AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006400.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006400.01.T01 MTR_2g007640 95.506 178 8 0 1 178 1 178 1.62e-125 352
MsG0280006400.01.T01 MTR_2g007640 95.506 178 8 0 1 178 1 178 3.68e-125 352
MsG0280006400.01.T01 MTR_2g007640 95.139 144 7 0 1 144 1 144 2.24e-98 281
MsG0280006400.01.T01 MTR_2g007300 60.000 130 49 2 49 178 47 173 1.67e-46 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006400.01.T01 AT3G26070 56.204 137 54 4 46 178 38 172 1.14e-43 145
MsG0280006400.01.T01 AT3G26080 61.468 109 40 2 70 178 57 163 2.24e-39 134
MsG0280006400.01.T01 AT3G26080 61.468 109 40 2 70 178 57 163 4.70e-39 134

Find 41 sgRNAs with CRISPR-Local

Find 111 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCATAGAGCTCAACTTTA+AGG 0.109395 2:-1369879 None:intergenic
CTGATTTGCTCAATGGAAAA+TGG 0.156678 2:+1370139 MsG0280006400.01.T01:CDS
CCATTTGGTCGCAGGAATTT+TGG 0.196629 2:-1371341 None:intergenic
TATTGTACCTGGTTGTAAAA+TGG 0.296463 2:-1371422 None:intergenic
ATGTTGGTGGTGTTGAATTT+TGG 0.338770 2:-1369754 None:intergenic
TAGCTGCTGATTCTGCAAAA+TGG 0.365601 2:+1369794 MsG0280006400.01.T01:CDS
TGGCAGAGTAGAAGTGGGAG+TGG 0.417431 2:-1369671 None:intergenic
TTCTGCAAAATGGAGGAACT+TGG 0.418599 2:+1369804 MsG0280006400.01.T01:CDS
GCCTGGTAGATCTTTCCATT+TGG 0.421158 2:-1371356 None:intergenic
CTCAACTCTGATTTGCTCAA+TGG 0.427126 2:+1370132 MsG0280006400.01.T01:CDS
TCCACACGTTGTTGGTCCTC+AGG 0.437483 2:-1369937 None:intergenic
CCAAAATTCCTGCGACCAAA+TGG 0.438668 2:+1371341 MsG0280006400.01.T01:CDS
TAACCTTGTCCACACGTTGT+TGG 0.440005 2:-1369945 None:intergenic
TGATTTGCTCAATGGAAAAT+GGG 0.442608 2:+1370140 MsG0280006400.01.T01:CDS
TGAGGCTATGAACTCTGTTA+AGG 0.456748 2:+1370104 MsG0280006400.01.T01:CDS
GAAGATTTGGTTGTGAAGGA+TGG 0.468096 2:-1369714 None:intergenic
GAATCAATTATACATTTGAA+TGG 0.483996 2:-1369691 None:intergenic
ATGTATCTGTATTAATTGCC+TGG 0.490157 2:-1371373 None:intergenic
GAATCAGCAGCTACTGATGA+TGG 0.500537 2:-1369784 None:intergenic
AGATCTTTCCATTTGGTCGC+AGG 0.508870 2:-1371349 None:intergenic
TTCCTCCAGTTAGAAAACCT+TGG 0.517994 2:-1369837 None:intergenic
AAGATTTGGTTGTGAAGGAT+GGG 0.520551 2:-1369713 None:intergenic
GAGCTCAAAATATAGAAACT+TGG 0.545026 2:+1371399 MsG0280006400.01.T01:CDS
TTTGAATGGCAGAGTAGAAG+TGG 0.547151 2:-1369677 None:intergenic
