 3:+77832623 None:intergenic
CTGGCTGAGGTTGGTGAGCT+TGG 0.290535 3:+77832539 None:intergenic
TGTAAGGAGGGGTTTGATTA+GGG 0.309491 3:+77832624 None:intergenic
CTGCTAGGGTTGAGAAATTA+GGG 0.325502 3:+77832339 None:intergenic
ACCCTAGCAGGCCTAGGGCT+TGG 0.349369 3:-77832326 MsG0380016006.01.T01:CDS
TTCAGATGGACCCAAGTTGC+TGG 0.349830 3:+77832520 None:intergenic
TTATCATGGTTTGAAGGTCT+TGG 0.351449 3:+77832128 None:intergenic
AGGCCTAGGGCTTGGCCCAC+GGG 0.363073 3:-77832318 MsG0380016006.01.T01:CDS
TCTCAAGAAGAAGAAGTTCT+TGG 0.369824 3:+77832044 None:intergenic
GTTGTTAGTGATCATATTCA+TGG 0.373249 3:-77832086 MsG0380016006.01.T01:CDS
CAGGCCTAGGGCTTGGCCCA+CGG 0.392030 3:-77832319 MsG0380016006.01.T01:CDS
GCTGCTGTTGAAGCTGTTGT+TGG 0.409525 3:+77832252 None:intergenic
GCTGCTGCAAAAGGTGCAAT+AGG 0.418378 3:+77832380 None:intergenic
GACATCATAGATTGATTCAT+AGG 0.420321 3:+77832287 None:intergenic
GATTCATCATGGTTGATTCA+GGG 0.429834 3:+77832561 None:intergenic
CCTAATTTCTCAACCCTAGC+AGG 0.440306 3:-77832338 MsG0380016006.01.T01:CDS
TTCTCAACCCTAGCAGGCCT+AGG 0.444711 3:-77832332 MsG0380016006.01.T01:CDS
GGCCAAGCCCTAGGCCTGCT+AGG 0.451902 3:+77832324 None:intergenic
TGGGGTGGTGTTAGTAGTAA+TGG 0.454586 3:+77832598 None:intergenic
AAGCCCGTGGGCCAAGCCCT+AGG 0.457915 3:+77832315 None:intergenic
TTAGTAGTAATGGAAGTGTA+AGG 0.460397 3:+77832608 None:intergenic
TAGTAATGGAAGTGTAAGGA+GGG 0.468900 3:+77832612 None:intergenic
GATGTGGCTGCTGCTGCAAA+AGG 0.475844 3:+77832371 None:intergenic
CAACACTACAATATGTATAG+TGG 0.476494 3:-77832212 MsG0380016006.01.T01:CDS
AGCCCTTGATCTTCTCCGTA+TGG 0.477547 3:+77832481 None:intergenic
ACCAACCTCAGCCAGCAACT+TGG 0.483517 3:-77832531 MsG0380016006.01.T01:CDS
GCCCTTGATCTTCTCCGTAT+GGG 0.493243 3:+77832482 None:intergenic
TCATAGATTGATTCATAGGA+TGG 0.502434 3:+77832291 None:intergenic
GCCAAGCCCTAGGCCTGCTA+GGG 0.502498 3:+77832325 None:intergenic
TGAAGCTGTTGTTGGTAGAA+AGG 0.512416 3:+77832260 None:intergenic
TTATTATTATCATGGTTTGA+AGG 0.520127 3:+77832122 None:intergenic
CCCAAGTTGCTGGCTGAGGT+TGG 0.527272 3:+77832530 None:intergenic
CCAACCTCAGCCAGCAACTT+GGG 0.528451 3:-77832530 MsG0380016006.01.T01:CDS
GGAGAAGATCAAGGGCTTCG+CGG 0.529169 3:-77832475 MsG0380016006.01.T01:CDS
GTAGTAATGGAAGTGTAAGG+AGG 0.532755 3:+77832611 None:intergenic
CACTACCAATTTCCGTGCCA+TGG 0.533756 3:-77832423 MsG0380016006.01.T01:CDS
AGCAACTTGGGTCCATCTGA+AGG 0.541645 3:-77832518 MsG0380016006.01.T01:CDS
