AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1080140

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1080140 MtrunA17_Chr7g0265791 92.771 83 5 1 12 93 1 83 2.67e-30 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1080140 AT5G03700.1 56.000 50 22 0 46 95 37 86 2.07e-11 60.1

Find 41 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCTTTCCTTGAACCACTA+TGG 0.312021 7_2:-79425781 Msa1080140:CDS
ACCAAGATACTGTGTGGGTT+GGG 0.368105 7_2:+79425750 None:intergenic
TTGAATATTGTAGAAGCAAC+TGG 0.379851 7_2:+79426049 None:intergenic
GAACCCGAGAGAGAAGTTTC+CGG 0.448425 7_2:+79425849 None:intergenic
ACCCAACCCACACAGTATCT+TGG 0.453874 7_2:-79425751 Msa1080140:CDS
TCCGGTAGGATCGGTGAGGA+TGG 0.479284 7_2:+79425867 None:intergenic
GACCAAGATACTGTGTGGGT+TGG 0.487407 7_2:+79425749 None:intergenic
CAAGACTACCGTTGAAGAAG+AGG 0.498874 7_2:+79425712 None:intergenic
ATCGGTGAGGATGGGTTGAA+AGG 0.499686 7_2:+79425876 None:intergenic
GATTGTTGCAAAAGATGTTA+AGG 0.505959 7_2:+79425963 None:intergenic
AAGCCTTTGAGAAGCTCTTG+TGG 0.514091 7_2:+79425928 None:intergenic
GAGGATGGGTTGAAAGGAGG+TGG 0.514601 7_2:+79425882 None:intergenic
CCGGTAGGATCGGTGAGGAT+GGG 0.515364 7_2:+79425868 None:intergenic
TTTGAGAAGCTCTTGTGGGA+TGG 0.521091 7_2:+79425933 None:intergenic
CTACCGGAAACTTCTCTCTC+GGG 0.525044 7_2:-79425852 Msa1080140:CDS
CCTACCGGAAACTTCTCTCT+CGG 0.525872 7_2:-79425853 Msa1080140:CDS
AGCCTTTGAGAAGCTCTTGT+GGG 0.535324 7_2:+79425929 None:intergenic
GTTGGGTTGGCCGTCCATAG+TGG 0.535752 7_2:+79425767 None:intergenic
TGGCCGTCCATAGTGGTTCA+AGG 0.541669 7_2:+79425774 None:intergenic
GGTGAGGATGGGTTGAAAGG+AGG 0.550449 7_2:+79425879 None:intergenic
CCCATCCTCACCGATCCTAC+CGG 0.557827 7_2:-79425868 Msa1080140:CDS
GTCCATAGTGGTTCAAGGAA+AGG 0.566283 7_2:+79425779 None:intergenic
AGAGAAGTTTCCGGTAGGAT+CGG 0.568706 7_2:+79425858 None:intergenic
AAGAAGAGGCGCGTGTGTGT+GGG 0.575083 7_2:+79425726 None:intergenic
GAAGAAGAGGCGCGTGTGTG+TGG 0.578050 7_2:+79425725 None:intergenic
ATCCCACAAGAGCTTCTCAA+AGG 0.581973 7_2:-79425931 Msa1080140:CDS
AAGGAGGTGGATGTTGAGAG+TGG 0.584748 7_2:+79425895 None:intergenic
GGATGTTGAGAGTGGAGATG+AGG 0.588810 7_2:+79425903 None:intergenic
CATAGTGGTTCAAGGAAAGG+AGG 0.593024 7_2:+79425782 None:intergenic
AGATACTGTGTGGGTTGGGT+TGG 0.597895 7_2:+79425754 None:intergenic
TTTCCTTGAACCACTATGGA+CGG 0.600768 7_2:-79425777 Msa1080140:CDS
AAGCTCTTGTGGGATGGAAG+TGG 0.612049 7_2:+79425939 None:intergenic
CACACGCGCCTCTTCTTCAA+CGG 0.616088 7_2:-79425720 Msa1080140:CDS