AACTTGGTTTCAATCTTCCA+AGG 0.553044 2:+1369820 MsG0280006400.01.T01:CDS
TACAAGAGAATGTTAACAAG+AGG 0.567448 2:+1369607 None:intergenic
CTAGATTGCTAGTAAACTTG+AGG 0.574347 2:+1370086 MsG0280006400.01.T01:intron
TCCTGAGGACCAACAACGTG+TGG 0.586912 2:+1369936 MsG0280006400.01.T01:CDS
GGACCAACAACGTGTGGACA+AGG 0.602478 2:+1369942 MsG0280006400.01.T01:CDS
TGATGATGGTAATATGATGT+TGG 0.604952 2:-1369770 None:intergenic
GCTTCAGCACCACGTTCAAG+TGG 0.605538 2:-1369910 None:intergenic
AAAGGAAGATTTGGTTGTGA+AGG 0.609629 2:-1369718 None:intergenic
TGATGGTAATATGATGTTGG+TGG 0.609634 2:-1369767 None:intergenic
ATGGGCAGAACTATTGTACC+TGG 0.615382 2:-1371433 None:intergenic
TCTAACTGGAGGAAGAGGAA+AGG 0.618212 2:+1369846 MsG0280006400.01.T01:CDS
CTGCTGATTCTGCAAAATGG+AGG 0.648936 2:+1369797 MsG0280006400.01.T01:CDS
TTGAATGGCAGAGTAGAAGT+GGG 0.655278 2:-1369676 None:intergenic
TTGAGCAAATCAGAGTTGAG+AGG 0.664638 2:-1370129 None:intergenic
ACCAAATGGAAAGATCTACC+AGG 0.666458 2:+1371355 MsG0280006400.01.T01:CDS
TGGTGCTGAAGCTACTCCTG+AGG 0.671485 2:+1369921 MsG0280006400.01.T01:CDS
ACAATTGAGCCACTTGAACG+TGG 0.739802 2:+1369901 MsG0280006400.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATGATATTCTTTAATTTA+AGG + Chr2:1370542-1370561 MsG0280006400.01.T01:intron 10.0%
!! ATTAAAAGAAAAAATGTAAG+TGG - Chr2:1370774-1370793 None:intergenic 15.0%
!!! AAAATTTAATGATTTAGAGT+TGG + Chr2:1371105-1371124 MsG0280006400.01.T01:intron 15.0%
!!! AAATTTAATGATTTAGAGTT+GGG + Chr2:1371106-1371125 MsG0280006400.01.T01:intron 15.0%
!!! TAGCTATTTTAAATGTATTA+TGG + Chr2:1370640-1370659 MsG0280006400.01.T01:intron 15.0%
!! AAAAAAAAAAAACATCTTGC+AGG - Chr2:1370847-1370866 None:intergenic 20.0%
!! AATTAATCATCACTTTACAA+GGG - Chr2:1371300-1371319 None:intergenic 20.0%
!! ATCAAAATCGATAAAAGATA+TGG - Chr2:1370482-1370501 None:intergenic 20.0%
!! CATAAATAAGAACCTATAAT+TGG - Chr2:1370276-1370295 None:intergenic 20.0%
!! GAATCAATTATACATTTGAA+TGG - Chr2:1369694-1369713 None:intergenic 20.0%
!!! AAATAGCTAAATCAACATTT+TGG - Chr2:1370629-1370648 None:intergenic 20.0%
!!! ATATCTTTTATCGATTTTGA+TGG + Chr2:1370481-1370500 MsG0280006400.01.T01:intron 20.0%
!!! ATTGATATTTTTCAATCCAA+GGG - Chr2:1370361-1370380 None:intergenic 20.0%
!!! TTCACTAAAGATTTTTTTGA+TGG + Chr2:1370507-1370526 MsG0280006400.01.T01:intron 20.0%
