AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040239.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040239.01.T01 MTR_7g086500 93.814 97 6 0 10 106 326 422 7.10e-61 191
MsG0780040239.01.T01 MTR_5g087500 64.516 62 19 2 17 76 346 406 2.47e-17 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040239.01.T01 AT3G03740 60.227 88 28 4 10 92 355 440 5.91e-23 92.0
MsG0780040239.01.T01 AT5G21010 50.704 71 32 2 10 77 339 409 4.85e-14 66.6
MsG0780040239.01.T01 AT3G43700 56.522 69 29 1 10 77 346 414 3.68e-13 64.3

Find 52 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAAAGAGGTCAGAATTTA+TGG 0.115156 7:+74788912 MsG0780040239.01.T01:CDS
AGCACAAATATAACCGAAAC+TGG 0.272625 7:-74788470 None:intergenic
GCTTCCATTCCTTGTTAGTT+AGG 0.299694 7:+74788997 MsG0780040239.01.T01:three_prime_UTR
ACAACAATAAGTCCCCTATT+TGG 0.318709 7:+74789050 MsG0780040239.01.T01:three_prime_UTR
GAACTGCTTAAGACAGTTGC+AGG 0.373384 7:+74788776 MsG0780040239.01.T01:CDS
TTATCATGAAGAACTGGTAT+TGG 0.380537 7:+74789246 MsG0780040239.01.T01:three_prime_UTR
TTTACTCAGCCACCCAGTTT+CGG 0.407255 7:+74788457 MsG0780040239.01.T01:CDS
GTTAACAATGATCGGAGTCC+AGG 0.414751 7:+74788953 MsG0780040239.01.T01:CDS
CAGTGTTATTGTATGATACT+TGG 0.428764 7:+74789331 MsG0780040239.01.T01:three_prime_UTR
TCTCACCGCCATCAGAAACT+TGG 0.440673 7:-74788847 None:intergenic
GAAGAGGAATTTAGTGGTGA+AGG 0.446576 7:+74788803 MsG0780040239.01.T01:CDS
CTTTGTCAAGCTTCTTGCCC+TGG 0.454027 7:-74788971 None:intergenic
GGAAAGAGGTCAGAATTTAT+GGG 0.458484 7:+74788913 MsG0780040239.01.T01:CDS
AGTACATTATCATGAAGAAC+TGG 0.478754 7:+74789240 MsG0780040239.01.T01:three_prime_UTR
GGAGGAGAAGAGGAATTTAG+TGG 0.493229 7:+74788797 MsG0780040239.01.T01:CDS
TAATGACGTTGACCATTGTA+TGG 0.495346 7:+74789207 MsG0780040239.01.T01:three_prime_UTR
GGAGCGTAAGACAACAAACC+TGG 0.498999 7:+74788879 MsG0780040239.01.T01:CDS
ACTTATTGTTGTCTCTGCAA+TGG 0.499509 7:-74789039 None:intergenic
TATGGGTTAACCTTTCTGAT+GGG 0.500710 7:+74788930 MsG0780040239.01.T01:CDS
TTATGGGTTAACCTTTCTGA+TGG 0.503157 7:+74788929 MsG0780040239.01.T01:CDS
GACAGTTGCAGGAGGAGAAG+AGG 0.506949 7:+74788787 MsG0780040239.01.T01:CDS
AGACAACAAACCTGGGAAAA+CGG 0.507515 7:+74788887 MsG0780040239.01.T01:CDS
TCCCCTATTTGGATGGAGAA+GGG 0.511286 7:+74789061 MsG0780040239.01.T01:three_prime_UTR
CTGATGGGGTTAACAATGAT+CGG 0.515537 7:+74788945 MsG0780040239.01.T01:CDS
