AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011376.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011376.01.T01 MTR_2g103380 99.048 105 1 0 1 105 1 105 5.03e-74 215
MsG0280011376.01.T01 MTR_4g011060 61.905 105 28 2 1 105 1 93 1.34e-37 123
MsG0280011376.01.T01 MTR_4g114050 46.226 106 33 4 1 105 1 83 5.05e-23 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011376.01.T01 AT1G15400 50.000 122 43 6 1 105 1 121 3.22e-29 102
MsG0280011376.01.T01 AT1G15400 50.000 122 43 6 1 105 1 121 3.66e-29 102
MsG0280011376.01.T01 AT1G15400 50.000 122 43 6 1 105 1 121 5.17e-29 102
MsG0280011376.01.T01 AT1G80180 51.261 119 44 5 1 105 1 119 1.40e-28 100
MsG0280011376.01.T01 AT5G20100 48.571 105 38 5 3 103 2 94 1.79e-18 74.3

Find 25 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGTTCATCAGGGTTTGTT+TGG 0.296640 2:+83259936 MsG0280011376.01.T01:CDS
TTCAGAAGACAAGGTTCATC+AGG 0.369694 2:+83259926 MsG0280011376.01.T01:CDS
GTTCTTGTTGATTCTGACTC+TGG 0.396706 2:-83259997 None:intergenic
AGGTTCATCAGGGTTTGTTT+GGG 0.404671 2:+83259937 MsG0280011376.01.T01:CDS
CTCCTAGGATTTCTGCCTGT+GGG 0.417892 2:+83260167 MsG0280011376.01.T01:CDS
CTTCTCTGAACAGTATTGAT+TGG 0.435131 2:-83260079 None:intergenic
CGTTCTAACGGTGGAGGACG+TGG 0.452280 2:+83260103 MsG0280011376.01.T01:CDS
CGATTGAGCCACCGTCTCCT+AGG 0.529012 2:+83260152 MsG0280011376.01.T01:CDS
AACCCACAGGCAGAAATCCT+AGG 0.546823 2:-83260169 None:intergenic
GGAGACGGTGGCTCAATCGC+CGG 0.558530 2:-83260148 None:intergenic
CCGTACCGGAAAAGTTTCTC+CGG 0.558933 2:+83260129 MsG0280011376.01.T01:CDS
GATGCAACATCACCACAGCT+TGG 0.569916 2:+83260055 MsG0280011376.01.T01:CDS
GGAGGACGTGGTTACCGTAC+CGG 0.573123 2:+83260115 MsG0280011376.01.T01:CDS
TCTCCTAGGATTTCTGCCTG+TGG 0.574828 2:+83260166 MsG0280011376.01.T01:CDS
TCAGAAGACAAGGTTCATCA+GGG 0.600967 2:+83259927 MsG0280011376.01.T01:CDS
AGAAGTCGTTCTAACGGTGG+AGG 0.607642 2:+83260097 MsG0280011376.01.T01:CDS
ACAGAGAAACCAGACATGGA+AGG 0.634834 2:+83259881 None:intergenic
GTTCAGAGAAGTCGTTCTAA+CGG 0.637358 2:+83260091 MsG0280011376.01.T01:CDS
CAGGCAGAAATCCTAGGAGA+CGG 0.637647 2:-83260163 None:intergenic
GCAGTATCATTCAGAAGACA+AGG 0.648817 2:+83259917 MsG0280011376.01.T01:CDS
AAAAGCACCACAAAACCCAC+AGG 0.653506 2:-83260182 None:intergenic
CAGAGAAGTCGTTCTAACGG+TGG 0.679356 2:+83260094 MsG0280011376.01.T01:CDS
GCAGAAATCCTAGGAGACGG+TGG 0.696269 2:-83260160 None:intergenic
GCTGTGGTGATGTTGCATCA+CGG 0.699454 2:-83260051 None:intergenic
GTATTGATTGGTCCAAGCTG+TGG 0.700900 2:-83260067 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTCTCTGAACAGTATTGAT+TGG - Chr2:83260082-83260101 None:intergenic 35.0%
GCAGTATCATTCAGAAGACA+AGG + Chr2:83259917-83259936 MsG0280011376.01.T01:CDS 40.0%
GTTCAGAGAAGTCGTTCTAA+CGG + Chr2:83260091-83260110 MsG0280011376.01.T01:CDS 40.0%
TCAGAAGACAAGGTTCATCA+GGG + Chr2:83259927-83259946 MsG0280011376.01.T01:CDS 40.0%
