AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007026.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007026.01.T01 MTR_3g035680 63.462 156 23 4 1 122 22 177 4.81e-55 170
MsG0280007026.01.T01 MTR_4g051270 67.626 139 26 2 1 122 320 456 2.35e-54 176
MsG0280007026.01.T01 MTR_6g055010 63.462 156 23 4 1 122 320 475 1.89e-52 171
MsG0280007026.01.T01 MTR_7g117930 63.462 156 23 4 1 122 320 475 2.44e-52 171
MsG0280007026.01.T01 MTR_7g021770 62.821 156 24 4 1 122 320 475 1.77e-51 169
MsG0280007026.01.T01 MTR_2176s0010 58.442 154 30 4 1 120 71 224 4.46e-48 154
MsG0280007026.01.T01 MTR_0002s0660 58.974 156 30 4 1 122 320 475 5.69e-46 154
MsG0280007026.01.T01 MTR_5g087240 68.750 96 17 2 31 122 589 675 8.42e-35 126
MsG0280007026.01.T01 MTR_7g084780 84.848 33 5 0 76 108 37 69 2.55e-13 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007026.01.T01 ATCG00490 57.692 156 32 4 1 122 320 475 1.72e-45 153

Find 36 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTCGGTGGAGGAACTTT+AGG 0.272632 2:-9575020 MsG0280007026.01.T01:CDS
GCCTGCTCTGACCGAGATAT+TGG 0.319583 2:-9575059 MsG0280007026.01.T01:CDS
CTTCGGGTGGTATTCATGTT+TGG 0.344232 2:-9575087 MsG0280007026.01.T01:CDS
TGGTGTTCTGCATGTTGCTT+CGG 0.372531 2:-9575104 MsG0280007026.01.T01:CDS
TCACAAGCAGCAGCTAATTC+AGG 0.373684 2:+9574864 None:intergenic
GGTGTTCTGCATGTTGCTTC+GGG 0.390829 2:-9575103 MsG0280007026.01.T01:CDS
TAGCTGCTGCTTGTGAAGTC+TGG 0.391463 2:-9574857 MsG0280007026.01.T01:CDS
AATCAAATAGTATCCATTGC+TGG 0.397304 2:+9574813 None:intergenic
AGCTAATTCAGGACTCCATT+TGG 0.412198 2:+9574875 None:intergenic
GATGATTATGTACTTCAATT+CGG 0.448897 2:-9575035 MsG0280007026.01.T01:CDS
GACTCCATTTGGTAGCTTCA+CGG 0.453939 2:+9574886 None:intergenic
TCCAATATCTCGGTCAGAGC+AGG 0.468025 2:+9575058 None:intergenic
ATTCACACTGGTACTGTAGT+AGG 0.470499 2:-9575244 MsG0280007026.01.T01:intron
ATCAAATAGTATCCATTGCT+GGG 0.485651 2:+9574814 None:intergenic
CAAATTTGAATTCCCAGCAA+TGG 0.508854 2:-9574826 MsG0280007026.01.T01:CDS
GAGGAACTTTAGGACACCCT+TGG 0.522827 2:-9575010 MsG0280007026.01.T01:CDS
GCTAAAGCGTTACGTATGTC+AGG 0.524662 2:-9575277 None:intergenic
CAGGATTGGGTTTCTTTACG+TGG 0.526065 2:-9575124 MsG0280007026.01.T01:CDS
ACTCGATTCGCTACGGCACC+AGG 0.531789 2:+9574978 None:intergenic
TTATCCGTGAAGCTACCAAA+TGG 0.532937 2:-9574890 MsG0280007026.01.T01:CDS
CATAATCATCTCCAATATCT+CGG 0.535584 2:+9575048 None:intergenic
CGTAGCGAATCGAGTAGCTC+TGG 0.549072 2:-9574970 MsG0280007026.01.T01:CDS
TATGTACTTCAATTCGGTGG+AGG 0.567570 2:-9575029 MsG0280007026.01.T01:CDS
ATGTGTACAAGCTCGTAATG+AGG 0.577805 2:-9574943 MsG0280007026.01.T01:CDS