AGCCCATACGGAGAAGATCA+AGG 0.541961 3:-77832484 MsG0380016006.01.T01:CDS
CATATTCATGGAGGAGAAGG+TGG 0.544946 3:-77832074 MsG0380016006.01.T01:CDS
TCCGTATGGGCTTTGACACA+CGG 0.550620 3:+77832495 None:intergenic
TCTCAACCCTAGCAGGCCTA+GGG 0.552947 3:-77832331 MsG0380016006.01.T01:CDS
GATCATATTCATGGAGGAGA+AGG 0.558000 3:-77832077 MsG0380016006.01.T01:CDS
AAAAGGTGCAATAGGACCTC+CGG 0.561409 3:+77832388 None:intergenic
TGGTGAGCTTGGATTCATCA+TGG 0.561975 3:+77832550 None:intergenic
TGGACCCAAGTTGCTGGCTG+AGG 0.570124 3:+77832526 None:intergenic
TTTGACACACGGCCTTCAGA+TGG 0.574107 3:+77832506 None:intergenic
GCCATGGTGCAACAATTCAC+CGG 0.578583 3:-77832407 MsG0380016006.01.T01:CDS
GCCGTGTGTCAAAGCCCATA+CGG 0.579514 3:-77832496 MsG0380016006.01.T01:CDS
AGTAATGGAAGTGTAAGGAG+GGG 0.590782 3:+77832613 None:intergenic
TGAATTGTTGCACCATGGCA+CGG 0.592077 3:+77832411 None:intergenic
CATAGATTGATTCATAGGAT+GGG 0.593968 3:+77832292 None:intergenic
GCCCATACGGAGAAGATCAA+GGG 0.610573 3:-77832483 MsG0380016006.01.T01:CDS
TTCATCATGGTTGATTCAGG+GGG 0.612844 3:+77832563 None:intergenic
ATTCATCATGGTTGATTCAG+GGG 0.614825 3:+77832562 None:intergenic
GCCGACGACTTTACTTAACA+CGG 0.631878 3:-77832447 MsG0380016006.01.T01:CDS
TTCATAGGATGGGAAGCCCG+TGG 0.633148 3:+77832302 None:intergenic
AACGTTAATACACAAGTAGG+AGG 0.633926 3:-77832188 MsG0380016006.01.T01:CDS
TCATAGGATGGGAAGCCCGT+GGG 0.636209 3:+77832303 None:intergenic
GGCAACGTTAATACACAAGT+AGG 0.638298 3:-77832191 MsG0380016006.01.T01:CDS
GGGTAAAGTAGCAGATGGGG+TGG 0.653692 3:+77832583 None:intergenic
TCCGGTGAATTGTTGCACCA+TGG 0.658835 3:+77832406 None:intergenic
GTTAGTGATCATATTCATGG+AGG 0.678249 3:-77832083 MsG0380016006.01.T01:CDS
TCCGTGTTAAGTAAAGTCGT+CGG 0.679295 3:+77832446 None:intergenic
GCTAGGGTTGAGAAATTAGG+GGG 0.694686 3:+77832341 None:intergenic
TGCTAGGGTTGAGAAATTAG+GGG 0.703103 3:+77832340 None:intergenic
ATGGTGCAACAATTCACCGG+AGG 0.707563 3:-77832404 MsG0380016006.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAGAATTGAAAAAACTCATT+TGG + Chr3:77832076-77832095 None:intergenic 20.0%
!! TTATTATTATCATGGTTTGA+AGG + Chr3:77832613-77832632 None:intergenic 20.0%
! AATTGAAAAAACTCATTTGG+TGG + Chr3:77832073-77832092 None:intergenic 25.0%
! ATTGAAAAAACTCATTTGGT+GGG + Chr3:77832072-77832091 None:intergenic 25.0%
CAACACTACAATATGTATAG+TGG - Chr3:77832520-77832539 MsG0380016006.01.T01:CDS 30.0%
