AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036143

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036143 MtrunA17_Chr5g0393501 30.693 202 133 3 25 222 41 239 4.24e-24 96.3
MsaG036143 MtrunA17_Chr4g0044671 30.769 208 123 8 25 223 24 219 3.20e-19 82.8
MsaG036143 MtrunA17_Chr4g0034781 31.156 199 126 8 29 223 22 213 2.49e-18 80.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAAATTCATCAGTGAATT+TGG 0.097815 7:+28056641 None:intergenic
ACAATGTGTCTTTAGGAATT+TGG 0.142567 7:-28056675 MsaT036143.1:intron
AAAACATGAATTACCGAATT+TGG 0.194389 7:-28056963 None:intergenic
CCGATTTCAATGATTTCTTA+TGG 0.230421 7:-28056184 MsaT036143.1:CDS
TCAAATTCATCAGTGAATTT+GGG 0.265368 7:+28056642 None:intergenic
CCAACCCTTCGTTAGCTTGC+TGG 0.293858 7:+28056073 None:intergenic
CACTGATGAATTTGATGACT+TGG 0.342548 7:-28056634 MsaT036143.1:CDS
GCACATCTCCAGCCTGATAT+TGG 0.343934 7:+28056030 None:intergenic
CCATAAGAAATCATTGAAAT+CGG 0.346978 7:+28056184 None:intergenic
CACATTGACCCCTTTGCAAA+TGG 0.355395 7:-28056343 MsaT036143.1:CDS
CTGCGTTTCAAGTTCTTTGA+TGG 0.370866 7:-28056008 MsaT036143.1:CDS
CTGCACAACTAGCCAATATC+AGG 0.387733 7:-28056042 MsaT036143.1:CDS
CTGATTCTGTTTAGCTATGT+TGG 0.402336 7:-28056480 MsaT036143.1:CDS
GAATATTTGACCATTGTCAT+TGG 0.404983 7:+28056133 None:intergenic
TTGATGACTTGGGTCCAGTC+TGG 0.430735 7:-28056623 MsaT036143.1:CDS
TTAAAAGTAAAGGCCAAATT+CGG 0.434755 7:+28056950 None:intergenic
ACTCTGCCACGGTTGACTAA+TGG 0.446976 7:-28056546 MsaT036143.1:CDS
TTCAATGATTTCTTATGGAA+TGG 0.456862 7:-28056179 MsaT036143.1:CDS
AATGGATGCGAATTCTGAAT+TGG 0.461274 7:-28056325 MsaT036143.1:intron
GAAGTCTTGTGCTTCTGCTA+TGG 0.476473 7:+28056394 None:intergenic
AGTAGATTTGTTATCACACT+TGG 0.481808 7:-28056453 MsaT036143.1:CDS
AATTCGCATCCATTTGCAAA+GGG 0.485601 7:+28056334 None:intergenic
CATAAGAAATCATTGAAATC+GGG 0.494072 7:+28056185 None:intergenic
TCAGCTTCATACCTTCAATC+TGG 0.497612 7:+28056499 None:intergenic
CAGCAAGCTAACGAAGGGTT+GGG 0.497952 7:-28056072 MsaT036143.1:CDS
CTTTGTGTTACCTCTTGTAG+TGG 0.499245 7:+28056895 None:intergenic
CACACTTGGGAATACAATTG+AGG 0.504352 7:-28056439 MsaT036143.1:CDS
CCAGCAAGCTAACGAAGGGT+TGG 0.517788 7:-28056073 MsaT036143.1:CDS
TGCGTTTCAAGTTCTTTGAT+GGG 0.523138 7:-28056007 MsaT036143.1:CDS
CAAATTCATCAGTGAATTTG+GGG 0.528317 7:+28056643 None:intergenic
TTTGTGTTACCTCTTGTAGT+GGG 0.528912 7:+28056896 None:intergenic
TGCCACGGTTGACTAATGGC+TGG 0.536796 7:-28056542 MsaT036143.1:CDS
ACTGCTATTCATTACCAAGT+TGG 0.542667 7:-28056107 MsaT036143.1:CDS
GACTAATGGCTGGACAGACT+TGG 0.543379 7:-28056532 MsaT036143.1:CDS
AATCATTGAAATCGGGTGGA+AGG 0.560043 7:+28056192 None:intergenic
TGGAATTTAATTGACGCTGA+AGG 0.570875 7:-28056603 MsaT036143.1:CDS
GAATTCGCATCCATTTGCAA+AGG 0.571229 7:+28056333 None:intergenic
ACTGATGAATTTGATGACTT+GGG 0.573082 7:-28056633 MsaT036143.1:CDS
GCGTCAATTAAATTCCAGAC+TGG 0.579334 7:+28056609 None:intergenic
GTAGATTTGTTATCACACTT+GGG 0.584740 7:-28056452 MsaT036143.1:CDS
TTGTTCCTCTCCAATGACAA+TGG 0.585814 7:-28056143 MsaT036143.1:CDS
TGATAATTACCCACTACAAG+AGG 0.586380 7:-28056905 MsaT036143.1:intron
AAGAAATCATTGAAATCGGG+TGG 0.589665 7:+28056188 None:intergenic
TTTGACCATTGTCATTGGAG+AGG 0.597349 7:+28056138 None:intergenic
ACAATTCAGCTACTCTGCCA+CGG 0.617034 7:-28056557 MsaT036143.1:CDS
ACTCACCAGCAAGCTAACGA+AGG 0.624585 7:-28056078 MsaT036143.1:CDS
CGCTGAAGGAAATTCTCATG+AGG 0.625269 7:-28056589 MsaT036143.1:CDS
ACAACTAGCCAATATCAGGC+TGG 0.629700 7:-28056038 MsaT036143.1:CDS
GTGCTTCTGCTATGGTACGT+AGG 0.636405 7:+28056402 None:intergenic
CAAGCTAACGAAGGGTTGGG+AGG 0.643100 7:-28056069 MsaT036143.1:CDS
CTCACCAGCAAGCTAACGAA+GGG 0.650798 7:-28056077 MsaT036143.1:CDS
ATTCGCATCCATTTGCAAAG+GGG 0.653436 7:+28056335 None:intergenic
TGGTGAGTGAGTCACCAACT+TGG 0.680717 7:+28056093 None:intergenic
GTCCAGCCATTAGTCAACCG+TGG 0.698189 7:+28056540 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 28055965 28056980 28055965 ID=MsaG036143
Chr7 mRNA 28055965 28056980 28055965 ID=MsaT036143.1;Parent=MsaG036143
Chr7 exon 28055965 28056216 28055965 ID=MsaT036143.1.exon3;Parent=MsaT036143.1
Chr7 CDS 28055965 28056216 28055965 ID=cds.MsaT036143.1;Parent=MsaT036143.1
Chr7 exon 28056326 28056682 28056326 ID=MsaT036143.1.exon2;Parent=MsaT036143.1
Chr7 CDS 28056326 28056682 28056326 ID=cds.MsaT036143.1;Parent=MsaT036143.1
Chr7 exon 28056906 28056980 28056906 ID=MsaT036143.1.exon1;Parent=MsaT036143.1
Chr7 CDS 28056906 28056980 28056906 ID=cds.MsaT036143.1;Parent=MsaT036143.1
Gene Sequence