GCACCAGGTGCATTTCTCCA+AGG 0.587238 2:+9574993 None:intergenic
CACCAGGTGCATTTCTCCAA+GGG 0.593021 2:+9574994 None:intergenic
CACCCTTGGAGAAATGCACC+TGG 0.595722 2:-9574996 MsG0280007026.01.T01:CDS
CAGAGCTACTCGATTCGCTA+CGG 0.608720 2:+9574971 None:intergenic
GGGACGTGATCTTGCTCGTG+AGG 0.610459 2:-9574922 MsG0280007026.01.T01:CDS
TGCTGCTTGTGAAGTCTGGA+AGG 0.612336 2:-9574853 MsG0280007026.01.T01:CDS
TGTGTACAAGCTCGTAATGA+GGG 0.617102 2:-9574942 MsG0280007026.01.T01:CDS
GATTATGTACTTCAATTCGG+TGG 0.618001 2:-9575032 MsG0280007026.01.T01:CDS
GGACGTGATCTTGCTCGTGA+GGG 0.620456 2:-9574921 MsG0280007026.01.T01:CDS
GTTCTGCATGTTGCTTCGGG+TGG 0.620797 2:-9575100 MsG0280007026.01.T01:CDS
AAAGCGTTACGTATGTCAGG+TGG 0.676637 2:-9575274 None:intergenic
GGTGGAGATCATATTCACAC+TGG 0.681176 2:-9575256 MsG0280007026.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GATGATTATGTACTTCAATT+CGG - Chr2:9575042-9575061 MsG0280007026.01.T01:CDS 25.0%
!!! ATATTTTTTTCACTCAGGAT+TGG - Chr2:9574939-9574958 MsG0280007026.01.T01:CDS 25.0%
!!! TATTTTTTTCACTCAGGATT+GGG - Chr2:9574940-9574959 MsG0280007026.01.T01:CDS 25.0%
CATAATCATCTCCAATATCT+CGG + Chr2:9575032-9575051 None:intergenic 30.0%
!!! TCACGATATTTTTTTCACTC+AGG - Chr2:9574934-9574953 MsG0280007026.01.T01:CDS 30.0%
ACTGTAGTAGGTAAACTAGA+AGG - Chr2:9574845-9574864 MsG0280007026.01.T01:CDS 35.0%
AGGTAAACTAGAAGGAGAAA+GGG - Chr2:9574853-9574872 MsG0280007026.01.T01:CDS 35.0%
CAAATTTGAATTCCCAGCAA+TGG - Chr2:9575251-9575270 MsG0280007026.01.T01:CDS 35.0%
GATTATGTACTTCAATTCGG+TGG - Chr2:9575045-9575064 MsG0280007026.01.T01:CDS 35.0%
GGAGAAAGGGATATTACTTT+AGG - Chr2:9574866-9574885 MsG0280007026.01.T01:CDS 35.0%
TAGGTAAACTAGAAGGAGAA+AGG - Chr2:9574852-9574871 MsG0280007026.01.T01:CDS 35.0%
AGCTAATTCAGGACTCCATT+TGG + Chr2:9575205-9575224 None:intergenic 40.0%
ATGTGTACAAGCTCGTAATG+AGG - Chr2:9575134-9575153 MsG0280007026.01.T01:intron 40.0%
ATTCACACTGGTACTGTAGT+AGG - Chr2:9574833-9574852 MsG0280007026.01.T01:CDS 40.0%
TGTGTACAAGCTCGTAATGA+GGG - Chr2:9575135-9575154 MsG0280007026.01.T01:intron 40.0%
TTATCCGTGAAGCTACCAAA+TGG - Chr2:9575187-9575206 MsG0280007026.01.T01:intron 40.0%
! TATGTACTTCAATTCGGTGG+AGG - Chr2:9575048-9575067 MsG0280007026.01.T01:CDS 40.0%
CAGGATTGGGTTTCTTTACG+TGG - Chr2:9574953-9574972 MsG0280007026.01.T01:CDS 45.0%
CTTCGGGTGGTATTCATGTT+TGG - Chr2:9574990-9575009 MsG0280007026.01.T01:CDS 45.0%
GGTGGAGATCATATTCACAC+TGG - Chr2:9574821-9574840 MsG0280007026.01.T01:CDS 45.0%
TCACAAGCAGCAGCTAATTC+AGG + Chr2:9575216-9575235 None:intergenic 45.0%
