AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480019501.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019501.01.T02 MTR_4g032905 93.162 117 8 0 1 117 1 117 2.96e-76 221
MsG0480019501.01.T01 MTR_4g032905 94.872 117 5 1 1 116 1 117 2.10e-75 219
MsG0480019501.01.T03 MTR_4g032905 93.151 73 4 1 1 72 1 73 5.38e-42 134
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019501.01.T02 AT1G22630 55.932 118 43 2 1 117 1 110 9.97e-38 123
MsG0480019501.01.T01 AT1G22630 57.627 118 40 2 1 116 1 110 1.24e-39 128

Find 15 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACTTCTTGTCAGTGTGAT+TGG 0.374848 4:+21329008 None:intergenic
ATCACTACTTCTGCTTCAAA+AGG 0.440521 4:-21328966 MsG0480019501.01.T03:CDS
ATCTCTGTTTGTTGCTACAA+TGG 0.457545 4:-21329074 MsG0480019501.01.T03:CDS
CATCGAATGTCCAGGATGTA+AGG 0.459912 4:-21328406 MsG0480019501.01.T03:intron
GTAAAAGTTGCGAAGGCAAA+GGG 0.485475 4:-21328431 MsG0480019501.01.T03:CDS
TATAATACCACCTTACATCC+TGG 0.508605 4:+21328396 None:intergenic
GTCAGTGTGATTGGTTGAAG+TGG 0.510459 4:+21329017 None:intergenic
AAAGGGGCCATCGAATGTCC+AGG 0.555320 4:-21328414 MsG0480019501.01.T03:CDS
AAAAGTTGTAAAAGTTGCGA+AGG 0.564737 4:-21328438 MsG0480019501.01.T03:CDS
CTTACATCCTGGACATTCGA+TGG 0.580457 4:+21328407 None:intergenic
TGTAAAAGTTGCGAAGGCAA+AGG 0.583122 4:-21328432 MsG0480019501.01.T03:CDS
TTGTTGCTACAATGGTGCTG+TGG 0.611840 4:-21329066 MsG0480019501.01.T03:CDS
ATTGTAGCAACAAACAGAGA+TGG 0.617721 4:+21329076 None:intergenic
GTAGCAACAAACAGAGATGG+AGG 0.667885 4:+21329079 None:intergenic
TAAAAGTTGCGAAGGCAAAG+GGG 0.722942 4:-21328430 MsG0480019501.01.T03:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAAAATATAGTTTGTATA+AGG + Chr4:21327764-21327783 None:intergenic 10.0%
!!! AATATATAATTATGTTTTGA+TGG - Chr4:21329050-21329069 MsG0480019501.01.T03:CDS 10.0%
!! TACTAATGTATAAATTGTTT+AGG + Chr4:21328329-21328348 None:intergenic 15.0%
!! AAAAAGAAAAATAGAAACCA+TGG - Chr4:21329088-21329107 MsG0480019501.01.T03:intron 20.0%
!! AAAAGGATTCTCATTTAATT+CGG - Chr4:21327725-21327744 MsG0480019501.01.T03:CDS 20.0%
!! ATTTGAATGGTTGTTTAATT+TGG - Chr4:21328396-21328415 MsG0480019501.01.T03:intron 20.0%
!! TTTAGTAGAATGAAGAATTT+GGG - Chr4:21328987-21329006 MsG0480019501.01.T03:CDS 20.0%
!!! AAGCTATGTTTTAATTTGAA+TGG - Chr4:21328383-21328402 MsG0480019501.01.T03:intron 20.0%
!!! ACTTTTAAAAATATATGCAC+AGG + Chr4:21328222-21328241 None:intergenic 20.0%
!!! ATTGTTTAGGATTTAATTTG+TGG + Chr4:21328316-21328335 None:intergenic 20.0%
!!! TCAGATGAAACAATTTTAAT+CGG - Chr4:21328141-21328160 MsG0480019501.01.T03:intron 20.0%
!!! TTTTAGTAGAATGAAGAATT+TGG - Chr4:21328986-21329005 MsG0480019501.01.T03:CDS 20.0%
!!! TTTTTTTTTGTTACATTAGC+AGG + Chr4:21327874-21327893 None:intergenic 20.0%
! AGAATGGAAATATGTTTGAA+CGG - Chr4:21328448-21328467 MsG0480019501.01.T03:intron 25.0%
