AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038682.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038682.01.T01 MTR_7g059460 93.333 75 5 0 22 96 44 118 5.75e-47 146
MsG0780038682.01.T01 MTR_7g059460 93.443 61 4 0 22 82 44 104 5.91e-36 118
MsG0780038682.01.T01 MTR_4g014040 66.667 69 23 0 22 90 44 112 1.13e-27 97.4
MsG0780038682.01.T01 MTR_4g014040 64.062 64 23 0 22 85 44 107 2.43e-24 89.4
MsG0780038682.01.T01 MTR_4g014040 66.129 62 21 0 22 83 44 105 4.85e-23 87.0
MsG0780038682.01.T01 MTR_4g127370 54.412 68 31 0 23 90 783 850 9.25e-19 79.7
MsG0780038682.01.T01 MTR_4g127360 44.048 84 43 1 11 90 29 112 1.47e-17 71.6
MsG0780038682.01.T01 MTR_4g013730 47.458 59 31 0 22 80 44 102 1.66e-15 66.6
MsG0780038682.01.T01 MTR_0562s0020 47.458 59 31 0 22 80 44 102 1.66e-15 66.6
MsG0780038682.01.T01 MTR_7g070250 41.270 63 37 0 22 84 44 106 4.76e-14 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038682.01.T01 AT5G01650 59.722 72 29 0 22 93 44 115 1.08e-25 92.4
MsG0780038682.01.T01 AT5G01650 62.500 64 24 0 22 85 44 107 5.33e-24 88.2
MsG0780038682.01.T01 AT5G01650 61.905 63 24 0 22 84 44 106 2.94e-23 86.7
MsG0780038682.01.T01 AT5G01650 61.905 63 24 0 22 84 44 106 2.94e-23 86.7
MsG0780038682.01.T01 AT5G57170 50.000 66 33 0 25 90 47 112 7.38e-15 65.1
MsG0780038682.01.T01 AT5G57170 53.571 56 26 0 25 80 47 102 1.39e-14 64.3

Find 23 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAGTGTCTTGCTCAAATC+TGG 0.272957 7:-51171207 None:intergenic
TCAGTTTCACCAAAACATAT+TGG 0.357622 7:-51171138 None:intergenic
GGATCAATACCAATATGTTT+TGG 0.359469 7:+51171129 MsG0780038682.01.T01:CDS
GGCTATAATTGTGGACTGAA+TGG 0.371081 7:+51171409 MsG0780038682.01.T01:CDS
CGTTAGGCCTCTTAATCTGT+TGG 0.389770 7:-51171095 None:intergenic
GCTATAATTGTGGACTGAAT+GGG 0.390793 7:+51171410 MsG0780038682.01.T01:CDS
TATGGTGAATTTGTGGCTAT+TGG 0.409602 7:+51171174 MsG0780038682.01.T01:CDS
GTTAGGCCTCTTAATCTGTT+GGG 0.432346 7:-51171094 None:intergenic
AGTTCTTCACACCATGTTGT+CGG 0.443341 7:+51171245 MsG0780038682.01.T01:CDS
CTTAAAATTCTATGACATTG+AGG 0.475447 7:+51171287 MsG0780038682.01.T01:CDS
TTTAAGTAGAAACGTGACTT+AGG 0.476271 7:-51171270 None:intergenic
GACCGGCCCAACAGATTAAG+AGG 0.486282 7:+51171088 MsG0780038682.01.T01:CDS
GGCCTCTTAATCTGTTGGGC+CGG 0.487349 7:-51171090 None:intergenic
ACTGAGGAACCAGCAGCATA+TGG 0.491951 7:+51171156 MsG0780038682.01.T01:CDS
AGCAGCATATGGTGAATTTG+TGG 0.494347 7:+51171167 MsG0780038682.01.T01:CDS
GAGGCCTAACGCAAAATACA+AGG 0.508972 7:+51171107 MsG0780038682.01.T01:CDS
CTATAATTGTGGACTGAATG+GGG 0.522842 7:+51171411 MsG0780038682.01.T01:CDS
CAACATGGTGTGAAGAACTA+AGG 0.556695 7:-51171241 None:intergenic
ACAAATTCACCATATGCTGC+TGG 0.562286 7:-51171165 None:intergenic
TATAATTGTGGACTGAATGG+GGG 0.616645 7:+51171412 MsG0780038682.01.T01:CDS
TGACTTAGGCACCGACAACA+TGG 0.632202 7:-51171256 None:intergenic