TTCAGAAGACAAGGTTCATC+AGG + Chr2:83259926-83259945 MsG0280011376.01.T01:CDS 40.0%
! AAGGTTCATCAGGGTTTGTT+TGG + Chr2:83259936-83259955 MsG0280011376.01.T01:CDS 40.0%
! AGGTTCATCAGGGTTTGTTT+GGG + Chr2:83259937-83259956 MsG0280011376.01.T01:CDS 40.0%
!! GTTCTTGTTGATTCTGACTC+TGG - Chr2:83260000-83260019 None:intergenic 40.0%
! AATCGCCGGAGAAACTTTTC+CGG - Chr2:83260137-83260156 None:intergenic 45.0%
! ATTTCTGCCTGTGGGTTTTG+TGG + Chr2:83260175-83260194 MsG0280011376.01.T01:CDS 45.0%
!! AAAAGCACCACAAAACCCAC+AGG - Chr2:83260185-83260204 None:intergenic 45.0%
!! GTATTGATTGGTCCAAGCTG+TGG - Chr2:83260070-83260089 None:intergenic 45.0%
!! TGTGGGTTTTGTGGTGCTTT+TGG + Chr2:83260184-83260203 MsG0280011376.01.T01:CDS 45.0%
AACCCACAGGCAGAAATCCT+AGG - Chr2:83260172-83260191 None:intergenic 50.0%
AGAAGTCGTTCTAACGGTGG+AGG + Chr2:83260097-83260116 MsG0280011376.01.T01:CDS 50.0%
CAGAGAAGTCGTTCTAACGG+TGG + Chr2:83260094-83260113 MsG0280011376.01.T01:CDS 50.0%
CAGGCAGAAATCCTAGGAGA+CGG - Chr2:83260166-83260185 None:intergenic 50.0%
CCGTACCGGAAAAGTTTCTC+CGG + Chr2:83260129-83260148 MsG0280011376.01.T01:CDS 50.0%
CTCCTAGGATTTCTGCCTGT+GGG + Chr2:83260167-83260186 MsG0280011376.01.T01:CDS 50.0%
GATGCAACATCACCACAGCT+TGG + Chr2:83260055-83260074 MsG0280011376.01.T01:CDS 50.0%
TCTCCTAGGATTTCTGCCTG+TGG + Chr2:83260166-83260185 MsG0280011376.01.T01:CDS 50.0%
! CCGGAGAAACTTTTCCGGTA+CGG - Chr2:83260132-83260151 None:intergenic 50.0%
! GCTGTGGTGATGTTGCATCA+CGG - Chr2:83260054-83260073 None:intergenic 50.0%
GCAGAAATCCTAGGAGACGG+TGG - Chr2:83260163-83260182 None:intergenic 55.0%
CGATTGAGCCACCGTCTCCT+AGG + Chr2:83260152-83260171 MsG0280011376.01.T01:CDS 60.0%
CGTTCTAACGGTGGAGGACG+TGG + Chr2:83260103-83260122 MsG0280011376.01.T01:CDS 60.0%
GGAGGACGTGGTTACCGTAC+CGG + Chr2:83260115-83260134 MsG0280011376.01.T01:CDS 60.0%
GGAGACGGTGGCTCAATCGC+CGG - Chr2:83260151-83260170 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 83259896 83260213 83259896 ID=MsG0280011376.01;Name=MsG0280011376.01
Chr2 mRNA 83259896 83260213 83259896 ID=MsG0280011376.01.T01;Parent=MsG0280011376.01;Name=MsG0280011376.01.T01;_AED=0.30;_eAED=0.30;_QI=0|-1|0|1|-1|1|1|0|105
Chr2 exon 83259896 83260213 83259896 ID=MsG0280011376.01.T01:exon:12416;Parent=MsG0280011376.01.T01
Chr2 CDS 83259896 83260213 83259896 ID=MsG0280011376.01.T01:cds;Parent=MsG0280011376.01.T01
Gene Sequence

>MsG0280011376.01.T01

ATGGAAGGTTTACAAAGATCTGCAGTATCATTCAGAAGACAAGGTTCATCAGGGTTTGTTTGGGATGATAGATTTCTACAAGAAGAAATAAACAAGATGAACCAGAGTCAGAATCAACAAGAACAAGAAGACAAAGATGAAATCAAAGAGATGAACCGTGATGCAACATCACCACAGCTTGGACCAATCAATACTGTTCAGAGAAGTCGTTCTAACGGTGGAGGACGTGGTTACCGTACCGGAAAAGTTTCTCCGGCGATTGAGCCACCGTCTCCTAGGATTTCTGCCTGTGGGTTTTGTGGTGCTTTTGGAAAGTAG

Protein sequence

>MsG0280011376.01.T01

MEGLQRSAVSFRRQGSSGFVWDDRFLQEEINKMNQSQNQQEQEDKDEIKEMNRDATSPQLGPINTVQRSRSNGGGRGYRTGKVSPAIEPPSPRISACGFCGAFGK*