CCCTATTTGGATGGAGAAGG+GGG 0.515796 7:+74789063 MsG0780040239.01.T01:three_prime_UTR
AGCAGTTCTGATTGCAGCAA+CGG 0.520365 7:-74788761 None:intergenic
CATTGTTAACCCCATCAGAA+AGG 0.531460 7:-74788940 None:intergenic
ATGGCGGTGAGACTAATGAT+AGG 0.534143 7:+74788858 MsG0780040239.01.T01:CDS
CAATAAGTCCCCTATTTGGA+TGG 0.544340 7:+74789054 MsG0780040239.01.T01:three_prime_UTR
TGAGCCTAACTAACAAGGAA+TGG 0.554452 7:-74789001 None:intergenic
GTCCCCTATTTGGATGGAGA+AGG 0.556183 7:+74789060 MsG0780040239.01.T01:three_prime_UTR
CCCCTATTTGGATGGAGAAG+GGG 0.558138 7:+74789062 MsG0780040239.01.T01:three_prime_UTR
ATGGGTTAACCTTTCTGATG+GGG 0.571543 7:+74788931 MsG0780040239.01.T01:CDS
CCCCTTCTCCATCCAAATAG+GGG 0.577465 7:-74789062 None:intergenic
TGGGAAAACGGAGTGGAAAG+AGG 0.577776 7:+74788899 MsG0780040239.01.T01:CDS
AAACTTGGGCCCACACACTT+CGG 0.579983 7:-74788832 None:intergenic
CTCACCGCCATCAGAAACTT+GGG 0.588896 7:-74788846 None:intergenic
AAGGAAAATGCCGAAGTGTG+TGG 0.618132 7:+74788822 MsG0780040239.01.T01:CDS
AGGAAAATGCCGAAGTGTGT+GGG 0.626396 7:+74788823 MsG0780040239.01.T01:CDS
GTGTGGGCCCAAGTTTCTGA+TGG 0.628006 7:+74788839 MsG0780040239.01.T01:CDS
TTAACAATGATCGGAGTCCA+GGG 0.628068 7:+74788954 MsG0780040239.01.T01:CDS
ATATTTGAGCCTAACTAACA+AGG 0.632982 7:-74789006 None:intergenic
CTAGACAAGCTTCCATACAA+TGG 0.644239 7:-74789219 None:intergenic
GCAGCTGTGATGCAATCTGA+TGG 0.647750 7:+74788713 MsG0780040239.01.T01:intron
ATATGATTACAAGGATTGAG+TGG 0.648757 7:+74789174 MsG0780040239.01.T01:three_prime_UTR
CTGCTTAAGACAGTTGCAGG+AGG 0.656751 7:+74788779 MsG0780040239.01.T01:CDS
GAGCGTAAGACAACAAACCT+GGG 0.672742 7:+74788880 MsG0780040239.01.T01:CDS
CAAATATAACCGAAACTGGG+TGG 0.684849 7:-74788466 None:intergenic
CCTATTTGGATGGAGAAGGG+GGG 0.687481 7:+74789064 MsG0780040239.01.T01:three_prime_UTR
GCACAAATATAACCGAAACT+GGG 0.688789 7:-74788469 None:intergenic
TGGGCCCAAGTTTCTGATGG+CGG 0.690246 7:+74788842 MsG0780040239.01.T01:CDS
ACAAACCTGGGAAAACGGAG+TGG 0.690303 7:+74788892 MsG0780040239.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTGATTATATGATTACA+AGG + Chr7:74789165-74789184 MsG0780040239.01.T01:three_prime_UTR 15.0%
!! AATCAAAAGAAAAACAACAA+TGG - Chr7:74789147-74789166 None:intergenic 20.0%
!! ATGCAAAACAATGTAAAAAA+AGG + Chr7:74789091-74789110 MsG0780040239.01.T01:three_prime_UTR 20.0%
!!! GTTTCTTAAAGAATATTTTC+AGG + Chr7:74789285-74789304 MsG0780040239.01.T01:three_prime_UTR 20.0%
! AAGATAAACAGATATTATCC+AGG - Chr7:74788582-74788601 None:intergenic 25.0%