AGGCCTAACGCAAAATACAA+GGG 0.654185 7:+51171108 MsG0780038682.01.T01:CDS
AATGTGCAGGGCTATAATTG+TGG 0.693676 7:+51171400 MsG0780038682.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTTGATTTAATTTAATAAA+GGG - Chr7:51170448-51170467 None:intergenic 10.0%
!! ATAATTCAAGATTGTAAAAT+TGG - Chr7:51171316-51171335 None:intergenic 15.0%
!! TAATTCAAGATTGTAAAATT+GGG - Chr7:51171315-51171334 None:intergenic 15.0%
!!! AGAGGATTTTTTTAATATTT+AGG + Chr7:51170716-51170735 MsG0780038682.01.T01:intron 15.0%
!!! CTGTTGATTTAATTTAATAA+AGG - Chr7:51170449-51170468 None:intergenic 15.0%
!!! TTTAGTGAAAATAACAATTT+TGG - Chr7:51170766-51170785 None:intergenic 15.0%
!! TAGTTATCGAATATTTAATC+CGG + Chr7:51171033-51171052 MsG0780038682.01.T01:intron 20.0%
!!! ATGGTAACAAATTTTCAAAT+GGG - Chr7:51170523-51170542 None:intergenic 20.0%
!!! GACAATTTTTTGAATTAAAG+TGG + Chr7:51170339-51170358 MsG0780038682.01.T01:intron 20.0%
!!! GTTTAAAATGAGATAAAAAC+CGG - Chr7:51171055-51171074 None:intergenic 20.0%
!!! TGTATTTTCACTTTATTGAA+GGG - Chr7:51170550-51170569 None:intergenic 20.0%
! AAATCAACAGTGTAATGAAA+AGG + Chr7:51170459-51170478 MsG0780038682.01.T01:intron 25.0%
! AAGAACTATGGTTCAAATTT+CGG - Chr7:51170965-51170984 None:intergenic 25.0%
! AATCAACAGTGTAATGAAAA+GGG + Chr7:51170460-51170479 MsG0780038682.01.T01:intron 25.0%
! ACTAAAACTAGGTATATAAC+CGG - Chr7:51170830-51170849 None:intergenic 25.0%
! AGCAAAAACTAACTAAAACT+AGG - Chr7:51170841-51170860 None:intergenic 25.0%
! CAAATGAGTTAAAAGAACTA+TGG - Chr7:51170977-51170996 None:intergenic 25.0%
! CTTAAAATTCTATGACATTG+AGG + Chr7:51171287-51171306 MsG0780038682.01.T01:CDS 25.0%
! TAATACTATAAAGTTGAGAG+TGG - Chr7:51171360-51171379 None:intergenic 25.0%
!! CTGTATTTTCACTTTATTGA+AGG - Chr7:51170551-51170570 None:intergenic 25.0%
!! GATGGTAACAAATTTTCAAA+TGG - Chr7:51170524-51170543 None:intergenic 25.0%
!! GGAGAAATGAAAGAAATTTT+TGG + Chr7:51170198-51170217 MsG0780038682.01.T01:CDS 25.0%
!!! GTGAAAATAACAATTTTGGT+AGG - Chr7:51170762-51170781 None:intergenic 25.0%
!!! TAGAGATAATAGCTTTGTTT+TGG + Chr7:51170268-51170287 MsG0780038682.01.T01:intron 25.0%
AAGTTAAAAACTTAGTGGCA+AGG + Chr7:51170573-51170592 MsG0780038682.01.T01:intron 30.0%
CAGATTGTGGTAAAAAACTA+TGG + Chr7:51170492-51170511 MsG0780038682.01.T01:intron 30.0%
CAGTGAAGTTAAAAACTTAG+TGG + Chr7:51170568-51170587 MsG0780038682.01.T01:intron 30.0%
TCAGTTTCACCAAAACATAT+TGG - Chr7:51171141-51171160 None:intergenic 30.0%
TTATCTATCTCTTTATTCGC+TGG + Chr7:51170692-51170711 MsG0780038682.01.T01:intron 30.0%
TTTAAGTAGAAACGTGACTT+AGG - Chr7:51171273-51171292 None:intergenic 30.0%
! CATTTGTTTGTTAATGTGCA+GGG + Chr7:51171388-51171407 MsG0780038682.01.T01:intron 30.0%
! GGATCAATACCAATATGTTT+TGG + Chr7:51171129-51171148 MsG0780038682.01.T01:CDS 30.0%
! TCATTTGTTTGTTAATGTGC+AGG + Chr7:51171387-51171406 MsG0780038682.01.T01:intron 30.0%
