AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000144.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000144.01.T01 MTR_1g022355 81.643 207 8 1 1 177 160 366 1.64e-114 330
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000144.01.T01 AT1G19520 46.486 185 70 5 13 171 189 370 1.51e-39 138
MsG0180000144.01.T01 AT1G19520 46.237 186 71 5 13 172 189 371 1.78e-38 139

Find 45 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAGGCGGGAGAAGTTATT+TGG 0.238365 1:-1990597 MsG0180000144.01.T01:CDS
TTAGAGAGCTTAGGTTTAAA+TGG 0.238681 1:-1990872 MsG0180000144.01.T01:CDS
TGTTTGCATTTCCCGGTTAT+CGG 0.314823 1:+1990559 None:intergenic
GGTAACTTGTTTGCATTTCC+CGG 0.333463 1:+1990552 None:intergenic
GAATTATCCTTTATACTTCA+AGG 0.334354 1:-1990401 MsG0180000144.01.T01:CDS
AAGGAGGCGAAGCCGATAAC+CGG 0.340946 1:-1990571 MsG0180000144.01.T01:CDS
TAGAGCTTCTACAGCCTACT+AGG 0.360591 1:-1990462 MsG0180000144.01.T01:CDS
TAAATGGGCACGTGAGAAAA+TGG 0.380143 1:-1990856 MsG0180000144.01.T01:CDS
ACAGTTACCTTGAAGTATAA+AGG 0.399658 1:+1990394 None:intergenic
TGTAGATTTGCTGGTGAAGT+TGG 0.408581 1:-1990912 MsG0180000144.01.T01:CDS
GATGCTGGTGTTCGTGTTGA+TGG 0.410669 1:-1990735 MsG0180000144.01.T01:CDS
CGAGAAAATTCTGTCGTTGA+AGG 0.433246 1:-1990530 MsG0180000144.01.T01:CDS
AAAGAGATGTGTAGATTTGC+TGG 0.447104 1:-1990921 MsG0180000144.01.T01:CDS
GTTGACCCTGGTAGCTGAAT+GGG 0.449689 1:-1990485 MsG0180000144.01.T01:CDS
ATGAGGATTTGGAGAAAATG+AGG 0.450985 1:-1990818 MsG0180000144.01.T01:CDS
TAGAGAGCTTAGGTTTAAAT+GGG 0.451572 1:-1990871 MsG0180000144.01.T01:CDS
TTGATCCAATCCACCCTAGT+AGG 0.474961 1:+1990448 None:intergenic
GCTCTACCCATTCAGCTACC+AGG 0.475118 1:+1990479 None:intergenic
GCTGGTGAAGTTGGGATTCG+AGG 0.483854 1:-1990903 MsG0180000144.01.T01:CDS
AGGAAGAAGGAGAAAATGAA+AGG 0.488535 1:-1990966 MsG0180000144.01.T01:CDS
ATTGGATCAATTTGCTTGAA+AGG 0.495330 1:-1990435 MsG0180000144.01.T01:CDS
TACAGCCTACTAGGGTGGAT+TGG 0.497105 1:-1990453 MsG0180000144.01.T01:CDS
GTTATCGGCTTCGCCTCCTT+CGG 0.498408 1:+1990574 None:intergenic
GTAGATTTGCTGGTGAAGTT+GGG 0.499570 1:-1990911 MsG0180000144.01.T01:CDS
GCGATTTGCTTAGAGAGCTT+AGG 0.500284 1:-1990881 MsG0180000144.01.T01:CDS
TGTTGACCCTGGTAGCTGAA+TGG 0.506521 1:-1990486 MsG0180000144.01.T01:CDS
GGAAGAAGGAGAAAATGAAA+GGG 0.516139 1:-1990965 MsG0180000144.01.T01:CDS
TATGAATAAAGAGAGGAAGA+AGG 0.517752 1:-1990979 MsG0180000144.01.T01:CDS
GAAAATGTCGTTGTTGATGC+TGG 0.527609 1:-1990750 MsG0180000144.01.T01:CDS