! AATCAATTGTTATACAACTG+AGG - Chr7:74788661-74788680 None:intergenic 25.0%
! ATCAATTGTTATACAACTGA+GGG - Chr7:74788660-74788679 None:intergenic 25.0%
! CAAAACAATGTAAAAAAAGG+AGG + Chr7:74789094-74789113 MsG0780040239.01.T01:three_prime_UTR 25.0%
AGTACATTATCATGAAGAAC+TGG + Chr7:74789240-74789259 MsG0780040239.01.T01:three_prime_UTR 30.0%
ATATGATTACAAGGATTGAG+TGG + Chr7:74789174-74789193 MsG0780040239.01.T01:three_prime_UTR 30.0%
ATATTTGAGCCTAACTAACA+AGG - Chr7:74789009-74789028 None:intergenic 30.0%
TTATCATGAAGAACTGGTAT+TGG + Chr7:74789246-74789265 MsG0780040239.01.T01:three_prime_UTR 30.0%
! AACATTCTTTCTTCCGTTTT+TGG - Chr7:74788439-74788458 None:intergenic 30.0%
! CAGTGTTATTGTATGATACT+TGG + Chr7:74789331-74789350 MsG0780040239.01.T01:three_prime_UTR 30.0%
! TCTGTGATTTTCATTTTCAG+TGG + Chr7:74788601-74788620 MsG0780040239.01.T01:intron 30.0%
!! TTGGTTGTTTCCTGATTTTT+AGG - Chr7:74788630-74788649 None:intergenic 30.0%
AACAGATATTATCCAGGATG+AGG - Chr7:74788576-74788595 None:intergenic 35.0%
ACAACAATAAGTCCCCTATT+TGG + Chr7:74789050-74789069 MsG0780040239.01.T01:three_prime_UTR 35.0%
ACTTATTGTTGTCTCTGCAA+TGG - Chr7:74789042-74789061 None:intergenic 35.0%
AGCACAAATATAACCGAAAC+TGG - Chr7:74788473-74788492 None:intergenic 35.0%
CACAATTGATAAGTCTACAG+AGG - Chr7:74788517-74788536 None:intergenic 35.0%
GCACAAATATAACCGAAACT+GGG - Chr7:74788472-74788491 None:intergenic 35.0%
GGAAAGAGGTCAGAATTTAT+GGG + Chr7:74788913-74788932 MsG0780040239.01.T01:CDS 35.0%
TAATGACGTTGACCATTGTA+TGG + Chr7:74789207-74789226 MsG0780040239.01.T01:three_prime_UTR 35.0%
TGGAAAGAGGTCAGAATTTA+TGG + Chr7:74788912-74788931 MsG0780040239.01.T01:CDS 35.0%
! TATGGGTTAACCTTTCTGAT+GGG + Chr7:74788930-74788949 MsG0780040239.01.T01:CDS 35.0%
! TTATGGGTTAACCTTTCTGA+TGG + Chr7:74788929-74788948 MsG0780040239.01.T01:CDS 35.0%
!! GCACTTCCAATATTTTTCAG+CGG + Chr7:74788548-74788567 MsG0780040239.01.T01:intron 35.0%
!!! CAACAATGGTTTTGTTACAG+TGG - Chr7:74789133-74789152 None:intergenic 35.0%
AGACAACAAACCTGGGAAAA+CGG + Chr7:74788887-74788906 MsG0780040239.01.T01:CDS 40.0%
CAAATATAACCGAAACTGGG+TGG - Chr7:74788469-74788488 None:intergenic 40.0%
CAATAAGTCCCCTATTTGGA+TGG + Chr7:74789054-74789073 MsG0780040239.01.T01:three_prime_UTR 40.0%
CATTGTTAACCCCATCAGAA+AGG - Chr7:74788943-74788962 None:intergenic 40.0%
CTAGACAAGCTTCCATACAA+TGG - Chr7:74789222-74789241 None:intergenic 40.0%
