AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039480

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039480 MtrunA17_Chr3g0103031 23.077 299 206 8 13 303 15 297 3.03e-18 84.0
MsaG039480 MtrunA17_Chr5g0447191 34.177 158 95 3 147 303 11 160 1.80e-16 76.3
MsaG039480 MtrunA17_Chr3g0124921 22.508 311 214 9 2 303 1 293 4.76e-16 77.8
MsaG039480 MtrunA17_Chr4g0029841 24.000 200 126 3 108 306 80 254 1.63e-15 75.5
MsaG039480 MtrunA17_Chr5g0447111 23.571 280 190 7 32 303 35 298 4.46e-15 75.1
MsaG039480 MtrunA17_Chr1g0159831 21.725 313 221 7 1 303 1 299 1.32e-14 73.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039480 AT1G55760.1 22.876 306 213 9 5 303 7 296 3.76e-17 81.3
MsaG039480 AT1G21780.2 20.690 319 211 8 1 303 1 293 1.17e-14 73.9
MsaG039480 AT1G21780.1 20.690 319 211 8 1 303 1 293 1.17e-14 73.9

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCTCTGCGCTGTTGTTTA+AGG 0.092327 7:+89533898 MsaT039480.1:CDS
ACCATCTCCATCTTGAGATT+TGG 0.302478 7:-89532388 None:intergenic
CCTGAAGTAAATTGGAGTTC+TGG 0.348298 7:-89533431 None:intergenic
TTTGAAGAAATCGCAAGAAC+TGG 0.356013 7:+89532341 MsaT039480.1:CDS
CCAGAACTCCAATTTACTTC+AGG 0.366959 7:+89533431 MsaT039480.1:CDS
TTGATTGAAAATGAAGCAAT+TGG 0.367972 7:-89533008 None:intergenic
ATGATGAACGTACGGGTAGC+TGG 0.389687 7:+89532293 MsaT039480.1:CDS
AAGCCTTCTTAAGTTCTTCA+AGG 0.396336 7:-89533799 None:intergenic
TAACCTTGAAGAACTTAAGA+AGG 0.418430 7:+89533796 MsaT039480.1:CDS
CTCCTCAAGAAGCATTGATT+GGG 0.418908 7:+89532970 MsaT039480.1:CDS
AGAACTTAAGAAGGCTTGTA+AGG 0.421812 7:+89533805 MsaT039480.1:CDS
CTTCAAAGCGGAACTGACAT+TGG 0.425299 7:-89532325 None:intergenic
CATTATTGACACTGCTTCAA+AGG 0.434463 7:+89533031 MsaT039480.1:CDS
TTCAAAGCGGAACTGACATT+GGG 0.447753 7:-89532324 None:intergenic
GCTCCTCAAGAAGCATTGAT+TGG 0.465099 7:+89532969 MsaT039480.1:CDS
CGTCCCTACAATCCTCATAC+TGG 0.472791 7:+89533332 MsaT039480.1:CDS
TAGCATTCTTGATGATGATC+TGG 0.477809 7:+89533637 MsaT039480.1:CDS
TGTTAGTACCATTGTAAGCT+AGG 0.483166 7:-89533529 None:intergenic
CTTCCTAACTCAAGTAGTCC+AGG 0.484029 7:-89533671 None:intergenic
GAGGAAAATCACTCGATTGA+GGG 0.484828 7:+89533385 MsaT039480.1:CDS
TACAATCCTCATACTGGTGA+TGG 0.485068 7:+89533338 MsaT039480.1:CDS
GCCCCTGGACTACTTGAGTT+AGG 0.487237 7:+89533668 MsaT039480.1:CDS
ATCACCAGTATGAGGATTGT+AGG 0.489105 7:-89533336 None:intergenic
TGTGATTGAACTTGCCTCGT+TGG 0.499346 7:-89533576 None:intergenic
GGAGGAAAATCACTCGATTG+AGG 0.499537 7:+89533384 MsaT039480.1:CDS
ATTTCCACGCAGAACGTTGA+GGG 0.499789 7:-89533293 None:intergenic
AGGGATACACTTGTTTCTCT+CGG 0.510766 7:+89532915 MsaT039480.1:intron
ATAGAGCTCATGGAATATGC+TGG 0.511476 7:+89533851 MsaT039480.1:CDS
TGCAAGCTATGATGAACGTA+CGG 0.517580 7:+89532285 None:intergenic
TGATTGAAAATGAAGCAATT+GGG 0.525976 7:-89533007 None:intergenic
TCTTAGAAAGATAGAGCTCA+TGG 0.529268 7:+89533841 MsaT039480.1:CDS
TAATACCCATCACCAGTATG+AGG 0.531624 7:-89533344 None:intergenic
GGTGATGGGTATTACTTCGA+TGG 0.532743 7:+89533353 MsaT039480.1:CDS