! TCTCATTTTAAACTAATCCC+TGG + Chr7:51171062-51171081 MsG0780038682.01.T01:intron 30.0%
!!! AATATGTTTTGGTGAAACTG+AGG + Chr7:51171140-51171159 MsG0780038682.01.T01:CDS 30.0%
ACCAAATTTGCAAGTACAGA+GGG - Chr7:51170396-51170415 None:intergenic 35.0%
AGGGTATAAAAGTCAGATTG+TGG + Chr7:51170479-51170498 MsG0780038682.01.T01:intron 35.0%
ATGGTAAGCTAGAATTCAAG+TGG - Chr7:51170875-51170894 None:intergenic 35.0%
CACTTTATTGAAGGGTAAGA+TGG - Chr7:51170542-51170561 None:intergenic 35.0%
TACCAAATTTGCAAGTACAG+AGG - Chr7:51170397-51170416 None:intergenic 35.0%
TAGAATTCAAGTGGGAAGTT+AGG - Chr7:51170866-51170885 None:intergenic 35.0%
TATGGTGAATTTGTGGCTAT+TGG + Chr7:51171174-51171193 MsG0780038682.01.T01:CDS 35.0%
TATGGTTCAAATTTCGGTGA+AGG - Chr7:51170959-51170978 None:intergenic 35.0%
TCTGTACTTGCAAATTTGGT+AGG + Chr7:51170396-51170415 MsG0780038682.01.T01:intron 35.0%
TGGTAAGCTAGAATTCAAGT+GGG - Chr7:51170874-51170893 None:intergenic 35.0%
! ATTTTAAACTAATCCCTGGC+AGG + Chr7:51171066-51171085 MsG0780038682.01.T01:intron 35.0%
! CTATAATTGTGGACTGAATG+GGG + Chr7:51171411-51171430 MsG0780038682.01.T01:CDS 35.0%
! GCTATAATTGTGGACTGAAT+GGG + Chr7:51171410-51171429 MsG0780038682.01.T01:CDS 35.0%
! TATAATTGTGGACTGAATGG+GGG + Chr7:51171412-51171431 MsG0780038682.01.T01:CDS 35.0%
!! GACAGTTGTGAGATTTTGAT+AGG + Chr7:51170595-51170614 MsG0780038682.01.T01:intron 35.0%
AATGTGCAGGGCTATAATTG+TGG + Chr7:51171400-51171419 MsG0780038682.01.T01:intron 40.0%
AATTCCCTTCCTGGAAGAAT+TGG + Chr7:51170895-51170914 MsG0780038682.01.T01:intron 40.0%
ACAAATTCACCATATGCTGC+TGG - Chr7:51171168-51171187 None:intergenic 40.0%
AGCAGCATATGGTGAATTTG+TGG + Chr7:51171167-51171186 MsG0780038682.01.T01:CDS 40.0%
AGGCCTAACGCAAAATACAA+GGG + Chr7:51171108-51171127 MsG0780038682.01.T01:CDS 40.0%
AGTTCTTCACACCATGTTGT+CGG + Chr7:51171245-51171264 MsG0780038682.01.T01:CDS 40.0%
ATCTCTTTATTCGCTGGAAG+AGG + Chr7:51170698-51170717 MsG0780038682.01.T01:intron 40.0%
CAACATGGTGTGAAGAACTA+AGG - Chr7:51171244-51171263 None:intergenic 40.0%
CTTAGTGTCTTGCTCAAATC+TGG - Chr7:51171210-51171229 None:intergenic 40.0%
GTTAGGCCTCTTAATCTGTT+GGG - Chr7:51171097-51171116 None:intergenic 40.0%
TCCCTCTGTACTTGCAAATT+TGG + Chr7:51170392-51170411 MsG0780038682.01.T01:intron 40.0%
TGCAGAGGGATAGAGAAAAA+AGG + Chr7:51170292-51170311 MsG0780038682.01.T01:intron 40.0%
TTCTTCCAGGAAGGGAATTA+TGG - Chr7:51170894-51170913 None:intergenic 40.0%
! GATCCCTTGTATTTTGCGTT+AGG - Chr7:51171114-51171133 None:intergenic 40.0%
! GGCTATAATTGTGGACTGAA+TGG + Chr7:51171409-51171428 MsG0780038682.01.T01:CDS 40.0%
!!! AGCTTTGTTTTGGTTGCAGA+GGG + Chr7:51170278-51170297 MsG0780038682.01.T01:intron 40.0%
!!! TAGCTTTGTTTTGGTTGCAG+AGG + Chr7:51170277-51170296 MsG0780038682.01.T01:intron 40.0%
CGTTAGGCCTCTTAATCTGT+TGG - Chr7:51171098-51171117 None:intergenic 45.0%