! AGTATTAATCACAACACTAA+TGG - Chr4:21327917-21327936 MsG0480019501.01.T03:intron 25.0%
! ATCATACTACTGTATTAGAA+AGG + Chr4:21328848-21328867 None:intergenic 25.0%
! CATTCATTTAATGATGTATG+TGG - Chr4:21328714-21328733 MsG0480019501.01.T03:intron 25.0%
! CATTCATTTAATGATGTATG+TGG + Chr4:21328733-21328714 None:intergenic 25.0%
! CTTCATTCTACTAAAAAAGT+TGG + Chr4:21328982-21329001 None:intergenic 25.0%
! GAGTAAATATGTCAAAATCA+TGG + Chr4:21328576-21328595 None:intergenic 25.0%
! TCAGGAAAGAATAAAAAGAA+TGG - Chr4:21328432-21328451 MsG0480019501.01.T03:CDS 25.0%
! TTAGTAGAATGAAGAATTTG+GGG - Chr4:21328988-21329007 MsG0480019501.01.T03:CDS 25.0%
! TTTCTAATACAGTAGTATGA+TGG - Chr4:21328847-21328866 MsG0480019501.01.T03:intron 25.0%
!! GGATTTTTATGAAGAAAAGT+TGG + Chr4:21327639-21327658 None:intergenic 25.0%
!! TTTTGATGGAGTAATTTACA+AGG - Chr4:21329064-21329083 MsG0480019501.01.T03:CDS 25.0%
!! TTTTTATGAAGAAAAGTTGG+TGG + Chr4:21327636-21327655 None:intergenic 25.0%
!! TTTTTGCTTATAATAGTGAC+CGG - Chr4:21328788-21328807 MsG0480019501.01.T03:intron 25.0%
!! TTTTTGCTTATAATAGTGAC+CGG + Chr4:21328807-21328788 None:intergenic 25.0%
AAAAGTTGTAAAAGTTGCGA+AGG - Chr4:21328236-21328255 MsG0480019501.01.T03:intron 30.0%
ATGATACCAAAGATAATGCA+AGG + Chr4:21328492-21328511 None:intergenic 30.0%
TATTAGATATATACACCCTC+CGG - Chr4:21328657-21328676 MsG0480019501.01.T03:intron 30.0%
TCTTTATAAAATACACCCTC+CGG + Chr4:21328810-21328829 None:intergenic 30.0%
TGATACCAAAGATAATGCAA+GGG + Chr4:21328491-21328510 None:intergenic 30.0%
! TTTTGCAAAAGCTATAAGTG+CGG - Chr4:21328527-21328546 MsG0480019501.01.T03:intron 30.0%
!! GTTTAATTTGGACTTTGACA+GGG - Chr4:21328408-21328427 MsG0480019501.01.T03:CDS 30.0%
!! TGTTTAATTTGGACTTTGAC+AGG - Chr4:21328407-21328426 MsG0480019501.01.T03:CDS 30.0%
ACTAGAGTTTCCAAACCATA+TGG - Chr4:21328004-21328023 MsG0480019501.01.T03:intron 35.0%
ATACTTCTTGTCAGTGTGAT+TGG + Chr4:21327669-21327688 None:intergenic 35.0%
ATCACTACTTCTGCTTCAAA+AGG - Chr4:21327708-21327727 MsG0480019501.01.T03:CDS 35.0%
ATGGAAATATGTTTGAACGG+TGG - Chr4:21328451-21328470 MsG0480019501.01.T03:intron 35.0%
ATTCACACACACTAGTTCAT+AGG + Chr4:21329033-21329052 None:intergenic 35.0%
ATTGTAGCAACAAACAGAGA+TGG + Chr4:21327601-21327620 None:intergenic 35.0%
CAATAAGCTGATGTAACTCA+TGG + Chr4:21328177-21328196 None:intergenic 35.0%
GTATGATGGTATAGATGCTT+TGG - Chr4:21328861-21328880 MsG0480019501.01.T03:intron 35.0%
TAATACTGACGATACTTAGC+AGG + Chr4:21327904-21327923 None:intergenic 35.0%
TATAATACCACCTTACATCC+TGG + Chr4:21328281-21328300 None:intergenic 35.0%
TCCAAACCATATGGTTGAAA+GGG - Chr4:21328013-21328032 MsG0480019501.01.T03:intron 35.0%
TGTCTGTGATCTTGTTAAAG+CGG + Chr4:21327952-21327971 None:intergenic 35.0%