>MsaT036143.1

ATGAATTACCGAATTTGGCCTTTACTTTTAATATATGAAAATAATTGTGATAATGATAATTACCCACTACAAGAGGAATTTGGAGAAATAAACCCCAAATTCACTGATGAATTTGATGACTTGGGTCCAGTCTGGAATTTAATTGACGCTGAAGGAAATTCTCATGAGGTTACATTCAACAATTCAGCTACTCTGCCACGGTTGACTAATGGCTGGACAGACTTGGCACAATTTTACCAGATTGAAGGTATGAAGCTGATTCTGTTTAGCTATGTTGGTCAAAGTAGATTTGTTATCACACTTGGGAATACAATTGAGGACACTAATGATATACCTACGTACCATAGCAGAAGCACAAGACTTCAGAATAAGAAGTCTTTCTTTTTTGACATCACATTGACCCCTTTGCAAATGGATGCGAATTCTGAATTGGTCCTTCCACCCGATTTCAATGATTTCTTATGGAATGGTGACTTTGATTATTTGTTCCTCTCCAATGACAATGGTCAAATATTCAAGACTGCTATTCATTACCAAGTTGGTGACTCACTCACCAGCAAGCTAACGAAGGGTTGGGAGGAATTCTGCACAACTAGCCAATATCAGGCTGGAGATGTGCTGCGTTTCAAGTTCTTTGATGGGAAACTGAATAATTTTGTTCATGTCTTTATAAACAATGCTTAG
Protein sequence

>MsaT036143.1

MNYRIWPLLLIYENNCDNDNYPLQEEFGEINPKFTDEFDDLGPVWNLIDAEGNSHEVTFNNSATLPRLTNGWTDLAQFYQIEGMKLILFSYVGQSRFVITLGNTIEDTNDIPTYHSRSTRLQNKKSFFFDITLTPLQMDANSELVLPPDFNDFLWNGDFDYLFLSNDNGQIFKTAIHYQVGDSLTSKLTKGWEEFCTTSQYQAGDVLRFKFFDGKLNNFVHVFINNA*