! AAAGAAAAAATGTAAGTGGT+CGG - Chr2:1370770-1370789 None:intergenic 25.0%
! AAATGTATTATGGATTCAGT+TGG + Chr2:1370650-1370669 MsG0280006400.01.T01:intron 25.0%
! AAGAACCTATAATTGGAATT+TGG - Chr2:1370269-1370288 None:intergenic 25.0%
! AATTTCAGAGATTAAATTGC+TGG + Chr2:1370584-1370603 MsG0280006400.01.T01:intron 25.0%
! ATAGATAGAGCTTATAAAGA+TGG - Chr2:1370945-1370964 None:intergenic 25.0%
! CAATTAATCATCACTTTACA+AGG - Chr2:1371301-1371320 None:intergenic 25.0%
! CATAAAATCAATCACAAACT+AGG - Chr2:1370056-1370075 None:intergenic 25.0%
! GATATCCAAATTCCAATTAT+AGG + Chr2:1370261-1370280 MsG0280006400.01.T01:intron 25.0%
! TAAAGCATATGTGCTTATAT+TGG + Chr2:1370421-1370440 MsG0280006400.01.T01:intron 25.0%
! TAGATAGAGCTTATAAAGAT+GGG - Chr2:1370944-1370963 None:intergenic 25.0%
! TGTTACATGCATAATAGTTT+AGG + Chr2:1369995-1370014 MsG0280006400.01.T01:intron 25.0%
!! AAAACAGACTCTTAAGTTTT+CGG + Chr2:1370797-1370816 MsG0280006400.01.T01:intron 25.0%
!! CATAATAGTTTAGGTTTATG+TGG + Chr2:1370004-1370023 MsG0280006400.01.T01:intron 25.0%
!! TAAATTTTCCATAAGTATGC+TGG - Chr2:1371093-1371112 None:intergenic 25.0%
!!! AGTTTGTGATTGATTTTATG+TGG + Chr2:1370056-1370075 MsG0280006400.01.T01:intron 25.0%
!!! CATTGATATTTTTCAATCCA+AGG - Chr2:1370362-1370381 None:intergenic 25.0%
AACTATATTGCATTAGGATC+TGG - Chr2:1370236-1370255 None:intergenic 30.0%
ATGTATCTGTATTAATTGCC+TGG - Chr2:1371376-1371395 None:intergenic 30.0%
CAGAGAAACTATATTGCATT+AGG - Chr2:1370242-1370261 None:intergenic 30.0%
GAGCTCAAAATATAGAAACT+TGG + Chr2:1371399-1371418 MsG0280006400.01.T01:CDS 30.0%
TATAAAACTACTCCTTTGTG+TGG + Chr2:1371005-1371024 MsG0280006400.01.T01:intron 30.0%
TATTGTACCTGGTTGTAAAA+TGG - Chr2:1371425-1371444 None:intergenic 30.0%
TTAACATGCTCATCAAAATG+TGG + Chr2:1370712-1370731 MsG0280006400.01.T01:intron 30.0%
TTTCATAGAGCTCAACTTTA+AGG - Chr2:1369882-1369901 None:intergenic 30.0%
! AAGGGTCAAATTGTCTATTT+TGG + Chr2:1371032-1371051 MsG0280006400.01.T01:intron 30.0%
! TCAATCAATTTTGCAAACAC+AGG + Chr2:1370182-1370201 MsG0280006400.01.T01:CDS 30.0%
!! GCACATATGCTTTAAAATTG+AGG - Chr2:1370415-1370434 None:intergenic 30.0%
!! TGATGATGGTAATATGATGT+TGG - Chr2:1369773-1369792 None:intergenic 30.0%
!! TGATTTGCTCAATGGAAAAT+GGG + Chr2:1370140-1370159 MsG0280006400.01.T01:CDS 30.0%