AGAAGAGGCGCGTGTGTGTG+GGG 0.635713 7_2:+79425727 None:intergenic
TGTTGCAAAAGATGTTAAGG+TGG 0.643053 7_2:+79425966 None:intergenic
GGAAAGGAGGGTGTGAACGA+CGG 0.656325 7_2:+79425795 None:intergenic
ATAGTGGTTCAAGGAAAGGA+GGG 0.664368 7_2:+79425783 None:intergenic
GTGGGGACCAAGATACTGTG+TGG 0.664814 7_2:+79425744 None:intergenic
CCGAGAGAGAAGTTTCCGGT+AGG 0.665125 7_2:+79425853 None:intergenic
TGGGGACCAAGATACTGTGT+GGG 0.669264 7_2:+79425745 None:intergenic
AGTTTCCGGTAGGATCGGTG+AGG 0.731059 7_2:+79425863 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGAATATTGTAGAAGCAAC+TGG + chr7_2:79425728-79425747 None:intergenic 30.0%
GATTGTTGCAAAAGATGTTA+AGG + chr7_2:79425814-79425833 None:intergenic 30.0%
TGTTGCAAAAGATGTTAAGG+TGG + chr7_2:79425811-79425830 None:intergenic 35.0%
!!! GTTTTATGTCGTTTTGGTTG+TGG + chr7_2:79425956-79425975 None:intergenic 35.0%
!!! TTATGTCGTTTTGGTTGTGG+CGG + chr7_2:79425953-79425972 None:intergenic 40.0%
ATAGTGGTTCAAGGAAAGGA+GGG + chr7_2:79425994-79426013 None:intergenic 40.0%
TTTCCTTGAACCACTATGGA+CGG - chr7_2:79425997-79426016 Msa1080140:CDS 40.0%
TTTGAGAAGCTCTTGTGGGA+TGG + chr7_2:79425844-79425863 None:intergenic 45.0%
ATCCCACAAGAGCTTCTCAA+AGG - chr7_2:79425843-79425862 Msa1080140:CDS 45.0%
! AGCCTTTGAGAAGCTCTTGT+GGG + chr7_2:79425848-79425867 None:intergenic 45.0%
! AAGCCTTTGAGAAGCTCTTG+TGG + chr7_2:79425849-79425868 None:intergenic 45.0%
AGAGAAGTTTCCGGTAGGAT+CGG + chr7_2:79425919-79425938 None:intergenic 45.0%
!! CGGCGAGTTTTATGTCGTTT+TGG + chr7_2:79425962-79425981 None:intergenic 45.0%
CATAGTGGTTCAAGGAAAGG+AGG + chr7_2:79425995-79426014 None:intergenic 45.0%
CTCCTTTCCTTGAACCACTA+TGG - chr7_2:79425993-79426012 Msa1080140:CDS 45.0%
GTCCATAGTGGTTCAAGGAA+AGG + chr7_2:79425998-79426017 None:intergenic 45.0%
ACCAAGATACTGTGTGGGTT+GGG + chr7_2:79426027-79426046 None:intergenic 45.0%
AAGCTCTTGTGGGATGGAAG+TGG + chr7_2:79425838-79425857 None:intergenic 50.0%
GGATGTTGAGAGTGGAGATG+AGG + chr7_2:79425874-79425893 None:intergenic 50.0%
AAGGAGGTGGATGTTGAGAG+TGG + chr7_2:79425882-79425901 None:intergenic 50.0%
!! ATCGGTGAGGATGGGTTGAA+AGG + chr7_2:79425901-79425920 None:intergenic 50.0%
CCTACCGGAAACTTCTCTCT+CGG - chr7_2:79425921-79425940 Msa1080140:CDS 50.0%
CTACCGGAAACTTCTCTCTC+GGG - chr7_2:79425922-79425941 Msa1080140:CDS 50.0%
GAACCCGAGAGAGAAGTTTC+CGG + chr7_2:79425928-79425947 None:intergenic 50.0%
!! AGATACTGTGTGGGTTGGGT+TGG + chr7_2:79426023-79426042 None:intergenic 50.0%