AATTCTGTCGTTGAAGGAGA+AGG 0.546483 1:-1990524 MsG0180000144.01.T01:CDS
TGGTAATGTTGAGGAGAAGA+AGG 0.561258 1:-1990715 MsG0180000144.01.T01:CDS
AGGAGGCGAAGCCGATAACC+GGG 0.567405 1:-1990570 MsG0180000144.01.T01:CDS
AGAAGTTATTTGGCCGAAGG+AGG 0.576981 1:-1990587 MsG0180000144.01.T01:CDS
GGCTGATAAGATTCATGAGG+CGG 0.580784 1:-1990611 MsG0180000144.01.T01:intron
GGGAGAAGTTATTTGGCCGA+AGG 0.586632 1:-1990590 MsG0180000144.01.T01:CDS
GCTGATAAGATTCATGAGGC+GGG 0.589093 1:-1990610 MsG0180000144.01.T01:intron
CTGTCGTTGAAGGAGAAGGA+TGG 0.608593 1:-1990520 MsG0180000144.01.T01:CDS
CTCTACCCATTCAGCTACCA+GGG 0.620249 1:+1990480 None:intergenic
GCTTCTACAGCCTACTAGGG+TGG 0.622270 1:-1990458 MsG0180000144.01.T01:CDS
TCGTGTTGATGGTAATGTTG+AGG 0.627189 1:-1990724 MsG0180000144.01.T01:CDS
AGAGCTTCTACAGCCTACTA+GGG 0.634855 1:-1990461 MsG0180000144.01.T01:CDS
TGGTTGATATGAATAAAGAG+AGG 0.637788 1:-1990986 None:intergenic
AGATGATAGTTTGTTGACCC+TGG 0.658807 1:-1990497 MsG0180000144.01.T01:CDS
AGTGGCTGATAAGATTCATG+AGG 0.693084 1:-1990614 MsG0180000144.01.T01:intron
ATGGGCACGTGAGAAAATGG+AGG 0.695770 1:-1990853 MsG0180000144.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTAAGTTCAAGATTTAT+GGG - Chr1:1990690-1990709 MsG0180000144.01.T01:intron 15.0%
!! GAAATTAAGTTCAAGATTTA+TGG - Chr1:1990689-1990708 MsG0180000144.01.T01:intron 20.0%
! GAATTATCCTTTATACTTCA+AGG - Chr1:1990955-1990974 MsG0180000144.01.T01:CDS 25.0%
ACAGTTACCTTGAAGTATAA+AGG + Chr1:1990965-1990984 None:intergenic 30.0%
TAGAGAGCTTAGGTTTAAAT+GGG - Chr1:1990485-1990504 MsG0180000144.01.T01:CDS 30.0%
TTAGAGAGCTTAGGTTTAAA+TGG - Chr1:1990484-1990503 MsG0180000144.01.T01:CDS 30.0%
! ATCAACAACGACATTTTCTT+CGG + Chr1:1990604-1990623 None:intergenic 30.0%
! ATTGGATCAATTTGCTTGAA+AGG - Chr1:1990921-1990940 MsG0180000144.01.T01:CDS 30.0%
!! ACATGAGTTTTATGAGGATT+TGG - Chr1:1990527-1990546 MsG0180000144.01.T01:CDS 30.0%
AAAGAGATGTGTAGATTTGC+TGG - Chr1:1990435-1990454 MsG0180000144.01.T01:CDS 35.0%
AGGAAGAAGGAGAAAATGAA+AGG - Chr1:1990390-1990409 MsG0180000144.01.T01:CDS 35.0%
ATGAGGATTTGGAGAAAATG+AGG - Chr1:1990538-1990557 MsG0180000144.01.T01:CDS 35.0%
CTTAATTTCCCTTTCCTCTT+AGG + Chr1:1990678-1990697 None:intergenic 35.0%
GATTTATGGGCTTGATCTAT+CGG - Chr1:1990703-1990722 MsG0180000144.01.T01:intron 35.0%
GGAAGAAGGAGAAAATGAAA+GGG - Chr1:1990391-1990410 MsG0180000144.01.T01:CDS 35.0%
TGATCTATCGGATCCTAAAT+GGG - Chr1:1990715-1990734 MsG0180000144.01.T01:CDS 35.0%