GTTGTTAGTGATCATATTCA+TGG - Chr3:77832646-77832665 MsG0380016006.01.T01:CDS 30.0%
! CATAGATTGATTCATAGGAT+GGG + Chr3:77832443-77832462 None:intergenic 30.0%
! GACATCATAGATTGATTCAT+AGG + Chr3:77832448-77832467 None:intergenic 30.0%
! TCATAGATTGATTCATAGGA+TGG + Chr3:77832444-77832463 None:intergenic 30.0%
! TTAGTAGTAATGGAAGTGTA+AGG + Chr3:77832127-77832146 None:intergenic 30.0%
! TTGAAAAAACTCATTTGGTG+GGG + Chr3:77832071-77832090 None:intergenic 30.0%
AACGTTAATACACAAGTAGG+AGG - Chr3:77832544-77832563 MsG0380016006.01.T01:CDS 35.0%
GTTAGTGATCATATTCATGG+AGG - Chr3:77832649-77832668 MsG0380016006.01.T01:CDS 35.0%
TTATCATGGTTTGAAGGTCT+TGG + Chr3:77832607-77832626 None:intergenic 35.0%
! ATTCATCATGGTTGATTCAG+GGG + Chr3:77832173-77832192 None:intergenic 35.0%
! GATTCATCATGGTTGATTCA+GGG + Chr3:77832174-77832193 None:intergenic 35.0%
! TAGTAATGGAAGTGTAAGGA+GGG + Chr3:77832123-77832142 None:intergenic 35.0%
! TGAAAAAACTCATTTGGTGG+GGG + Chr3:77832070-77832089 None:intergenic 35.0%
CTGCTAGGGTTGAGAAATTA+GGG + Chr3:77832396-77832415 None:intergenic 40.0%
GATCATATTCATGGAGGAGA+AGG - Chr3:77832655-77832674 MsG0380016006.01.T01:CDS 40.0%
GGCAACGTTAATACACAAGT+AGG - Chr3:77832541-77832560 MsG0380016006.01.T01:CDS 40.0%
TCCGTGTTAAGTAAAGTCGT+CGG + Chr3:77832289-77832308 None:intergenic 40.0%
TGCTAGGGTTGAGAAATTAG+GGG + Chr3:77832395-77832414 None:intergenic 40.0%
TGTAAGGAGGGGTTTGATTA+GGG + Chr3:77832111-77832130 None:intergenic 40.0%
! AGTAATGGAAGTGTAAGGAG+GGG + Chr3:77832122-77832141 None:intergenic 40.0%
! GGATTCATCATGGTTGATTC+AGG + Chr3:77832175-77832194 None:intergenic 40.0%
! GTAGTAATGGAAGTGTAAGG+AGG + Chr3:77832124-77832143 None:intergenic 40.0%
! TGAAGCTGTTGTTGGTAGAA+AGG + Chr3:77832475-77832494 None:intergenic 40.0%
! TTCATCATGGTTGATTCAGG+GGG + Chr3:77832172-77832191 None:intergenic 40.0%
CATATTCATGGAGGAGAAGG+TGG - Chr3:77832658-77832677 MsG0380016006.01.T01:CDS 45.0%
CCTAATTTCTCAACCCTAGC+AGG - Chr3:77832394-77832413 MsG0380016006.01.T01:CDS 45.0%
CCTGCTAGGGTTGAGAAATT+AGG + Chr3:77832397-77832416 None:intergenic 45.0%
GCCGACGACTTTACTTAACA+CGG - Chr3:77832285-77832304 MsG0380016006.01.T01:CDS 45.0%
GCTAGGGTTGAGAAATTAGG+GGG + Chr3:77832394-77832413 None:intergenic 45.0%
GTGTAAGGAGGGGTTTGATT+AGG + Chr3:77832112-77832131 None:intergenic 45.0%
TGAATTGTTGCACCATGGCA+CGG + Chr3:77832324-77832343 None:intergenic 45.0%