CTGATGGGGTTAACAATGAT+CGG + Chr7:74788945-74788964 MsG0780040239.01.T01:CDS 40.0%
GAAGAGGAATTTAGTGGTGA+AGG + Chr7:74788803-74788822 MsG0780040239.01.T01:CDS 40.0%
GCTTCCATTCCTTGTTAGTT+AGG + Chr7:74788997-74789016 MsG0780040239.01.T01:three_prime_UTR 40.0%
TCAGTGGTTGCCTAAAAATC+AGG + Chr7:74788617-74788636 MsG0780040239.01.T01:intron 40.0%
TGAGCCTAACTAACAAGGAA+TGG - Chr7:74789004-74789023 None:intergenic 40.0%
TTAACAATGATCGGAGTCCA+GGG + Chr7:74788954-74788973 MsG0780040239.01.T01:CDS 40.0%
! ATGGGTTAACCTTTCTGATG+GGG + Chr7:74788931-74788950 MsG0780040239.01.T01:CDS 40.0%
!!! CAATGGTTTTGTTACAGTGG+TGG - Chr7:74789130-74789149 None:intergenic 40.0%
AAGGAAAATGCCGAAGTGTG+TGG + Chr7:74788822-74788841 MsG0780040239.01.T01:CDS 45.0%
AGGAAAATGCCGAAGTGTGT+GGG + Chr7:74788823-74788842 MsG0780040239.01.T01:CDS 45.0%
ATGGCGGTGAGACTAATGAT+AGG + Chr7:74788858-74788877 MsG0780040239.01.T01:CDS 45.0%
GAACTGCTTAAGACAGTTGC+AGG + Chr7:74788776-74788795 MsG0780040239.01.T01:CDS 45.0%
GAGCGTAAGACAACAAACCT+GGG + Chr7:74788880-74788899 MsG0780040239.01.T01:CDS 45.0%
GGAGGAGAAGAGGAATTTAG+TGG + Chr7:74788797-74788816 MsG0780040239.01.T01:CDS 45.0%
GTTAACAATGATCGGAGTCC+AGG + Chr7:74788953-74788972 MsG0780040239.01.T01:CDS 45.0%
TACAACTGAGGGACACTACT+TGG - Chr7:74788649-74788668 None:intergenic 45.0%
TCCCCTATTTGGATGGAGAA+GGG + Chr7:74789061-74789080 MsG0780040239.01.T01:three_prime_UTR 45.0%
TTTACTCAGCCACCCAGTTT+CGG + Chr7:74788457-74788476 MsG0780040239.01.T01:CDS 45.0%
! AGCAGTTCTGATTGCAGCAA+CGG - Chr7:74788764-74788783 None:intergenic 45.0%
!! GAGGTGCCGCTGAAAAATAT+TGG - Chr7:74788557-74788576 None:intergenic 45.0%
!! TTCTTCCGTTTTTGGACCCA+TGG - Chr7:74788431-74788450 None:intergenic 45.0%
AAACTTGGGCCCACACACTT+CGG - Chr7:74788835-74788854 None:intergenic 50.0%
ACAAACCTGGGAAAACGGAG+TGG + Chr7:74788892-74788911 MsG0780040239.01.T01:CDS 50.0%
CCCCCTTCTCCATCCAAATA+GGG - Chr7:74789066-74789085 None:intergenic 50.0%
CCCCTATTTGGATGGAGAAG+GGG + Chr7:74789062-74789081 MsG0780040239.01.T01:three_prime_UTR 50.0%
CCCCTTCTCCATCCAAATAG+GGG - Chr7:74789065-74789084 None:intergenic 50.0%
CCCTATTTGGATGGAGAAGG+GGG + Chr7:74789063-74789082 MsG0780040239.01.T01:three_prime_UTR 50.0%
CCTATTTGGATGGAGAAGGG+GGG + Chr7:74789064-74789083 MsG0780040239.01.T01:three_prime_UTR 50.0%
CTCACCGCCATCAGAAACTT+GGG - Chr7:74788849-74788868 None:intergenic 50.0%