AACTTGGTTTCAATCTTCCA+AGG + Chr2:1369820-1369839 MsG0280006400.01.T01:CDS 35.0%
ATCCAAGGGACTAAATTGAT+AGG - Chr2:1370347-1370366 None:intergenic 35.0%
ATGACTTACCAGCATACTTA+TGG + Chr2:1371082-1371101 MsG0280006400.01.T01:intron 35.0%
CTAGATTGCTAGTAAACTTG+AGG + Chr2:1370086-1370105 MsG0280006400.01.T01:intron 35.0%
GATAGGCACTTACAATTTCA+AGG - Chr2:1370330-1370349 None:intergenic 35.0%
TGATGGTAATATGATGTTGG+TGG - Chr2:1369770-1369789 None:intergenic 35.0%
TTTGGCACTCGAAATTGTAA+GGG - Chr2:1370611-1370630 None:intergenic 35.0%
! AAAGGAAGATTTGGTTGTGA+AGG - Chr2:1369721-1369740 None:intergenic 35.0%
! AAGATTTGGTTGTGAAGGAT+GGG - Chr2:1369716-1369735 None:intergenic 35.0%
! ATCTTCCAAGGTTTTCTAAC+TGG + Chr2:1369832-1369851 MsG0280006400.01.T01:CDS 35.0%
! CAGGTCTATTTTACGAGATT+GGG - Chr2:1370828-1370847 None:intergenic 35.0%
! GAATCAAACAGGGTTCTTTT+AGG + Chr2:1370901-1370920 MsG0280006400.01.T01:intron 35.0%
! TCAATTTTGCAAACACAGGT+TGG + Chr2:1370186-1370205 MsG0280006400.01.T01:intron 35.0%
! TTCTTTTAGGCTAACAGATG+TGG + Chr2:1370914-1370933 MsG0280006400.01.T01:intron 35.0%
! TTTTGGCACTCGAAATTGTA+AGG - Chr2:1370612-1370631 None:intergenic 35.0%
!! CTGATTTGCTCAATGGAAAA+TGG + Chr2:1370139-1370158 MsG0280006400.01.T01:CDS 35.0%
!!! ATGTTGGTGGTGTTGAATTT+TGG - Chr2:1369757-1369776 None:intergenic 35.0%
AAAGAACCCTGTTTGATTCC+TGG - Chr2:1370900-1370919 None:intergenic 40.0%
AAGAACCCTGTTTGATTCCT+GGG - Chr2:1370899-1370918 None:intergenic 40.0%
ACCAAATGGAAAGATCTACC+AGG + Chr2:1371355-1371374 MsG0280006400.01.T01:CDS 40.0%
ACTCCTTTGTGTGGTCAAAA+GGG + Chr2:1371014-1371033 MsG0280006400.01.T01:intron 40.0%
CTGTCTTGCTCATTATTGAC+AGG - Chr2:1371144-1371163 None:intergenic 40.0%
GGTCGGTCTACATTCAATAT+GGG - Chr2:1370753-1370772 None:intergenic 40.0%
TACTCCTTTGTGTGGTCAAA+AGG + Chr2:1371013-1371032 MsG0280006400.01.T01:intron 40.0%
TGAGGCTATGAACTCTGTTA+AGG + Chr2:1370104-1370123 MsG0280006400.01.T01:CDS 40.0%
TGCCTATCAATTTAGTCCCT+TGG + Chr2:1370342-1370361 MsG0280006400.01.T01:intron 40.0%
TGGTCGGTCTACATTCAATA+TGG - Chr2:1370754-1370773 None:intergenic 40.0%
TTCCTCCAGTTAGAAAACCT+TGG - Chr2:1369840-1369859 None:intergenic 40.0%
TTCTGCAAAATGGAGGAACT+TGG + Chr2:1369804-1369823 MsG0280006400.01.T01:CDS 40.0%
TTGAATGGCAGAGTAGAAGT+GGG - Chr2:1369679-1369698 None:intergenic 40.0%
