AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1033180

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1033180 MtrunA17_Chr7g0255511 90.171 234 20 1 1 231 1 234 7.33e-151 419
Msa1033180 MtrunA17_Chr7g0225091 79.060 234 32 2 1 231 1 220 3.69e-131 368
Msa1033180 MtrunA17_Chr7g0225121 75.641 234 32 2 1 231 1 212 1.05e-124 352
Msa1033180 MtrunA17_Chr7g0222361 78.713 202 42 1 31 231 1 202 4.35e-119 337
Msa1033180 MtrunA17_Chr7g0222371 76.033 121 25 2 19 135 1 121 6.46e-63 192
Msa1033180 MtrunA17_Chr4g0072571 28.846 156 80 3 77 231 44 169 1.54e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1033180 AT1G66140.1 29.670 182 98 4 77 231 82 260 4.91e-11 61.2

Find 43 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTGTGGATATCATTATTA+TGG 0.231665 7_1:+68206868 Msa1033180:CDS
AAGAAATGGAGAAATTTCTT+TGG 0.320928 7_1:-68206620 None:intergenic
CTCCTTCCCCTTGTTGCACA+TGG 0.338672 7_1:-68206449 None:intergenic
TATATATTAATCAAAGCTTA+AGG 0.360864 7_1:-68207134 None:intergenic
CAAAGCATAATGAGTCAAAA+AGG 0.368100 7_1:+68206997 Msa1033180:CDS
TCCAAGCATTGTTAAAAGCT+TGG 0.375606 7_1:-68206786 None:intergenic
CACCATCTCTCCATTCCATA+TGG 0.384400 7_1:+68206846 Msa1033180:CDS
CTTAAGGGTCAAATCAATCT+TGG 0.396784 7_1:-68207118 None:intergenic
AATGATATCCACACCCCATA+TGG 0.402297 7_1:-68206861 None:intergenic
AATTACTCAAATGGTGATCA+AGG 0.411277 7_1:+68206811 Msa1033180:CDS
AACAATATGATTCAGCATGC+AGG 0.425567 7_1:+68206895 Msa1033180:CDS
ATGTTGAAACTCAGAATTCA+AGG 0.446337 7_1:+68206554 Msa1033180:CDS
GCTTGGATAAATTACTCAAA+TGG 0.450589 7_1:+68206802 Msa1033180:CDS
AGTAGCCAATTTGAAGATGA+TGG 0.452167 7_1:+68206489 Msa1033180:CDS
TCATCTGCTTCATCTATCTC+TGG 0.464587 7_1:-68206967 None:intergenic
ACCATCTCTCCATTCCATAT+GGG 0.464694 7_1:+68206847 Msa1033180:CDS
TCACAGGAAAAGTATTCAAA+AGG 0.468253 7_1:+68206663 Msa1033180:CDS
TTCACTAGTCCACAGGCATT+AGG 0.474635 7_1:+68206715 Msa1033180:CDS
TGAAGTTGGTTCAGTTTCAA+AGG 0.476665 7_1:+68207035 Msa1033180:CDS
TTGGATTCATTGTTGATCAC+AGG 0.479894 7_1:+68206647 Msa1033180:CDS
CAAGAGAAAGGTAATTGTGC+TGG 0.486649 7_1:+68206522 Msa1033180:CDS
AATATGTCTGAGATTGAAGT+TGG 0.493412 7_1:+68207021 Msa1033180:CDS
TGTTAGTGATGAAGTTGATC+AGG 0.506770 7_1:+68207065 Msa1033180:CDS
CTTTGATGCCATGTGCAACA+AGG 0.514941 7_1:+68206441 None:intergenic
ATATATTAATCAAAGCTTAA+GGG 0.526886 7_1:-68207133 None:intergenic
GAAGTTGGTTCAGTTTCAAA+GGG 0.529917 7_1:+68207036 Msa1033180:CDS
TCTCCATTCCATATGGGGTG+TGG 0.536840 7_1:+68206853 Msa1033180:CDS
GGAAAATCAGAACAAGAGAA+AGG 0.553067 7_1:+68206510 Msa1033180:CDS
ACAATATGATTCAGCATGCA+GGG 0.561522 7_1:+68206896 Msa1033180:CDS
CCCCATATGGAATGGAGAGA+TGG 0.561790 7_1:-68206848 None:intergenic
TGCCATGTGCAACAAGGGGA+AGG 0.572549 7_1:+68206447 None:intergenic
CAGAAAGTTCACTAGTCCAC+AGG 0.575345 7_1:+68206708 Msa1033180:CDS
TTTGATGCCATGTGCAACAA+GGG 0.577704 7_1:+68206442 None:intergenic
GTGCAACAAGGGGAAGGAGA+AGG 0.585340 7_1:+68206453 Msa1033180:CDS
GTTGGTTCAGTTTCAAAGGG+AGG 0.593873 7_1:+68207039 Msa1033180:CDS
TATCCACACCCCATATGGAA+TGG 0.594771 7_1:-68206856 None:intergenic
CCATCTCTCCATTCCATATG+GGG 0.598148 7_1:+68206848 Msa1033180:CDS
ATTACTCAAATGGTGATCAA+GGG 0.605537 7_1:+68206812 Msa1033180:CDS
GGAAGACAAAGAGACTCAAG+AGG 0.634668 7_1:+68207086 Msa1033180:CDS
TGATGACCACCTAATGCCTG+TGG 0.637178 7_1:-68206724 None:intergenic
TTGATGCCATGTGCAACAAG+GGG 0.659240 7_1:+68206443 None:intergenic
ACTAGTCCACAGGCATTAGG+TGG 0.661075 7_1:+68206718 Msa1033180:CDS
AGACAAAGAGACTCAAGAGG+AGG 0.673262 7_1:+68207089 Msa1033180:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTTCCATCATCTTCAAAT+TGG - chr7_1:68206497-68206516 None:intergenic 25.0%
!! TTCTTCAACAACATCTTTTT+GGG - chr7_1:68206584-68206603 None:intergenic 25.0%
! AAGAAATGGAGAAATTTCTT+TGG - chr7_1:68206623-68206642 None:intergenic 25.0%