TTCCAAACCATATGGTTGAA+AGG - Chr4:21328012-21328031 MsG0480019501.01.T03:intron 35.0%
! AAAGCTATAAGTGCGGTTTT+TGG - Chr4:21328534-21328553 MsG0480019501.01.T03:intron 35.0%
! ATCTCTGTTTGTTGCTACAA+TGG - Chr4:21327600-21327619 MsG0480019501.01.T03:three_prime_UTR 35.0%
! TAGCTTTTGCAAAATCACGA+TGG + Chr4:21328521-21328540 None:intergenic 35.0%
AACTGATCAACCCAAATCCT+TGG + Chr4:21328890-21328909 None:intergenic 40.0%
ACCCTTTCAACCATATGGTT+TGG + Chr4:21328017-21328036 None:intergenic 40.0%
ATCTTTCTCCTGTTTGCTCT+GGG + Chr4:21328941-21328960 None:intergenic 40.0%
CTTCTCCCTTGCATTATCTT+TGG - Chr4:21328483-21328502 MsG0480019501.01.T03:intron 40.0%
GTAAAAGTTGCGAAGGCAAA+GGG - Chr4:21328243-21328262 MsG0480019501.01.T03:intron 40.0%
TAAAAGTTGCGAAGGCAAAG+GGG - Chr4:21328244-21328263 MsG0480019501.01.T03:intron 40.0%
TATCTTTCTCCTGTTTGCTC+TGG + Chr4:21328942-21328961 None:intergenic 40.0%
TGCTTATAATAGTGACCGGA+GGG - Chr4:21328792-21328811 MsG0480019501.01.T03:intron 40.0%
TGCTTATAATAGTGACCGGA+GGG + Chr4:21328811-21328792 None:intergenic 40.0%
TGTAAAAGTTGCGAAGGCAA+AGG - Chr4:21328242-21328261 MsG0480019501.01.T03:intron 40.0%
TTGAAAGGGTCGATGTTGTT+TGG - Chr4:21328027-21328046 MsG0480019501.01.T03:intron 40.0%
TTGCTTATAATAGTGACCGG+AGG - Chr4:21328791-21328810 MsG0480019501.01.T03:intron 40.0%
TTGCTTATAATAGTGACCGG+AGG + Chr4:21328810-21328791 None:intergenic 40.0%
! TATAGATGCTTTGGATGCCA+AGG - Chr4:21328870-21328889 MsG0480019501.01.T03:intron 40.0%
CATCGAATGTCCAGGATGTA+AGG - Chr4:21328268-21328287 MsG0480019501.01.T03:intron 45.0%
CATCGACCCTTTCAACCATA+TGG + Chr4:21328022-21328041 None:intergenic 45.0%
CTTACATCCTGGACATTCGA+TGG + Chr4:21328270-21328289 None:intergenic 45.0%
GTAGCAACAAACAGAGATGG+AGG + Chr4:21327598-21327617 None:intergenic 45.0%
TCTTTCTCCTGTTTGCTCTG+GGG + Chr4:21328940-21328959 None:intergenic 45.0%
TTTGGACTTTGACAGGGATC+AGG - Chr4:21328414-21328433 MsG0480019501.01.T03:CDS 45.0%
! GCTTTGGATGCCAAGGATTT+GGG - Chr4:21328877-21328896 MsG0480019501.01.T03:intron 45.0%
! GTCAGTGTGATTGGTTGAAG+TGG + Chr4:21327660-21327679 None:intergenic 45.0%
! TGCTTTGGATGCCAAGGATT+TGG - Chr4:21328876-21328895 MsG0480019501.01.T03:intron 45.0%
! TTGTTGCTACAATGGTGCTG+TGG - Chr4:21327608-21327627 MsG0480019501.01.T03:three_prime_UTR 45.0%
CGAATGTCCAGGATGTAAGG+TGG - Chr4:21328271-21328290 MsG0480019501.01.T03:intron 50.0%
AAAGGGGCCATCGAATGTCC+AGG - Chr4:21328260-21328279 MsG0480019501.01.T03:intron 55.0%
AGTTGCCCCAGCTGTGGAAA+GGG - Chr4:21328906-21328925 MsG0480019501.01.T03:intron 55.0%
TTGATCAGTTGCCCCAGCTG+TGG - Chr4:21328900-21328919 MsG0480019501.01.T03:intron 55.0%
AGCCCTCCCTTTCCACAGCT+GGG + Chr4:21328915-21328934 None:intergenic 60.0%
CAGTTGCCCCAGCTGTGGAA+AGG - Chr4:21328905-21328924 MsG0480019501.01.T03:intron 60.0%
CAGCCCTCCCTTTCCACAGC+TGG + Chr4:21328916-21328935 None:intergenic 65.0%