TTGATCTATCGGATCCTAAA+TGG - Chr1:1990714-1990733 MsG0180000144.01.T01:CDS 35.0%
! CTTCAACGACAGAATTTTCT+CGG + Chr1:1990828-1990847 None:intergenic 35.0%
AATTCTGTCGTTGAAGGAGA+AGG - Chr1:1990832-1990851 MsG0180000144.01.T01:CDS 40.0%
AGTGGCTGATAAGATTCATG+AGG - Chr1:1990742-1990761 MsG0180000144.01.T01:CDS 40.0%
CGAGAAAATTCTGTCGTTGA+AGG - Chr1:1990826-1990845 MsG0180000144.01.T01:CDS 40.0%
GAAAATGTCGTTGTTGATGC+TGG - Chr1:1990606-1990625 MsG0180000144.01.T01:intron 40.0%
TAAATGGGCACGTGAGAAAA+TGG - Chr1:1990500-1990519 MsG0180000144.01.T01:CDS 40.0%
TGTTTGCATTTCCCGGTTAT+CGG + Chr1:1990800-1990819 None:intergenic 40.0%
! TGGTAATGTTGAGGAGAAGA+AGG - Chr1:1990641-1990660 MsG0180000144.01.T01:intron 40.0%
! TTGGTCTTCCTAAGAGGAAA+GGG - Chr1:1990667-1990686 MsG0180000144.01.T01:intron 40.0%
!! AGATGATAGTTTGTTGACCC+TGG - Chr1:1990859-1990878 MsG0180000144.01.T01:CDS 40.0%
!! GGAGGAACATGAGTTTTATG+AGG - Chr1:1990521-1990540 MsG0180000144.01.T01:CDS 40.0%
!! GGTAACTTGTTTGCATTTCC+CGG + Chr1:1990807-1990826 None:intergenic 40.0%
!! GTAGATTTGCTGGTGAAGTT+GGG - Chr1:1990445-1990464 MsG0180000144.01.T01:CDS 40.0%
!! TCGTGTTGATGGTAATGTTG+AGG - Chr1:1990632-1990651 MsG0180000144.01.T01:intron 40.0%
!! TGTAGATTTGCTGGTGAAGT+TGG - Chr1:1990444-1990463 MsG0180000144.01.T01:CDS 40.0%
AGAAGTTATTTGGCCGAAGG+AGG - Chr1:1990769-1990788 MsG0180000144.01.T01:CDS 45.0%
AGAGCTTCTACAGCCTACTA+GGG - Chr1:1990895-1990914 MsG0180000144.01.T01:CDS 45.0%
ATGAGGCGGGAGAAGTTATT+TGG - Chr1:1990759-1990778 MsG0180000144.01.T01:CDS 45.0%
GCTGATAAGATTCATGAGGC+GGG - Chr1:1990746-1990765 MsG0180000144.01.T01:CDS 45.0%
GGATCCTAAATGGGAACAAG+TGG - Chr1:1990724-1990743 MsG0180000144.01.T01:CDS 45.0%
GGCTGATAAGATTCATGAGG+CGG - Chr1:1990745-1990764 MsG0180000144.01.T01:CDS 45.0%
GTTGAGGAGAAGAAGGATGT+TGG - Chr1:1990648-1990667 MsG0180000144.01.T01:intron 45.0%
TAGAGCTTCTACAGCCTACT+AGG - Chr1:1990894-1990913 MsG0180000144.01.T01:CDS 45.0%
TCAGCCACTTGTTCCCATTT+AGG + Chr1:1990731-1990750 None:intergenic 45.0%
TTGATCCAATCCACCCTAGT+AGG + Chr1:1990911-1990930 None:intergenic 45.0%
! GCGATTTGCTTAGAGAGCTT+AGG - Chr1:1990475-1990494 MsG0180000144.01.T01:CDS 45.0%
!! AGGATGTTGGTCTTCCTAAG+AGG - Chr1:1990661-1990680 MsG0180000144.01.T01:intron 45.0%
!! GTTGGTCTTCCTAAGAGGAA+AGG - Chr1:1990666-1990685 MsG0180000144.01.T01:intron 45.0%
ATGGGCACGTGAGAAAATGG+AGG - Chr1:1990503-1990522 MsG0180000144.01.T01:CDS 50.0%