GCTCATGGAATATGCTGGGT+TGG 0.535157 7:+89533856 MsaT039480.1:CDS
TTGAAGAAATCGCAAGAACT+GGG 0.542703 7:+89532342 MsaT039480.1:CDS
TGGTACTAACACTCTTTCCA+TGG 0.549440 7:+89533541 MsaT039480.1:CDS
TAAAATAACCTGTGTAACAC+TGG 0.550318 7:-89533500 None:intergenic
TAGGTGATATTACAGAACAT+AGG 0.552058 7:+89533219 MsaT039480.1:intron
TGATGAACGTACGGGTAGCT+GGG 0.559295 7:+89532294 MsaT039480.1:CDS
CAAACTTCCAAATCTCAAGA+TGG 0.561405 7:+89532381 MsaT039480.1:CDS
ACTTCGATGGATTCGAAAGG+AGG 0.564300 7:+89533366 MsaT039480.1:CDS
TTCCTAACTCAAGTAGTCCA+GGG 0.569309 7:-89533670 None:intergenic
TCACCAGTATGAGGATTGTA+GGG 0.572914 7:-89533335 None:intergenic
TCACTCGATTGAGGGAAATG+AGG 0.577031 7:+89533393 MsaT039480.1:CDS
TAGAGCTCATGGAATATGCT+GGG 0.582888 7:+89533852 MsaT039480.1:CDS
TACTATCACCTAGCTTACAA+TGG 0.583147 7:+89533521 MsaT039480.1:CDS
ACAATCCTCATACTGGTGAT+GGG 0.592967 7:+89533339 MsaT039480.1:CDS
CAAAAGCGCCAGTGTTACAC+AGG 0.600224 7:+89533492 MsaT039480.1:CDS
GGCTTGTAAGGAGTTGCTAG+TGG 0.601699 7:+89533817 MsaT039480.1:CDS
TATTTCCACGCAGAACGTTG+AGG 0.602388 7:-89533294 None:intergenic
TACCAATGTTAGATGTGTTG+AGG 0.606275 7:-89533748 None:intergenic
GATCTGGCTAGACATGCCCC+TGG 0.606355 7:+89533653 MsaT039480.1:CDS
TTCTTGCGATTTCTTCAAAG+CGG 0.606408 7:-89532337 None:intergenic
TCCAAATCTCAAGATGGAGA+TGG 0.607108 7:+89532387 MsaT039480.1:CDS
TTCAGGTGAAAATACAGTGA+GGG 0.611593 7:+89533448 MsaT039480.1:CDS
TGTTAGTAGAAGACTTGTGA+GGG 0.619187 7:+89533724 MsaT039480.1:CDS
GCAAGCTATGATGAACGTAC+GGG 0.624730 7:+89532286 None:intergenic
CTGTTAGTAGAAGACTTGTG+AGG 0.626291 7:+89533723 MsaT039480.1:CDS
TTGAGGGAAATGAGGATGAG+TGG 0.634663 7:+89533401 MsaT039480.1:CDS
GACCTCAACACATCTAACAT+TGG 0.634858 7:+89533746 MsaT039480.1:CDS
TCCTCAAGAAGCATTGATTG+GGG 0.636627 7:+89532971 MsaT039480.1:CDS
TTTCCACGCAGAACGTTGAG+GGG 0.643911 7:-89533292 None:intergenic
TTTCCCCTCAACGTTCTGCG+TGG 0.649211 7:+89533289 MsaT039480.1:CDS
ATTACTTCGATGGATTCGAA+AGG 0.657316 7:+89533363 MsaT039480.1:CDS
TCCTAACTCAAGTAGTCCAG+GGG 0.657707 7:-89533669 None:intergenic
GTTGGAAAGAGAGTTCTCCA+TGG 0.667307 7:-89533558 None:intergenic
CTTCAGGTGAAAATACAGTG+AGG 0.695457 7:+89533447 MsaT039480.1:CDS
CCTCAAGAAGCATTGATTGG+GGG 0.713145 7:+89532972 MsaT039480.1:CDS
GGAGAACTCTCTTTCCAACG+AGG 0.766420 7:+89533562 MsaT039480.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89532293 89533925 89532293 ID=MsaG039480
Chr7 mRNA 89532293 89533925 89532293 ID=MsaT039480.1;Parent=MsaG039480
Chr7 exon 89532293 89532408 89532293 ID=MsaT039480.1.exon1;Parent=MsaT039480.1
Chr7 CDS 89532293 89532408 89532293 ID=cds.MsaT039480.1;Parent=MsaT039480.1
Chr7 exon 89532917 89533077 89532917 ID=MsaT039480.1.exon2;Parent=MsaT039480.1
Chr7 CDS 89532917 89533077 89532917 ID=cds.MsaT039480.1;Parent=MsaT039480.1
Chr7 exon 89533222 89533925 89533222 ID=MsaT039480.1.exon3;Parent=MsaT039480.1
Chr7 CDS 89533222 89533925 89533222 ID=cds.MsaT039480.1;Parent=MsaT039480.1
Gene Sequence