GCCCCAGCTGTGGAAAGGGA+GGG - Chr4:21328910-21328929 MsG0480019501.01.T03:intron 65.0%
GCCCTCCCTTTCCACAGCTG+GGG + Chr4:21328914-21328933 None:intergenic 65.0%
GGGCTGACCCCAGAGCAAAC+AGG - Chr4:21328930-21328949 MsG0480019501.01.T03:intron 65.0%
TGCCCCAGCTGTGGAAAGGG+AGG - Chr4:21328909-21328928 MsG0480019501.01.T03:intron 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 21327576 21329120 21327576 ID=MsG0480019501.01;Name=MsG0480019501.01
Chr4 mRNA 21327576 21329120 21327576 ID=MsG0480019501.01.T01;Parent=MsG0480019501.01;Name=MsG0480019501.01.T01;_AED=0.50;_eAED=0.50;_QI=15|0.33|0.75|1|0|0|4|158|116
Chr4 five_prime_UTR 21329106 21329120 21329106 ID=MsG0480019501.01.T01:five_prime_utr;Parent=MsG0480019501.01.T01
Chr4 CDS 21328950 21329105 21328950 ID=MsG0480019501.01.T01:cds;Parent=MsG0480019501.01.T01
Chr4 CDS 21328407 21328466 21328407 ID=MsG0480019501.01.T01:cds;Parent=MsG0480019501.01.T01
Chr4 CDS 21328221 21328267 21328221 ID=MsG0480019501.01.T01:cds;Parent=MsG0480019501.01.T01
Chr4 CDS 21327734 21327821 21327734 ID=MsG0480019501.01.T01:cds;Parent=MsG0480019501.01.T01
Chr4 three_prime_UTR 21327576 21327733 21327576 ID=MsG0480019501.01.T01:three_prime_utr;Parent=MsG0480019501.01.T01
Chr4 mRNA 21327576 21329105 21327576 ID=MsG0480019501.01.T02;Parent=MsG0480019501.01;Name=MsG0480019501.01.T02;_AED=0.50;_eAED=0.50;_QI=0|0.33|0.5|1|0|0|4|158|117
Chr4 exon 21328407 21328473 21328407 ID=MsG0480019501.01.T02:exon:10326;Parent=MsG0480019501.01.T02
Chr4 exon 21328954 21329105 21328954 ID=MsG0480019501.01.T02:exon:10325;Parent=MsG0480019501.01.T02
Chr4 CDS 21328954 21329105 21328954 ID=MsG0480019501.01.T02:cds;Parent=MsG0480019501.01.T02
Chr4 CDS 21328407 21328473 21328407 ID=MsG0480019501.01.T02:cds;Parent=MsG0480019501.01.T02
Chr4 CDS 21328221 21328267 21328221 ID=MsG0480019501.01.T02:cds;Parent=MsG0480019501.01.T02
Chr4 CDS 21327734 21327821 21327734 ID=MsG0480019501.01.T02:cds;Parent=MsG0480019501.01.T02
Chr4 three_prime_UTR 21327576 21327733 21327576 ID=MsG0480019501.01.T02:three_prime_utr;Parent=MsG0480019501.01.T02
Chr4 mRNA 21327576 21329120 21327576 ID=MsG0480019501.01.T03;Parent=MsG0480019501.01;Name=MsG0480019501.01.T03;_AED=0.50;_eAED=0.50;_QI=15|0|0.66|1|0|0|3|129|110
Chr4 five_prime_UTR 21329106 21329120 21329106 ID=MsG0480019501.01.T03:five_prime_utr;Parent=MsG0480019501.01.T03
Chr4 CDS 21328950 21329105 21328950 ID=MsG0480019501.01.T03:cds;Parent=MsG0480019501.01.T03
Chr4 CDS 21328407 21328466 21328407 ID=MsG0480019501.01.T03:cds;Parent=MsG0480019501.01.T03
Chr4 CDS 21327705 21327821 21327705 ID=MsG0480019501.01.T03:cds;Parent=MsG0480019501.01.T03
Chr4 three_prime_UTR 21327576 21327704 21327576 ID=MsG0480019501.01.T03:three_prime_utr;Parent=MsG0480019501.01.T03
Gene Sequence