CTCTACCCATTCAGCTACCA+GGG + Chr1:1990879-1990898 None:intergenic 50.0%
CTGTCGTTGAAGGAGAAGGA+TGG - Chr1:1990836-1990855 MsG0180000144.01.T01:CDS 50.0%
GATGCTGGTGTTCGTGTTGA+TGG - Chr1:1990621-1990640 MsG0180000144.01.T01:intron 50.0%
GGGAGAAGTTATTTGGCCGA+AGG - Chr1:1990766-1990785 MsG0180000144.01.T01:CDS 50.0%
GTTGACCCTGGTAGCTGAAT+GGG - Chr1:1990871-1990890 MsG0180000144.01.T01:CDS 50.0%
TACAGCCTACTAGGGTGGAT+TGG - Chr1:1990903-1990922 MsG0180000144.01.T01:CDS 50.0%
TGTTGACCCTGGTAGCTGAA+TGG - Chr1:1990870-1990889 MsG0180000144.01.T01:CDS 50.0%
AAGGAGGCGAAGCCGATAAC+CGG - Chr1:1990785-1990804 MsG0180000144.01.T01:CDS 55.0%
GCTCTACCCATTCAGCTACC+AGG + Chr1:1990880-1990899 None:intergenic 55.0%
GCTGGTGAAGTTGGGATTCG+AGG - Chr1:1990453-1990472 MsG0180000144.01.T01:CDS 55.0%
GCTTCTACAGCCTACTAGGG+TGG - Chr1:1990898-1990917 MsG0180000144.01.T01:CDS 55.0%
!! GTTATCGGCTTCGCCTCCTT+CGG + Chr1:1990785-1990804 None:intergenic 55.0%
AGGAGGCGAAGCCGATAACC+GGG - Chr1:1990786-1990805 MsG0180000144.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 1990378 1991000 1990378 ID=MsG0180000144.01;Name=MsG0180000144.01
Chr1 mRNA 1990378 1991000 1990378 ID=MsG0180000144.01.T01;Parent=MsG0180000144.01;Name=MsG0180000144.01.T01;_AED=0.48;_eAED=0.49;_QI=0|0|0|1|1|1|2|0|177
Chr1 exon 1990713 1991000 1990713 ID=MsG0180000144.01.T01:exon:6883;Parent=MsG0180000144.01.T01
Chr1 exon 1990378 1990623 1990378 ID=MsG0180000144.01.T01:exon:6884;Parent=MsG0180000144.01.T01
Chr1 CDS 1990713 1991000 1990713 ID=MsG0180000144.01.T01:cds;Parent=MsG0180000144.01.T01
Chr1 CDS 1990378 1990623 1990378 ID=MsG0180000144.01.T01:cds;Parent=MsG0180000144.01.T01
Gene Sequence

>MsG0180000144.01.T01

ATGAATAAAGAGAGGAAGAAGGAGAAAATGAAAGGGTTTTTGCAGTGTGATGAAGTGAAAGAGATGTGTAGATTTGCTGGTGAAGTTGGGATTCGAGGCGATTTGCTTAGAGAGCTTAGGTTTAAATGGGCACGTGAGAAAATGGAGGAACATGAGTTTTATGAGGATTTGGAGAAAATGAGGAAAGAGACTCAGATTGTTGATGAAGAAATAAAAAATGAAACCGAAGAAAATGTCGTTGTTGATGCTGGTGTTCGTGTTGATGGTAATGTTGAGGAGAAGAAGGATATTCATGAGGCGGGAGAAGTTATTTGGCCGAAGGAGGCGAAGCCGATAACCGGGAAATGCAAACAAGTTACCGAGAAAATTCTGTCGTTGAAGGAGAAGGATGGAGATGATAGTTTGTTGACCCTGGTAGCTGAATGGGTAGAGCTTCTACAGCCTACTAGGGTGGATTGGATCAATTTGCTTGAAAGGTTGAAAAATCAGAATTATCCTTTATACTTCAAGGTAACTGTTGCATTGCCTTTTTAG

Protein sequence

>MsG0180000144.01.T01

MNKERKKEKMKGFLQCDEVKEMCRFAGEVGIRGDLLRELRFKWAREKMEEHEFYEDLEKMRKETQIVDEEIKNETEENVVVDAGVRVDGNVEEKKDIHEAGEVIWPKEAKPITGKCKQVTEKILSLKEKDGDDSLLTLVAEWVELLQPTRVDWINLLERLKNQNYPLYFKVTVALPF*