>MsaT039480.1

ATGATGAACGTACGGGTAGCTGGGTATGTTGCCCAATGTCAGTTCCGCTTTGAAGAAATCGCAAGAACTGGGTTGCAAGCAACAGAAGCAAACTTCCAAATCTCAAGATGGAGATGGGATACACTTGTTTCTCTCGGTTCATATGAGTCATCAGTAGAAATTCAGTGTGCTCCTCAAGAAGCATTGATTGGGGGTGGCATGTATTTCCCAATTGCTTCATTTTCAATCAACATTATTGACACTGCTTCAAAGGAGAAAAAACTAGTTGCTTCTACAGGTGATATTACAGAACATAGGTTTTTTCGTGGACACTCTTTCCGTTTTTCTTGGGACTTTGAAAAAGATTTCCCCTCAACGTTCTGCGTGGAAATAGAATTTGAAAACATTCGTCCCTACAATCCTCATACTGGTGATGGGTATTACTTCGATGGATTCGAAAGGAGGAAAATCACTCGATTGAGGGAAATGAGGATGAGTGGTACATTACCAGAACTCCAATTTACTTCAGGTGAAAATACAGTGAGGGTTCATAATGCTGTTGTTGAGTCAAAAGCGCCAGTGTTACACAGGTTATTTTACTATCACCTAGCTTACAATGGTACTAACACTCTTTCCATGGAGAACTCTCTTTCCAACGAGGCAAGTTCAATCACAGAAGATGTGTTGAATGCTTTCAGAGATTATCTATATGATAGCATTCTTGATGATGATCTGGCTAGACATGCCCCTGGACTACTTGAGTTAGGAAGATGCTATCTGATCGATGATTTGATTGAAACTGTTAGTAGAAGACTTGTGAGGGACCTCAACACATCTAACATTGGTACAAGACTGCTTTTAGCAATGATGTTTAACCTTGAAGAACTTAAGAAGGCTTGTAAGGAGTTGCTAGTGGATCTTAGAAAGATAGAGCTCATGGAATATGCTGGGTTGGAGCAACATATGATCGATCAAATCTCTGCGCTGTTGTTTAAGGAATGA
Protein sequence

>MsaT039480.1

MMNVRVAGYVAQCQFRFEEIARTGLQATEANFQISRWRWDTLVSLGSYESSVEIQCAPQEALIGGGMYFPIASFSINIIDTASKEKKLVASTGDITEHRFFRGHSFRFSWDFEKDFPSTFCVEIEFENIRPYNPHTGDGYYFDGFERRKITRLREMRMSGTLPELQFTSGENTVRVHNAVVESKAPVLHRLFYYHLAYNGTNTLSMENSLSNEASSITEDVLNAFRDYLYDSILDDDLARHAPGLLELGRCYLIDDLIETVSRRLVRDLNTSNIGTRLLLAMMFNLEELKKACKELLVDLRKIELMEYAGLEQHMIDQISALLFKE*