AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023992.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023992.01.T01 MTR_8g106680 97.087 103 3 0 1 103 769 871 3.16e-65 211
MsG0480023992.01.T01 MTR_6g080430 72.897 107 24 2 1 102 763 869 8.22e-37 131
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023992.01.T01 AT1G42550 52.273 88 29 3 19 101 763 842 4.50e-16 72.4

Find 32 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTATTCATGCAACACGTTC+TGG 0.320960 4:+92106722 MsG0480023992.01.T01:CDS
GTCCCATGCATTCTTATTTG+TGG 0.349501 4:-92106822 None:intergenic
ATGTGGGTGGTTTCAAAGTT+AGG 0.372982 4:+92106795 MsG0480023992.01.T01:CDS
ATGCAATGGTTAGTTGCATA+TGG 0.412127 4:+92106869 MsG0480023992.01.T01:CDS
CACTTTACAAGCTTGACATC+GGG 0.426837 4:-92107004 None:intergenic
GCAACACGTTCTGGCACAAA+GGG 0.435630 4:+92106731 MsG0480023992.01.T01:CDS
TGGGAAAAGCAGGGAAGAAA+GGG 0.443601 4:+92106894 MsG0480023992.01.T01:CDS
TTGGGAAAAGCAGGGAAGAA+AGG 0.444809 4:+92106893 MsG0480023992.01.T01:CDS
TGGTTAGTTGCATATGGGTT+GGG 0.448026 4:+92106875 MsG0480023992.01.T01:CDS
GCATATGGGTTGGGAAAAGC+AGG 0.456357 4:+92106884 MsG0480023992.01.T01:CDS
CTTGACATCGGGATTTCTCA+TGG 0.485916 4:-92106993 None:intergenic
CAAAGGGACAAGACCTGCTA+TGG 0.506660 4:+92106930 MsG0480023992.01.T01:CDS
GGGAAGAAGACATTGACAAA+GGG 0.509402 4:+92106914 MsG0480023992.01.T01:CDS
GAGTATTTCGTCACGGATCG+TGG 0.521965 4:+92106952 MsG0480023992.01.T01:CDS
CACGGATCGTGGCTGATATG+TGG 0.539317 4:+92106963 MsG0480023992.01.T01:CDS
GTTCCACAAATAAGAATGCA+TGG 0.544139 4:+92106819 MsG0480023992.01.T01:CDS
TGCAATGGTTAGTTGCATAT+GGG 0.549444 4:+92106870 MsG0480023992.01.T01:CDS
GGGCTAAGGAGGAGGAGAAG+AGG 0.559729 4:+92106753 MsG0480023992.01.T01:CDS
GTGACGAAATACTCCATAGC+AGG 0.562189 4:-92106943 None:intergenic
TCACTTTACAAGCTTGACAT+CGG 0.564256 4:-92107005 None:intergenic
CAAAGTAACAAGCATGCATG+TGG 0.566320 4:+92106778 MsG0480023992.01.T01:CDS
TGCAACACGTTCTGGCACAA+AGG 0.579645 4:+92106730 MsG0480023992.01.T01:CDS
ATGGTTAGTTGCATATGGGT+TGG 0.588597 4:+92106874 MsG0480023992.01.T01:CDS
AAAGACTAACTGCAATGCAA+TGG 0.603303 4:+92106855 MsG0480023992.01.T01:CDS
AGGGAAGAAGACATTGACAA+AGG 0.614678 4:+92106913 MsG0480023992.01.T01:CDS
TGCTATGGAGTATTTCGTCA+CGG 0.616016 4:+92106945 MsG0480023992.01.T01:CDS
TTCCACAAATAAGAATGCAT+GGG 0.633963 4:+92106820 MsG0480023992.01.T01:CDS
AAAGTAACAAGCATGCATGT+GGG 0.649857 4:+92106779 MsG0480023992.01.T01:CDS
AACACGTTCTGGCACAAAGG+GGG 0.659062 4:+92106733 MsG0480023992.01.T01:CDS
GTAACAAGCATGCATGTGGG+TGG 0.668323 4:+92106782 MsG0480023992.01.T01:CDS
CAACACGTTCTGGCACAAAG+GGG 0.715647 4:+92106732 MsG0480023992.01.T01:CDS
CATATGGGTTGGGAAAAGCA+GGG 0.739417 4:+92106885 MsG0480023992.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTCCACAAATAAGAATGCAT+GGG + Chr4:92106820-92106839 MsG0480023992.01.T01:CDS 30.0%
AAAGACTAACTGCAATGCAA+TGG + Chr4:92106855-92106874 MsG0480023992.01.T01:CDS 35.0%
AAAGTAACAAGCATGCATGT+GGG + Chr4:92106779-92106798 MsG0480023992.01.T01:CDS 35.0%
GTTCCACAAATAAGAATGCA+TGG + Chr4:92106819-92106838 MsG0480023992.01.T01:CDS 35.0%
TCACTTTACAAGCTTGACAT+CGG - Chr4:92107008-92107027 None:intergenic 35.0%
! ATGCAATGGTTAGTTGCATA+TGG + Chr4:92106869-92106888 MsG0480023992.01.T01:CDS 35.0%
! TGCAATGGTTAGTTGCATAT+GGG + Chr4:92106870-92106889 MsG0480023992.01.T01:CDS 35.0%