CTTAACCCTCCAATTCTTCC+AGG - Chr7:51170907-51170926 None:intergenic 45.0%
GAGGCCTAACGCAAAATACA+AGG + Chr7:51171107-51171126 MsG0780038682.01.T01:CDS 45.0%
GCTTACCATAATTCCCTTCC+TGG + Chr7:51170886-51170905 MsG0780038682.01.T01:intron 45.0%
TATATAACCGGTGCGTTGCA+CGG - Chr7:51170818-51170837 None:intergenic 45.0%
AAACTAATCCCTGGCAGGAC+CGG + Chr7:51171071-51171090 MsG0780038682.01.T01:intron 50.0%
ACCCTCCAATTCTTCCAGGA+AGG - Chr7:51170903-51170922 None:intergenic 50.0%
ACTGAGGAACCAGCAGCATA+TGG + Chr7:51171156-51171175 MsG0780038682.01.T01:CDS 50.0%
ATATAACCGGTGCGTTGCAC+GGG - Chr7:51170817-51170836 None:intergenic 50.0%
CCCTCCAATTCTTCCAGGAA+GGG - Chr7:51170902-51170921 None:intergenic 50.0%
CCCTTCCTGGAAGAATTGGA+GGG + Chr7:51170899-51170918 MsG0780038682.01.T01:intron 50.0%
TCCCTTCCTGGAAGAATTGG+AGG + Chr7:51170898-51170917 MsG0780038682.01.T01:intron 50.0%
!! TGACTTAGGCACCGACAACA+TGG - Chr7:51171259-51171278 None:intergenic 50.0%
ACTGAATGGGGGTCTCATGG+TGG + Chr7:51171423-51171442 MsG0780038682.01.T01:CDS 55.0%
GACCGGCCCAACAGATTAAG+AGG + Chr7:51171088-51171107 MsG0780038682.01.T01:CDS 55.0%
GGCCTCTTAATCTGTTGGGC+CGG - Chr7:51171093-51171112 None:intergenic 55.0%
TGGACTGAATGGGGGTCTCA+TGG + Chr7:51171420-51171439 MsG0780038682.01.T01:CDS 55.0%
ATCGAACCCGTGCAACGCAC+CGG + Chr7:51170808-51170827 MsG0780038682.01.T01:intron 60.0%
CTGTTGGGCCGGTCCTGCCA+GGG - Chr7:51171082-51171101 None:intergenic 70.0%
TCTGTTGGGCCGGTCCTGCC+AGG - Chr7:51171083-51171102 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr7 gene 51170195 51171453 51170195 ID=MsG0780038682.01;Name=MsG0780038682.01
Chr7 mRNA 51170195 51171453 51170195 ID=MsG0780038682.01.T01;Parent=MsG0780038682.01;Name=MsG0780038682.01.T01;_AED=0.12;_eAED=0.12;_QI=0|0|0|0.66|0.5|0.33|3|0|96
Chr7 exon 51170195 51170219 51170195 ID=MsG0780038682.01.T01:exon:9250;Parent=MsG0780038682.01.T01
Chr7 exon 51171088 51171308 51171088 ID=MsG0780038682.01.T01:exon:9251;Parent=MsG0780038682.01.T01
Chr7 exon 51171409 51171453 51171409 ID=MsG0780038682.01.T01:exon:9252;Parent=MsG0780038682.01.T01
Chr7 CDS 51170195 51170219 51170195 ID=MsG0780038682.01.T01:cds;Parent=MsG0780038682.01.T01
Chr7 CDS 51171088 51171308 51171088 ID=MsG0780038682.01.T01:cds;Parent=MsG0780038682.01.T01
Chr7 CDS 51171409 51171453 51171409 ID=MsG0780038682.01.T01:cds;Parent=MsG0780038682.01.T01
Gene Sequence

>MsG0780038682.01.T01

ATGGGAGAAATGAAAGAAATTTTTGGACCGGCCCAACAGATTAAGAGGCCTAACGCAAAATACAAGGGATCAATACCAATATGTTTTGGTGAAACTGAGGAACCAGCAGCATATGGTGAATTTGTGGCTATTGGTATTCTAAATCCAGATTTGAGCAAGACACTAAGTGCTGAAATTGCCTTAGTTCTTCACACCATGTTGTCGGTGCCTAAGTCACGTTTCTACTTAAAATTCTATGACATTGAGGGCTATAATTGTGGACTGAATGGGGGTCTCATGGTGGTTGATTAA
Protein sequence

>MsG0780038682.01.T01

MGEMKEIFGPAQQIKRPNAKYKGSIPICFGETEEPAAYGEFVAIGILNPDLSKTLSAEIALVLHTMLSVPKSRFYLKFYDIEGYNCGLNGGLMVVD*