!! ATTTCTCCATTTCTTCTTTT+TGG + chr7_1:68206628-68206647 Msa1033180:CDS 25.0%
! ATGAATCCAAAAAGAAGAAA+TGG - chr7_1:68206637-68206656 None:intergenic 25.0%
ATGTTGAAACTCAGAATTCA+AGG + chr7_1:68206554-68206573 Msa1033180:CDS 30.0%
! TCTTCAACAACATCTTTTTG+GGG - chr7_1:68206583-68206602 None:intergenic 30.0%
! CTTCTTCAACAACATCTTTT+TGG - chr7_1:68206585-68206604 None:intergenic 30.0%
!! TCACAGGAAAAGTATTCAAA+AGG + chr7_1:68206663-68206682 Msa1033180:CDS 30.0%
TAGAGAGAAGTCTCAAAAAA+AGG + chr7_1:68206761-68206780 Msa1033180:CDS 30.0%
GCTTGGATAAATTACTCAAA+TGG + chr7_1:68206802-68206821 Msa1033180:CDS 30.0%
AATTACTCAAATGGTGATCA+AGG + chr7_1:68206811-68206830 Msa1033180:CDS 30.0%
ATTACTCAAATGGTGATCAA+GGG + chr7_1:68206812-68206831 Msa1033180:CDS 30.0%
! TTTTATGCAGGGAATTTGTA+TGG + chr7_1:68206928-68206947 Msa1033180:CDS 30.0%
CAAAGCATAATGAGTCAAAA+AGG + chr7_1:68206997-68207016 Msa1033180:CDS 30.0%
! AATATGTCTGAGATTGAAGT+TGG + chr7_1:68207021-68207040 Msa1033180:CDS 30.0%
AGTAGCCAATTTGAAGATGA+TGG + chr7_1:68206489-68206508 Msa1033180:CDS 35.0%
GGAAAATCAGAACAAGAGAA+AGG + chr7_1:68206510-68206529 Msa1033180:CDS 35.0%
TTGGATTCATTGTTGATCAC+AGG + chr7_1:68206647-68206666 Msa1033180:CDS 35.0%
! TCCAAGCTTTTAACAATGCT+TGG + chr7_1:68206785-68206804 Msa1033180:CDS 35.0%
! TCCAAGCATTGTTAAAAGCT+TGG - chr7_1:68206789-68206808 None:intergenic 35.0%
GGGTGTGGATATCATTATTA+TGG + chr7_1:68206868-68206887 Msa1033180:CDS 35.0%
AACAATATGATTCAGCATGC+AGG + chr7_1:68206895-68206914 Msa1033180:CDS 35.0%
ACAATATGATTCAGCATGCA+GGG + chr7_1:68206896-68206915 Msa1033180:CDS 35.0%
! GGTCATCAAACTTTTATGCA+GGG + chr7_1:68206917-68206936 Msa1033180:CDS 35.0%
! TGAAGTTGGTTCAGTTTCAA+AGG + chr7_1:68207035-68207054 Msa1033180:CDS 35.0%
! GAAGTTGGTTCAGTTTCAAA+GGG + chr7_1:68207036-68207055 Msa1033180:CDS 35.0%
! TGTTAGTGATGAAGTTGATC+AGG + chr7_1:68207065-68207084 Msa1033180:CDS 35.0%
CTTAAGGGTCAAATCAATCT+TGG - chr7_1:68207121-68207140 None:intergenic 35.0%
CAAGAGAAAGGTAATTGTGC+TGG + chr7_1:68206522-68206541 Msa1033180:CDS 40.0%
ACCATCTCTCCATTCCATAT+GGG + chr7_1:68206847-68206866 Msa1033180:CDS 40.0%
AATGATATCCACACCCCATA+TGG - chr7_1:68206864-68206883 None:intergenic 40.0%
! GGGTCATCAAACTTTTATGC+AGG + chr7_1:68206916-68206935 Msa1033180:CDS 40.0%
TCATCTGCTTCATCTATCTC+TGG - chr7_1:68206970-68206989 None:intergenic 40.0%
CAGAAAGTTCACTAGTCCAC+AGG + chr7_1:68206708-68206727 Msa1033180:CDS 45.0%
TTCACTAGTCCACAGGCATT+AGG + chr7_1:68206715-68206734 Msa1033180:CDS 45.0%
CACCATCTCTCCATTCCATA+TGG + chr7_1:68206846-68206865 Msa1033180:CDS 45.0%
CCATCTCTCCATTCCATATG+GGG + chr7_1:68206848-68206867 Msa1033180:CDS 45.0%
TATCCACACCCCATATGGAA+TGG - chr7_1:68206859-68206878 None:intergenic 45.0%
! GTTGGTTCAGTTTCAAAGGG+AGG + chr7_1:68207039-68207058 Msa1033180:CDS 45.0%
GGAAGACAAAGAGACTCAAG+AGG + chr7_1:68207086-68207105 Msa1033180:CDS 45.0%
AGACAAAGAGACTCAAGAGG+AGG + chr7_1:68207089-68207108 Msa1033180:CDS 45.0%
ACTAGTCCACAGGCATTAGG+TGG + chr7_1:68206718-68206737 Msa1033180:CDS 50.0%
TGATGACCACCTAATGCCTG+TGG - chr7_1:68206727-68206746 None:intergenic 50.0%
CCCCATATGGAATGGAGAGA+TGG - chr7_1:68206851-68206870 None:intergenic 50.0%
TCTCCATTCCATATGGGGTG+TGG + chr7_1:68206853-68206872 Msa1033180:CDS 50.0%
GTGCAACAAGGGGAAGGAGA+AGG + chr7_1:68206453-68206472 Msa1033180:CDS 55.0%
Chromosome Type Strat End Strand Name
chr7_1 gene 68206451 68207146 68206451 ID=Msa1033180;Name=Msa1033180
chr7_1 mRNA 68206451 68207146 68206451 ID=Msa1033180-mRNA-1;Parent=Msa1033180;Name=Msa1033180-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|231
chr7_1 exon 68206451 68207146 68206451 ID=Msa1033180-mRNA-1:exon:15900;Parent=Msa1033180-mRNA-1
chr7_1 CDS 68206451 68207146 68206451 ID=Msa1033180-mRNA-1:cds;Parent=Msa1033180-mRNA-1
Gene Sequence