TGGTGAGCTTGGATTCATCA+TGG + Chr3:77832185-77832204 None:intergenic 45.0%
! AAAAGGTGCAATAGGACCTC+CGG + Chr3:77832347-77832366 None:intergenic 45.0%
! ATTAGGGGGTGATGATGATG+TGG + Chr3:77832380-77832399 None:intergenic 45.0%
! TGGGGTGGTGTTAGTAGTAA+TGG + Chr3:77832137-77832156 None:intergenic 45.0%
!! TAATATTATTATTATTATCA+TGG + Chr3:77832621-77832640 None:intergenic 5.0%
AGCAACTTGGGTCCATCTGA+AGG - Chr3:77832214-77832233 MsG0380016006.01.T01:CDS 50.0%
AGCCCATACGGAGAAGATCA+AGG - Chr3:77832248-77832267 MsG0380016006.01.T01:CDS 50.0%
AGCCCTTGATCTTCTCCGTA+TGG + Chr3:77832254-77832273 None:intergenic 50.0%
AGGGGGTAAAGTAGCAGATG+GGG + Chr3:77832155-77832174 None:intergenic 50.0%
ATGGTGCAACAATTCACCGG+AGG - Chr3:77832328-77832347 MsG0380016006.01.T01:CDS 50.0%
CACTACCAATTTCCGTGCCA+TGG - Chr3:77832309-77832328 MsG0380016006.01.T01:CDS 50.0%
CAGGGGGTAAAGTAGCAGAT+GGG + Chr3:77832156-77832175 None:intergenic 50.0%
GCCATGGTGCAACAATTCAC+CGG - Chr3:77832325-77832344 MsG0380016006.01.T01:CDS 50.0%
GCCCATACGGAGAAGATCAA+GGG - Chr3:77832249-77832268 MsG0380016006.01.T01:CDS 50.0%
GCCCTTGATCTTCTCCGTAT+GGG + Chr3:77832253-77832272 None:intergenic 50.0%
GCTGCTGTTGAAGCTGTTGT+TGG + Chr3:77832483-77832502 None:intergenic 50.0%
TCAGGGGGTAAAGTAGCAGA+TGG + Chr3:77832157-77832176 None:intergenic 50.0%
TCCGGTGAATTGTTGCACCA+TGG + Chr3:77832329-77832348 None:intergenic 50.0%
TTCAGATGGACCCAAGTTGC+TGG + Chr3:77832215-77832234 None:intergenic 50.0%
TTGCACCATGGCACGGAAAT+TGG + Chr3:77832317-77832336 None:intergenic 50.0%
TTTGACACACGGCCTTCAGA+TGG + Chr3:77832229-77832248 None:intergenic 50.0%
! ATTTGGTGGGGGATCAGACA+TGG + Chr3:77832059-77832078 None:intergenic 50.0%
! GCTGCTGCAAAAGGTGCAAT+AGG + Chr3:77832355-77832374 None:intergenic 50.0%
! TCCGTATGGGCTTTGACACA+CGG + Chr3:77832240-77832259 None:intergenic 50.0%
ACCAACCTCAGCCAGCAACT+TGG - Chr3:77832201-77832220 MsG0380016006.01.T01:CDS 55.0%
CCAACCTCAGCCAGCAACTT+GGG - Chr3:77832202-77832221 MsG0380016006.01.T01:CDS 55.0%
GATGTGGCTGCTGCTGCAAA+AGG + Chr3:77832364-77832383 None:intergenic 55.0%
GCCGTGTGTCAAAGCCCATA+CGG - Chr3:77832236-77832255 MsG0380016006.01.T01:CDS 55.0%
GGAGAAGATCAAGGGCTTCG+CGG - Chr3:77832257-77832276 MsG0380016006.01.T01:CDS 55.0%
GGGTAAAGTAGCAGATGGGG+TGG + Chr3:77832152-77832171 None:intergenic 55.0%
TCATAGGATGGGAAGCCCGT+GGG + Chr3:77832432-77832451 None:intergenic 55.0%
