AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005119.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005119.01.T01 MTR_1g093980 97.059 68 1 1 1 68 1 67 1.02e-35 115
MsG0180005119.01.T01 MTR_3g073005 69.118 68 6 1 1 68 1 53 1.31e-19 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 14 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTTATGTACCTTCCTCTT+AGG 0.298377 1:-87283109 None:intergenic
ACCTTGGAGGCTCTAGCTTT+AGG 0.324474 1:-87283055 None:intergenic
AGGAGTAGTCCCACTAGTTT+TGG 0.346620 1:-87283035 None:intergenic
TCTTTCTTGACTTGCCCTGA+TGG 0.433141 1:-87283004 None:intergenic
TCTGGTAGCTCTCAACCATC+AGG 0.435394 1:+87282989 MsG0180005119.01.T01:CDS
TTTCTTTGGTGCTACCTTGG+AGG 0.439933 1:-87283068 None:intergenic
GAGAAACCAACTGAGAAATC+TGG 0.453123 1:+87282971 MsG0180005119.01.T01:CDS
GAGCTACCAGATTTCTCAGT+TGG 0.466377 1:-87282977 None:intergenic
AGCAGAAATCTCAGCCTAAG+AGG 0.534590 1:+87283095 MsG0180005119.01.T01:CDS
TCCTAAAGCTAGAGCCTCCA+AGG 0.550929 1:+87283054 MsG0180005119.01.T01:CDS
GAAATCTCAGCCTAAGAGGA+AGG 0.560994 1:+87283099 MsG0180005119.01.T01:CDS
GAGCCTGCTGCCAAAACTAG+TGG 0.582011 1:+87283025 MsG0180005119.01.T01:CDS
AGCCTGCTGCCAAAACTAGT+GGG 0.610029 1:+87283026 MsG0180005119.01.T01:CDS
CTGGTAGCTCTCAACCATCA+GGG 0.637266 1:+87282990 MsG0180005119.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCTTTTGATTACTTGTTTC+AGG + Chr1:87283195-87283214 MsG0180005119.01.T01:intron 25.0%
TATTTATGTACCTTCCTCTT+AGG - Chr1:87283112-87283131 None:intergenic 30.0%
! GATTTCTGCTCAGTTTTCTT+TGG - Chr1:87283085-87283104 None:intergenic 35.0%
GAGAAACCAACTGAGAAATC+TGG + Chr1:87282971-87282990 MsG0180005119.01.T01:CDS 40.0%
!!! AGTTTTCTTTGGTGCTACCT+TGG - Chr1:87283074-87283093 None:intergenic 40.0%
AGCAGAAATCTCAGCCTAAG+AGG + Chr1:87283095-87283114 MsG0180005119.01.T01:CDS 45.0%
GAAATCTCAGCCTAAGAGGA+AGG + Chr1:87283099-87283118 MsG0180005119.01.T01:CDS 45.0%
GAGCTACCAGATTTCTCAGT+TGG - Chr1:87282980-87282999 None:intergenic 45.0%
!! AGGAGTAGTCCCACTAGTTT+TGG - Chr1:87283038-87283057 None:intergenic 45.0%
!! TCTTTCTTGACTTGCCCTGA+TGG - Chr1:87283007-87283026 None:intergenic 45.0%
!! TTTCTTTGGTGCTACCTTGG+AGG - Chr1:87283071-87283090 None:intergenic 45.0%
AGCCTGCTGCCAAAACTAGT+GGG + Chr1:87283026-87283045 MsG0180005119.01.T01:CDS 50.0%
CTGGTAGCTCTCAACCATCA+GGG + Chr1:87282990-87283009 MsG0180005119.01.T01:CDS 50.0%
TCCTAAAGCTAGAGCCTCCA+AGG + Chr1:87283054-87283073 MsG0180005119.01.T01:CDS 50.0%
TCTGGTAGCTCTCAACCATC+AGG + Chr1:87282989-87283008 MsG0180005119.01.T01:CDS 50.0%
!! ACCTTGGAGGCTCTAGCTTT+AGG - Chr1:87283058-87283077 None:intergenic 50.0%
GAGCCTGCTGCCAAAACTAG+TGG + Chr1:87283025-87283044 MsG0180005119.01.T01:CDS 55.0%
!!! GTCCCACTAGTTTTGGCAGC+AGG - Chr1:87283031-87283050 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 87282953 87283255 87282953 ID=MsG0180005119.01;Name=MsG0180005119.01
Chr1 mRNA 87282953 87283255 87282953 ID=MsG0180005119.01.T01;Parent=MsG0180005119.01;Name=MsG0180005119.01.T01;_AED=0.50;_eAED=1.00;_QI=0|0|0|1|0|0|2|0|68
Chr1 exon 87282953 87283120 87282953 ID=MsG0180005119.01.T01:exon:28757;Parent=MsG0180005119.01.T01
Chr1 exon 87283217 87283255 87283217 ID=MsG0180005119.01.T01:exon:28758;Parent=MsG0180005119.01.T01
Chr1 CDS 87282953 87283120 87282953 ID=MsG0180005119.01.T01:cds;Parent=MsG0180005119.01.T01
Chr1 CDS 87283217 87283255 87283217 ID=MsG0180005119.01.T01:cds;Parent=MsG0180005119.01.T01
Gene Sequence

>MsG0180005119.01.T01

ATGGCATCACTCAAAGCTGAGAAACCAACTGAGAAATCTGGTAGCTCTCAACCATCAGGGCAAGTCAAGAAAGAGCCTGCTGCCAAAACTAGTGGGACTACTCCTAAAGCTAGAGCCTCCAAGGTAGCACCAAAGAAAACTGAGCAGAAATCTCAGCCTAAGAGGAAGGCTAGCAGCATTAAGCAGAAGATAACAAGTGAAACTTAA

Protein sequence

>MsG0180005119.01.T01

MASLKAEKPTEKSGSSQPSGQVKKEPAAKTSGTTPKARASKVAPKKTEQKSQPKRKASSIKQKITSET*