ACCCAACCCACACAGTATCT+TGG - chr7_2:79426023-79426042 Msa1080140:CDS 50.0%
GACCAAGATACTGTGTGGGT+TGG + chr7_2:79426028-79426047 None:intergenic 50.0%
TGGGGACCAAGATACTGTGT+GGG + chr7_2:79426032-79426051 None:intergenic 50.0%
!! GAGGATGGGTTGAAAGGAGG+TGG + chr7_2:79425895-79425914 None:intergenic 55.0%
!! GGTGAGGATGGGTTGAAAGG+AGG + chr7_2:79425898-79425917 None:intergenic 55.0%
AGTTTCCGGTAGGATCGGTG+AGG + chr7_2:79425914-79425933 None:intergenic 55.0%
CCGAGAGAGAAGTTTCCGGT+AGG + chr7_2:79425924-79425943 None:intergenic 55.0%
!!! TGTCGTTTTGGTTGTGGCGG+AGG + chr7_2:79425950-79425969 None:intergenic 55.0%
! GGAAAGGAGGGTGTGAACGA+CGG + chr7_2:79425982-79426001 None:intergenic 55.0%
TGGCCGTCCATAGTGGTTCA+AGG + chr7_2:79426003-79426022 None:intergenic 55.0%
GTGGGGACCAAGATACTGTG+TGG + chr7_2:79426033-79426052 None:intergenic 55.0%
! AAGAAGAGGCGCGTGTGTGT+GGG + chr7_2:79426051-79426070 None:intergenic 55.0%
CACACGCGCCTCTTCTTCAA+CGG - chr7_2:79426054-79426073 Msa1080140:CDS 55.0%
CCGGTAGGATCGGTGAGGAT+GGG + chr7_2:79425909-79425928 None:intergenic 60.0%
CCCATCCTCACCGATCCTAC+CGG - chr7_2:79425906-79425925 Msa1080140:CDS 60.0%
TCCGGTAGGATCGGTGAGGA+TGG + chr7_2:79425910-79425929 None:intergenic 60.0%
!! GTTGGGTTGGCCGTCCATAG+TGG + chr7_2:79426010-79426029 None:intergenic 60.0%
! AGAAGAGGCGCGTGTGTGTG+GGG + chr7_2:79426050-79426069 None:intergenic 60.0%
! GAAGAAGAGGCGCGTGTGTG+TGG + chr7_2:79426052-79426071 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 79425717 79426079 79425717 ID=Msa1080140;Name=Msa1080140
chr7_2 mRNA 79425717 79426079 79425717 ID=Msa1080140-mRNA-1;Parent=Msa1080140;Name=Msa1080140-mRNA-1;_AED=0.44;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|120
chr7_2 exon 79425717 79426079 79425717 ID=Msa1080140-mRNA-1:exon:20007;Parent=Msa1080140-mRNA-1
chr7_2 CDS 79425717 79426079 79425717 ID=Msa1080140-mRNA-1:cds;Parent=Msa1080140-mRNA-1
Gene Sequence

>Msa1080140

ATGTCTATCCAGTTGCTTCTACAATATTCAAACATGTATGCAACACATAAGCTTCATTTCACAAATATAATTCTCGTTCTATTCTTTTCTACCACCTTAACATCTTTTGCAACAATCACCACTTCCATCCCACAAGAGCTTCTCAAAGGCTTCTCCTCATCTCCACTCTCAACATCCACCTCCTTTCAACCCATCCTCACCGATCCTACCGGAAACTTCTCTCTCGGGTTCCTCCGCCACAACCAAAACGACATAAAACTCGCCGTCGTTCACACCCTCCTTTCCTTGAACCACTATGGACGGCCAACCCAACCCACACAGTATCTTGGTCCCCACACACACGCGCCTCTTCTTCAACGGTAG
Protein sequence

>Msa1080140

MSIQLLLQYSNMYATHKLHFTNIILVLFFSTTLTSFATITTSIPQELLKGFSSSPLSTSTSFQPILTDPTGNFSLGFLRHNQNDIKLAVVHTLLSLNHYGRPTQPTQYLGPHTHAPLLQR*