AGGGAAGAAGACATTGACAA+AGG + Chr4:92106913-92106932 MsG0480023992.01.T01:CDS 40.0%
ATGTGGGTGGTTTCAAAGTT+AGG + Chr4:92106795-92106814 MsG0480023992.01.T01:CDS 40.0%
CAAAGTAACAAGCATGCATG+TGG + Chr4:92106778-92106797 MsG0480023992.01.T01:CDS 40.0%
CACTTTACAAGCTTGACATC+GGG - Chr4:92107007-92107026 None:intergenic 40.0%
CTTATTCATGCAACACGTTC+TGG + Chr4:92106722-92106741 MsG0480023992.01.T01:CDS 40.0%
GGGAAGAAGACATTGACAAA+GGG + Chr4:92106914-92106933 MsG0480023992.01.T01:CDS 40.0%
! ATGGTTAGTTGCATATGGGT+TGG + Chr4:92106874-92106893 MsG0480023992.01.T01:CDS 40.0%
! GTCCCATGCATTCTTATTTG+TGG - Chr4:92106825-92106844 None:intergenic 40.0%
! TGCTATGGAGTATTTCGTCA+CGG + Chr4:92106945-92106964 MsG0480023992.01.T01:CDS 40.0%
! TGGTTAGTTGCATATGGGTT+GGG + Chr4:92106875-92106894 MsG0480023992.01.T01:CDS 40.0%
CTTGACATCGGGATTTCTCA+TGG - Chr4:92106996-92107015 None:intergenic 45.0%
GTGACGAAATACTCCATAGC+AGG - Chr4:92106946-92106965 None:intergenic 45.0%
TGGGAAAAGCAGGGAAGAAA+GGG + Chr4:92106894-92106913 MsG0480023992.01.T01:CDS 45.0%
TTGGGAAAAGCAGGGAAGAA+AGG + Chr4:92106893-92106912 MsG0480023992.01.T01:CDS 45.0%
!! CATATGGGTTGGGAAAAGCA+GGG + Chr4:92106885-92106904 MsG0480023992.01.T01:CDS 45.0%
AACACGTTCTGGCACAAAGG+GGG + Chr4:92106733-92106752 MsG0480023992.01.T01:CDS 50.0%
CAAAGGGACAAGACCTGCTA+TGG + Chr4:92106930-92106949 MsG0480023992.01.T01:CDS 50.0%
CAACACGTTCTGGCACAAAG+GGG + Chr4:92106732-92106751 MsG0480023992.01.T01:CDS 50.0%
GAGTATTTCGTCACGGATCG+TGG + Chr4:92106952-92106971 MsG0480023992.01.T01:CDS 50.0%
GCAACACGTTCTGGCACAAA+GGG + Chr4:92106731-92106750 MsG0480023992.01.T01:CDS 50.0%
GTAACAAGCATGCATGTGGG+TGG + Chr4:92106782-92106801 MsG0480023992.01.T01:CDS 50.0%
TGCAACACGTTCTGGCACAA+AGG + Chr4:92106730-92106749 MsG0480023992.01.T01:CDS 50.0%
!! GCATATGGGTTGGGAAAAGC+AGG + Chr4:92106884-92106903 MsG0480023992.01.T01:CDS 50.0%
CACGGATCGTGGCTGATATG+TGG + Chr4:92106963-92106982 MsG0480023992.01.T01:CDS 55.0%
TTCTGGCACAAAGGGGGCTA+AGG + Chr4:92106739-92106758 MsG0480023992.01.T01:CDS 55.0%
CACAAAGGGGGCTAAGGAGG+AGG + Chr4:92106745-92106764 MsG0480023992.01.T01:CDS 60.0%
GGGCTAAGGAGGAGGAGAAG+AGG + Chr4:92106753-92106772 MsG0480023992.01.T01:CDS 60.0%
TGGCACAAAGGGGGCTAAGG+AGG + Chr4:92106742-92106761 MsG0480023992.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 92106716 92107027 92106716 ID=MsG0480023992.01;Name=MsG0480023992.01
Chr4 mRNA 92106716 92107027 92106716 ID=MsG0480023992.01.T01;Parent=MsG0480023992.01;Name=MsG0480023992.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|103
Chr4 exon 92106716 92107027 92106716 ID=MsG0480023992.01.T01:exon:8051;Parent=MsG0480023992.01.T01
Chr4 CDS 92106716 92107027 92106716 ID=MsG0480023992.01.T01:cds;Parent=MsG0480023992.01.T01
Gene Sequence

>MsG0480023992.01.T01

ATGGTGCTTATTCATGCAACACGTTCTGGCACAAAGGGGGCTAAGGAGGAGGAGAAGAGGTTCAAAGTAACAAGCATGCATGTGGGTGGTTTCAAAGTTAGGAGTTCCACAAATAAGAATGCATGGGACAATGAGAAGCAAAGACTAACTGCAATGCAATGGTTAGTTGCATATGGGTTGGGAAAAGCAGGGAAGAAAGGGAAGAAGACATTGACAAAGGGACAAGACCTGCTATGGAGTATTTCGTCACGGATCGTGGCTGATATGTGGCTCAAAACCATGAGAAATCCCGATGTCAAGCTTGTAAAGTGA

Protein sequence

>MsG0480023992.01.T01

MVLIHATRSGTKGAKEEEKRFKVTSMHVGGFKVRSSTNKNAWDNEKQRLTAMQWLVAYGLGKAGKKGKKTLTKGQDLLWSISSRIVADMWLKTMRNPDVKLVK*