TTGAGCAAATCAGAGTTGAG+AGG - Chr2:1370132-1370151 None:intergenic 40.0%
TTTGAATGGCAGAGTAGAAG+TGG - Chr2:1369680-1369699 None:intergenic 40.0%
! CTCAAGTCTCACAGTGATTT+TGG - Chr2:1370969-1370988 None:intergenic 40.0%
! GAAGATTTGGTTGTGAAGGA+TGG - Chr2:1369717-1369736 None:intergenic 40.0%
! GCAGGTCTATTTTACGAGAT+TGG - Chr2:1370829-1370848 None:intergenic 40.0%
! TTCCAAGGTTTTCTAACTGG+AGG + Chr2:1369835-1369854 MsG0280006400.01.T01:CDS 40.0%
!! AACTTGGCCATTTTACAACC+AGG + Chr2:1371415-1371434 MsG0280006400.01.T01:CDS 40.0%
!! CTCAACTCTGATTTGCTCAA+TGG + Chr2:1370132-1370151 MsG0280006400.01.T01:CDS 40.0%
!! TAGCTGCTGATTCTGCAAAA+TGG + Chr2:1369794-1369813 MsG0280006400.01.T01:CDS 40.0%
!! TGGTGTTGAATTTTGGTCGT+GGG - Chr2:1369750-1369769 None:intergenic 40.0%
ACAATTGAGCCACTTGAACG+TGG + Chr2:1369901-1369920 MsG0280006400.01.T01:CDS 45.0%
AGATCTTTCCATTTGGTCGC+AGG - Chr2:1371352-1371371 None:intergenic 45.0%
CCAAAATTCCTGCGACCAAA+TGG + Chr2:1371341-1371360 MsG0280006400.01.T01:CDS 45.0%
GAATCAGCAGCTACTGATGA+TGG - Chr2:1369787-1369806 None:intergenic 45.0%
GCCTGGTAGATCTTTCCATT+TGG - Chr2:1371359-1371378 None:intergenic 45.0%
TAACCTTGTCCACACGTTGT+TGG - Chr2:1369948-1369967 None:intergenic 45.0%
TCTAACTGGAGGAAGAGGAA+AGG + Chr2:1369846-1369865 MsG0280006400.01.T01:CDS 45.0%
! CCATTTGGTCGCAGGAATTT+TGG - Chr2:1371344-1371363 None:intergenic 45.0%
! GGTTTTCTAACTGGAGGAAG+AGG + Chr2:1369841-1369860 MsG0280006400.01.T01:CDS 45.0%
! TGACCCTTTTGACCACACAA+AGG - Chr2:1371020-1371039 None:intergenic 45.0%
!! CAGGTTGGTTTCTAGAGTAG+AGG + Chr2:1370201-1370220 MsG0280006400.01.T01:intron 45.0%
!! CTGCTGATTCTGCAAAATGG+AGG + Chr2:1369797-1369816 MsG0280006400.01.T01:CDS 45.0%
!! GGTGTTGAATTTTGGTCGTG+GGG - Chr2:1369749-1369768 None:intergenic 45.0%
!! GTGGTGTTGAATTTTGGTCG+TGG - Chr2:1369751-1369770 None:intergenic 45.0%
!! GTGTTGAATTTTGGTCGTGG+GGG - Chr2:1369748-1369767 None:intergenic 45.0%
!! TCGCAGGAATTTTGGTCTCT+AGG - Chr2:1371336-1371355 None:intergenic 45.0%
AAAGTGATAACAGCCAGCCC+AGG + Chr2:1370879-1370898 MsG0280006400.01.T01:intron 50.0%
! GGGGGTGCAAAAGGAAGATT+TGG - Chr2:1369730-1369749 None:intergenic 50.0%
ACCCTGTTTGATTCCTGGGC+TGG - Chr2:1370895-1370914 None:intergenic 55.0%
AGCCAGCCCAGGAATCAAAC+AGG + Chr2:1370890-1370909 MsG0280006400.01.T01:intron 55.0%
GCCAGCCCAGGAATCAAACA+GGG + Chr2:1370891-1370910 MsG0280006400.01.T01:intron 55.0%