TCTCAACCCTAGCAGGCCTA+GGG - Chr3:77832401-77832420 MsG0380016006.01.T01:CDS 55.0%
TTCATAGGATGGGAAGCCCG+TGG + Chr3:77832433-77832452 None:intergenic 55.0%
TTCTCAACCCTAGCAGGCCT+AGG - Chr3:77832400-77832419 MsG0380016006.01.T01:CDS 55.0%
! CCCAAGTTGCTGGCTGAGGT+TGG + Chr3:77832205-77832224 None:intergenic 60.0%
! TGGACCCAAGTTGCTGGCTG+AGG + Chr3:77832209-77832228 None:intergenic 60.0%
!! CTGGCTGAGGTTGGTGAGCT+TGG + Chr3:77832196-77832215 None:intergenic 60.0%
ACCCTAGCAGGCCTAGGGCT+TGG - Chr3:77832406-77832425 MsG0380016006.01.T01:CDS 65.0%
GCCAAGCCCTAGGCCTGCTA+GGG + Chr3:77832410-77832429 None:intergenic 65.0%
AAGCCCGTGGGCCAAGCCCT+AGG + Chr3:77832420-77832439 None:intergenic 70.0%
AGGCCTAGGGCTTGGCCCAC+GGG - Chr3:77832414-77832433 MsG0380016006.01.T01:CDS 70.0%
CAGGCCTAGGGCTTGGCCCA+CGG - Chr3:77832413-77832432 MsG0380016006.01.T01:CDS 70.0%
GGCCAAGCCCTAGGCCTGCT+AGG + Chr3:77832411-77832430 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 77832046 77832708 77832046 ID=MsG0380016006.01;Name=MsG0380016006.01
Chr3 mRNA 77832046 77832708 77832046 ID=MsG0380016006.01.T01;Parent=MsG0380016006.01;Name=MsG0380016006.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|220
Chr3 exon 77832046 77832708 77832046 ID=MsG0380016006.01.T01:exon:18373;Parent=MsG0380016006.01.T01
Chr3 CDS 77832046 77832708 77832046 ID=MsG0380016006.01.T01:cds;Parent=MsG0380016006.01.T01
Gene Sequence

>MsG0380016006.01.T01

ATGATCAAAACCATGTCTGATCCCCCACCAAATGAGTTTTTTCAATTCTATCATCAAAATTTCCCTAATCAAACCCCTCCTTACACTTCCATTACTACTAACACCACCCCATCTGCTACTTTACCCCCTGAATCAACCATGATGAATCCAAGCTCACCAACCTCAGCCAGCAACTTGGGTCCATCTGAAGGCCGTGTGTCAAAGCCCATACGGAGAAGATCAAGGGCTTCGCGGCGAACGCCGACGACTTTACTTAACACGGACACTACCAATTTCCGTGCCATGGTGCAACAATTCACCGGAGGTCCTATTGCACCTTTTGCAGCAGCAGCCACATCATCATCACCCCCTAATTTCTCAACCCTAGCAGGCCTAGGGCTTGGCCCACGGGCTTCCCATCCTATGAATCAATCTATGATGTCTCATCCTTTCTACCAACAACAGCTTCAACAGCAGCAACAACAACAATATCAACAACACTACAATATGTATAGTGGCAACGTTAATACACAAGTAGGAGGAGATGATAACATGTTTTTTCAGAGAATAATGAGCAATCCAAGACCTTCAAACCATGATAATAATAATAATATTAATAATGTTGTTAGTGATCATATTCATGGAGGAGAAGGTGGTTTCTTTCCAAGAACTTCTTCTTCTTGA
Protein sequence

>MsG0380016006.01.T01

MIKTMSDPPPNEFFQFYHQNFPNQTPPYTSITTNTTPSATLPPESTMMNPSSPTSASNLGPSEGRVSKPIRRRSRASRRTPTTLLNTDTTNFRAMVQQFTGGPIAPFAAAATSSSPPNFSTLAGLGLGPRASHPMNQSMMSHPFYQQQLQQQQQQQYQQHYNMYSGNVNTQVGGDDNMFFQRIMSNPRPSNHDNNNNINNVVSDHIHGGEGGFFPRTSSS*