CTGCTTAAGACAGTTGCAGG+AGG + Chr7:74788779-74788798 MsG0780040239.01.T01:CDS 50.0%
CTTTGTCAAGCTTCTTGCCC+TGG - Chr7:74788974-74788993 None:intergenic 50.0%
GCAGCTGTGATGCAATCTGA+TGG + Chr7:74788713-74788732 MsG0780040239.01.T01:intron 50.0%
GGAGCGTAAGACAACAAACC+TGG + Chr7:74788879-74788898 MsG0780040239.01.T01:CDS 50.0%
GTCCCCTATTTGGATGGAGA+AGG + Chr7:74789060-74789079 MsG0780040239.01.T01:three_prime_UTR 50.0%
TCTCACCGCCATCAGAAACT+TGG - Chr7:74788850-74788869 None:intergenic 50.0%
TGGGAAAACGGAGTGGAAAG+AGG + Chr7:74788899-74788918 MsG0780040239.01.T01:CDS 50.0%
! TCTTTCCACTCCGTTTTCCC+AGG - Chr7:74788900-74788919 None:intergenic 50.0%
ATTTGGATGGAGAAGGGGGG+AGG + Chr7:74789067-74789086 MsG0780040239.01.T01:three_prime_UTR 55.0%
CCCCCCTTCTCCATCCAAAT+AGG - Chr7:74789067-74789086 None:intergenic 55.0%
GACAGTTGCAGGAGGAGAAG+AGG + Chr7:74788787-74788806 MsG0780040239.01.T01:CDS 55.0%
GTGTGGGCCCAAGTTTCTGA+TGG + Chr7:74788839-74788858 MsG0780040239.01.T01:CDS 55.0%
TGGGCCCAAGTTTCTGATGG+CGG + Chr7:74788842-74788861 MsG0780040239.01.T01:CDS 55.0%
! TTTTCAGCGGCACCTCATCC+TGG + Chr7:74788561-74788580 MsG0780040239.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 74788430 74789390 74788430 ID=MsG0780040239.01;Name=MsG0780040239.01
Chr7 mRNA 74788430 74789390 74788430 ID=MsG0780040239.01.T01;Parent=MsG0780040239.01;Name=MsG0780040239.01.T01;_AED=0.47;_eAED=0.51;_QI=0|0|0.5|1|1|1|2|402|106
Chr7 exon 74788430 74788478 74788430 ID=MsG0780040239.01.T01:exon:14600;Parent=MsG0780040239.01.T01
Chr7 exon 74788717 74789390 74788717 ID=MsG0780040239.01.T01:exon:14601;Parent=MsG0780040239.01.T01
Chr7 CDS 74788430 74788478 74788430 ID=MsG0780040239.01.T01:cds;Parent=MsG0780040239.01.T01
Chr7 CDS 74788717 74788988 74788717 ID=MsG0780040239.01.T01:cds;Parent=MsG0780040239.01.T01
Chr7 three_prime_UTR 74788989 74789390 74788989 ID=MsG0780040239.01.T01:three_prime_utr;Parent=MsG0780040239.01.T01
Gene Sequence

>MsG0780040239.01.T01

ATGGGTCCAAAAACGGAAGAAAGAATGTTTACTCAGCCACCCAGTTTCGCTGTGATGCAATCTGATGGTTTTGAGTATCTAAAAGAAAACTGTCCGTTGCTGCAATCAGAACTGCTTAAGACAGTTGCAGGAGGAGAAGAGGAATTTAGTGGTGAAGGAAAATGCCGAAGTGTGTGGGCCCAAGTTTCTGATGGCGGTGAGACTAATGATAGGAGCGTAAGACAACAAACCTGGGAAAACGGAGTGGAAAGAGGTCAGAATTTATGGGTTAACCTTTCTGATGGGGTTAACAATGATCGGAGTCCAGGGCAAGAAGCTTGA

Protein sequence

>MsG0780040239.01.T01

MGPKTEERMFTQPPSFAVMQSDGFEYLKENCPLLQSELLKTVAGGEEEFSGEGKCRSVWAQVSDGGETNDRSVRQQTWENGVERGQNLWVNLSDGVNNDRSPGQEA*