GCTTCAGCACCACGTTCAAG+TGG - Chr2:1369913-1369932 None:intergenic 55.0%
GGACCAACAACGTGTGGACA+AGG + Chr2:1369942-1369961 MsG0280006400.01.T01:CDS 55.0%
TCCACACGTTGTTGGTCCTC+AGG - Chr2:1369940-1369959 None:intergenic 55.0%
TCCTGAGGACCAACAACGTG+TGG + Chr2:1369936-1369955 MsG0280006400.01.T01:CDS 55.0%
TGGCAGAGTAGAAGTGGGAG+TGG - Chr2:1369674-1369693 None:intergenic 55.0%
! TGGTGCTGAAGCTACTCCTG+AGG + Chr2:1369921-1369940 MsG0280006400.01.T01:CDS 55.0%
! TTTGGTCGTGGGGGTGCAAA+AGG - Chr2:1369739-1369758 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 1369621 1371445 1369621 ID=MsG0280006400.01;Name=MsG0280006400.01
Chr2 mRNA 1369621 1371445 1369621 ID=MsG0280006400.01.T01;Parent=MsG0280006400.01;Name=MsG0280006400.01.T01;_AED=0.47;_eAED=0.48;_QI=25|1|0.66|1|0.5|0.66|3|0|179
Chr2 exon 1369621 1369963 1369621 ID=MsG0280006400.01.T01:exon:45;Parent=MsG0280006400.01.T01
Chr2 exon 1370090 1370203 1370090 ID=MsG0280006400.01.T01:exon:46;Parent=MsG0280006400.01.T01
Chr2 exon 1371338 1371445 1371338 ID=MsG0280006400.01.T01:exon:47;Parent=MsG0280006400.01.T01
Chr2 five_prime_UTR 1369621 1369645 1369621 ID=MsG0280006400.01.T01:five_prime_utr;Parent=MsG0280006400.01.T01
Chr2 CDS 1369646 1369963 1369646 ID=MsG0280006400.01.T01:cds;Parent=MsG0280006400.01.T01
Chr2 CDS 1370090 1370203 1370090 ID=MsG0280006400.01.T01:cds;Parent=MsG0280006400.01.T01
Chr2 CDS 1371338 1371445 1371338 ID=MsG0280006400.01.T01:cds;Parent=MsG0280006400.01.T01
Gene Sequence

>MsG0280006400.01.T01

ATGACTTATCTCTCAGCAGTTCTCTCCACTCCCACTTCTACTCTGCCATTCAAATGTATAATTGATTCCCATCCTTCACAACCAAATCTTCCTTTTGCACCCCCACGACCAAAATTCAACACCACCAACATCATATTACCATCATCAGTAGCTGCTGATTCTGCAAAATGGAGGAACTTGGTTTCAATCTTCCAAGGTTTTCTAACTGGAGGAAGAGGAAAGGATGTTCAGAGCCTTAAAGTTGAGCTCTATGAAACAATTGAGCCACTTGAACGTGGTGCTGAAGCTACTCCTGAGGACCAACAACGTGTGGACAAGATTGCTAGTAAACTTGAGGCTATGAACTCTGTTAAGGAGCCTCTCAACTCTGATTTGCTCAATGGAAAATGGGAGCTTTTATATACAACATCTCAATCAATTTTGCAAACACAGAGACCAAAATTCCTGCGACCAAATGGAAAGATCTACCAGGCAATTAATACAGATACATTGAGAGCTCAAAATATAGAAACTTGGCCATTTTACAACCAGGTACAATAG

Protein sequence

>MsG0280006400.01.T01

MTYLSAVLSTPTSTLPFKCIIDSHPSQPNLPFAPPRPKFNTTNIILPSSVAADSAKWRNLVSIFQGFLTGGRGKDVQSLKVELYETIEPLERGAEATPEDQQRVDKIASKLEAMNSVKEPLNSDLLNGKWELLYTTSQSILQTQRPKFLRPNGKIYQAINTDTLRAQNIETWPFYNQVQ*