>Msa1033180

ATGTGCAACAAGGGGAAGGAGAAGGTGAATGAAGAATCAGTAGCCAATTTGAAGATGATGGAAAATCAGAACAAGAGAAAGGTAATTGTGCTGGAAGAATCTCATGTTGAAACTCAGAATTCAAGGACTCCCCAAAAAGATGTTGTTGAAGAAGAATCAACTGATTCTTCCAAAGAAATTTCTCCATTTCTTCTTTTTGGATTCATTGTTGATCACAGGAAAAGTATTCAAAAGGCTTACTCGTGCAAATTTTGTAGCAGAAAGTTCACTAGTCCACAGGCATTAGGTGGTCATCAAAATTCTCACAAATTAGAGAGAAGTCTCAAAAAAAGGATCCAAGCTTTTAACAATGCTTGGATAAATTACTCAAATGGTGATCAAGGGATAAGTCTAAACACCATCTCTCCATTCCATATGGGGTGTGGATATCATTATTATGGATTTAACAATATGATTCAGCATGCAGGGTCATCAAACTTTTATGCAGGGAATTTGTATGGTGCATTGCAGCATATTCCAGAGATAGATGAAGCAGATGAAGCTAATCAAAGCATAATGAGTCAAAAAGGTAATATGTCTGAGATTGAAGTTGGTTCAGTTTCAAAGGGAGGTGCTGTTAGTGATGAAGTTGATCAGGAAGACAAAGAGACTCAAGAGGAGGAAGCATCCAAGATTGATTTGACCCTTAAGCTTTGA
Protein sequence

>Msa1033180

MCNKGKEKVNEESVANLKMMENQNKRKVIVLEESHVETQNSRTPQKDVVEEESTDSSKEISPFLLFGFIVDHRKSIQKAYSCKFCSRKFTSPQALGGHQNSHKLERSLKKRIQAFNNAWINYSNGDQGISLNTISPFHMGCGYHYYGFNNMIQHAGSSNFYAGNLYGALQHIPEIDEADEANQSIMSQKGNMSEIEVGSVSKGGAVSDEVDQEDKETQEEEASKIDLTLKL*