>MsG0480019501.01.T02

ATGTCCTCCATCTCTGTTTGTTGCTACAATGGTGCTGTGGTTCCACCAACTTTTCTTCATAAAAATCCACTTCAACCAATCACACTGACAAGAAGTATACAACGAAGACAGAGCACAATCACTACTTCTGCTTCAAAAGGATTCTCATTTAATGCATATATTTTTAAAAGTTGTAAAAGTTGCGAAGGCAAAGGGGCCATCGAATGTCCAGGATGTAAGGGATCAGGAAAGAATAAAAAGAATGGAAATATGTTTGAACGGTGGAAATGCTTTGGATGCCAAGGATTTGGGTTGATCAGTTGCCCCAGCTGTGGAAAGGGAGGGCTGACCCCAGAGCAAACAGGAGAAAGATAA

>MsG0480019501.01.T01

ATGTCCTCCATCTCTGTTTGTTGCTACAATGGTGCTGTGGTTCCACCAACTTTTCTTCATAAAAATCCACTTCAACCAATCACACTGACAAGAAGTATACAACGAAGACAGAGCACAATCACTACTTCTGCTTCAAAAGGATTCTCATTTAATTCGATTTTTAAAAGTTGTAAAAGTTGCGAAGGCAAAGGGGCCATCGAATGTCCAGGATGTAAGGGATCAGGAAAGAATAAAAAGAATGGAAATATGTTTGAACGGTGGAAATGCTTTGGATGCCAAGGATTTGGGTTGATCAGTTGCCCCAGCTGTGGAAAGGGAGGGCTGACCCCAGAGCAAACAGGAGAAAGATAA

>MsG0480019501.01.T03

ATGTCCTCCATCTCTGTTTGTTGCTACAATGGTGCTGTGGTTCCACCAACTTTTCTTCATAAAAATCCACTTCAACCAATCACACTGACAAGAAGTATACAACGAAGACAGAGCACAATCACTACTTCTGCTTCAAAAGGATTCTCATTTAATTCGATTTTTAAAAGTTGTAAAAGTTGCGAAGGCAAAGGGGCCATCGAATGTCCAGGATGTAAGATGCTTTGGATGCCAAGGATTTGGGTTGATCAGTTGCCCCAGCTGTGGAAAGGGAGGGCTGACCCCAGAGCAAACAGGAGAAAGATAAAGAAGCTTCAAAACAACCAACTTTTTTAG

Protein sequence

>MsG0480019501.01.T02

MSSISVCCYNGAVVPPTFLHKNPLQPITLTRSIQRRQSTITTSASKGFSFNAYIFKSCKSCEGKGAIECPGCKGSGKNKKNGNMFERWKCFGCQGFGLISCPSCGKGGLTPEQTGER*

>MsG0480019501.01.T01

MSSISVCCYNGAVVPPTFLHKNPLQPITLTRSIQRRQSTITTSASKGFSFNSIFKSCKSCEGKGAIECPGCKGSGKNKKNGNMFERWKCFGCQGFGLISCPSCGKGGLTPEQTGER*

>MsG0480019501.01.T03

MSSISVCCYNGAVVPPTFLHKNPLQPITLTRSIQRRQSTITTSASKGFSFNSIFKSCKSCEGKGAIECPGCKMLWMPRIWVDQLPQLWKGRADPRANRRKIKKLQNNQLF*