! CAATTCGGTGGAGGAACTTT+AGG - Chr2:9575057-9575076 MsG0280007026.01.T01:CDS 45.0%
! GACTCCATTTGGTAGCTTCA+CGG + Chr2:9575194-9575213 None:intergenic 45.0%
! TGGTGTTCTGCATGTTGCTT+CGG - Chr2:9574973-9574992 MsG0280007026.01.T01:CDS 45.0%
CACCAGGTGCATTTCTCCAA+GGG + Chr2:9575086-9575105 None:intergenic 50.0%
TCCAATATCTCGGTCAGAGC+AGG + Chr2:9575022-9575041 None:intergenic 50.0%
! CAGAGCTACTCGATTCGCTA+CGG + Chr2:9575109-9575128 None:intergenic 50.0%
! GGTGTTCTGCATGTTGCTTC+GGG - Chr2:9574974-9574993 MsG0280007026.01.T01:CDS 50.0%
! TAGCTGCTGCTTGTGAAGTC+TGG - Chr2:9575220-9575239 MsG0280007026.01.T01:intron 50.0%
! TGCTGCTTGTGAAGTCTGGA+AGG - Chr2:9575224-9575243 MsG0280007026.01.T01:intron 50.0%
!! GAGGAACTTTAGGACACCCT+TGG - Chr2:9575067-9575086 MsG0280007026.01.T01:CDS 50.0%
CACCCTTGGAGAAATGCACC+TGG - Chr2:9575081-9575100 MsG0280007026.01.T01:CDS 55.0%
CGTAGCGAATCGAGTAGCTC+TGG - Chr2:9575107-9575126 MsG0280007026.01.T01:CDS 55.0%
GCACCAGGTGCATTTCTCCA+AGG + Chr2:9575087-9575106 None:intergenic 55.0%
GCCTGCTCTGACCGAGATAT+TGG - Chr2:9575018-9575037 MsG0280007026.01.T01:CDS 55.0%
GGACGTGATCTTGCTCGTGA+GGG - Chr2:9575156-9575175 MsG0280007026.01.T01:intron 55.0%
! GTTCTGCATGTTGCTTCGGG+TGG - Chr2:9574977-9574996 MsG0280007026.01.T01:CDS 55.0%
GGGACGTGATCTTGCTCGTG+AGG - Chr2:9575155-9575174 MsG0280007026.01.T01:intron 60.0%
! ACTCGATTCGCTACGGCACC+AGG + Chr2:9575102-9575121 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 9574815 9575284 9574815 ID=MsG0280007026.01;Name=MsG0280007026.01
Chr2 mRNA 9574815 9575284 9574815 ID=MsG0280007026.01.T01;Parent=MsG0280007026.01;Name=MsG0280007026.01.T01;_AED=0.46;_eAED=0.57;_QI=0|0|0|1|1|1|2|0|122
Chr2 exon 9575245 9575284 9575245 ID=MsG0280007026.01.T01:exon:8390;Parent=MsG0280007026.01.T01
Chr2 exon 9574815 9575143 9574815 ID=MsG0280007026.01.T01:exon:8389;Parent=MsG0280007026.01.T01
Chr2 CDS 9575245 9575284 9575245 ID=MsG0280007026.01.T01:cds;Parent=MsG0280007026.01.T01
Chr2 CDS 9574815 9575143 9574815 ID=MsG0280007026.01.T01:cds;Parent=MsG0280007026.01.T01
Gene Sequence

>MsG0280007026.01.T01

ATGTCAGGTGGAGATCATATTCACACTGGTACTGTAGTAGGATTGGGTTTCTTTACGTGGTGTTCTGCATGTTGCTTCGGGTGGTATTCATGTTTGGCATATGCCTGCTCTGACCGAGATATTGGAGATGATTATGTACTTCAATTCGGTGGAGGAACTTTAGGACACCCTTGGAGAAATGCACCTGGTGCCGTAGCGAATCGAGTAGCTCTGGAAACATGTGTACAAGCTCGTAATGAGGGACGTGATCTTGCTCGTGAGGGTAATGAAATTATCCGTGAAGCTACCAAATGGAGTCCTGAATTAGCTGCTGCTTGTGAAGTCTGGAAGGAGATCAAATTTGAATTCCCAGCAATGGATACTATTTGA

Protein sequence

>MsG0280007026.01.T01

MSGGDHIHTGTVVGLGFFTWCSACCFGWYSCLAYACSDRDIGDDYVLQFGGGTLGHPWRNAPGAVANRVALETCVQARNEGRDLAREGNEIIREATKWSPELAAACEVWKEIKFEFPAMDTI*