AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042667

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042667 MtrunA17_Chr1g0203051 28.287 251 146 4 36 253 22 271 3.25e-32 124
MsaG042667 MtrunA17_Chr2g0287651 30.882 204 114 4 77 253 66 269 9.23e-23 97.8
MsaG042667 MtrunA17_Chr1g0171741 32.716 162 83 4 50 187 99 258 1.15e-20 88.6
MsaG042667 MtrunA17_Chr8g0389811 29.630 189 96 3 19 182 29 205 1.34e-18 81.6
MsaG042667 MtrunA17_Chr2g0331371 37.671 146 54 4 50 166 23 160 1.86e-17 78.6
MsaG042667 MtrunA17_Chr5g0448761 29.927 137 95 1 116 251 117 253 4.77e-12 65.9
MsaG042667 MtrunA17_Chr8g0340801 32.911 79 53 0 172 250 1 79 1.26e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACACCTGGTATCATTTC+TGG 0.155992 8:-25700760 None:intergenic
GGGAATGCTATAGTCATAAA+TGG 0.304640 8:+25700491 MsaT042667.1:CDS
GTATGTGCAACATACATTAA+AGG 0.333195 8:-25701128 None:intergenic
ATTGCACCATACATTTGATA+TGG 0.335565 8:-25700966 None:intergenic
TCAAGATCGAATGCACAAAT+TGG 0.341697 8:-25701763 None:intergenic
CAATATTAACATCGAGGAAA+TGG 0.372866 8:+25700373 MsaT042667.1:CDS
TTCAGACGAAGGAGATAATA+TGG 0.381516 8:+25700403 MsaT042667.1:CDS
CCACACCTGGTATCATTTCT+GGG 0.408982 8:-25700759 None:intergenic
AGCGATTCATCCGAGTCTAA+TGG 0.410491 8:+25700470 MsaT042667.1:CDS
TATGTGCAACATACATTAAA+GGG 0.429560 8:-25701127 None:intergenic
AAGGATTTGTATAACCAATC+AGG 0.433589 8:+25701032 MsaT042667.1:CDS
GAGATAATATGGATGACAAC+GGG 0.442366 8:+25700414 MsaT042667.1:CDS
GCGATTCATCCGAGTCTAAT+GGG 0.449731 8:+25700471 MsaT042667.1:CDS
TTCTCGCTTCCGCCTCTCCA+AGG 0.489867 8:-25700736 None:intergenic
GGTGCAATGGCTAATTCATC+AGG 0.491612 8:+25700981 MsaT042667.1:CDS
TCAATCTCAATCAAATCAGT+TGG 0.493229 8:-25700918 None:intergenic
TTGCATATAATTTCTACTCA+TGG 0.494106 8:+25700594 MsaT042667.1:CDS
CTAAATTCATCAGATATGAA+TGG 0.499723 8:+25700207 None:intergenic
AGAGAATAGGGGATTGACCT+TGG 0.506292 8:+25700719 MsaT042667.1:CDS
GCAAAGGAAACTAGTGTTGA+TGG 0.516074 8:-25701804 None:intergenic
CTGTTGGATGGTTTGCTATG+TGG 0.521362 8:+25700867 MsaT042667.1:CDS
GCTTCTATTGTAGGTTATGG+AGG 0.521772 8:+25700319 MsaT042667.1:intron
TAGACATTGTTTCGAAGCGT+TGG 0.536274 8:+25700808 MsaT042667.1:CDS
CATAACCACGAGCTGTTGGA+TGG 0.541920 8:+25700855 MsaT042667.1:CDS
TGCGCATAACCACGAGCTGT+TGG 0.543217 8:+25700851 MsaT042667.1:CDS
GGTGTTAGCTTTCTATGTGC+CGG 0.543539 8:-25700897 None:intergenic
GTTATGCGCAAATTCAAATA+CGG 0.547080 8:-25700838 None:intergenic
ATTGAAAAGTATAAGAATGT+TGG 0.559478 8:+25700936 MsaT042667.1:CDS
TCTATTGTAGGTTATGGAGG+AGG 0.559706 8:+25700322 MsaT042667.1:intron
GTAAGACCATATCAAATGTA+TGG 0.562904 8:+25700960 MsaT042667.1:CDS
ATATCAAATGTATGGTGCAA+TGG 0.565067 8:+25700968 MsaT042667.1:CDS
TTTCTGTAGATGTAGTTGAA+AGG 0.575027 8:+25700549 MsaT042667.1:CDS
GAGAACCCAGAAATGATACC+AGG 0.586155 8:+25700754 MsaT042667.1:CDS
GGGGATTGACCTTGGAGAGG+CGG 0.587748 8:+25700727 MsaT042667.1:CDS
ATCAGATATGAATGGATGCA+TGG 0.592737 8:+25700215 None:intergenic
GCTATAGTCATAAATGGCAT+CGG 0.596967 8:+25700497 MsaT042667.1:CDS
GAATGGATGCATGGATGATG+AGG 0.606403 8:+25700224 MsaT042667.1:CDS
TTAGTTTCATCTGACTCTTG+CGG 0.617850 8:+25701068 MsaT042667.1:CDS
GCAATGGCTAATTCATCAGG+TGG 0.625760 8:+25700984 MsaT042667.1:CDS
ATGGACGAAGCTTCAGACGA+AGG 0.631163 8:+25700392 MsaT042667.1:CDS
TATAGCATTCCCATTAGACT+CGG 0.641750 8:-25700480 None:intergenic
GCTTCGAAACAATGTCTATG+TGG 0.645082 8:-25700803 None:intergenic
AACGGGGCTAATGAGTGTGA+TGG 0.647669 8:+25700431 MsaT042667.1:CDS
CCCAGAAATGATACCAGGTG+TGG 0.648094 8:+25700759 MsaT042667.1:CDS
GGAGATAATATGGATGACAA+CGG 0.658325 8:+25700413 MsaT042667.1:CDS
GCAAACCATCCAACAGCTCG+TGG 0.662133 8:-25700860 None:intergenic
ATAACCAATCAGGAAAACAA+AGG 0.673628 8:+25701042 MsaT042667.1:CDS
ATAGGGGATTGACCTTGGAG+AGG 0.678541 8:+25700724 MsaT042667.1:CDS
TAATGACAATATTAACATCG+AGG 0.732342 8:+25700367 MsaT042667.1:CDS
AGATAATATGGATGACAACG+GGG 0.752339 8:+25700415 MsaT042667.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 25700222 25701816 25700222 ID=MsaG042667
Chr8 mRNA 25700222 25701816 25700222 ID=MsaT042667.1;Parent=MsaG042667
Chr8 exon 25700222 25700248 25700222 ID=MsaT042667.1.exon1;Parent=MsaT042667.1
Chr8 CDS 25700222 25700248 25700222 ID=cds.MsaT042667.1;Parent=MsaT042667.1
Chr8 exon 25700332 25700615 25700332 ID=MsaT042667.1.exon2;Parent=MsaT042667.1
Chr8 CDS 25700332 25700615 25700332 ID=cds.MsaT042667.1;Parent=MsaT042667.1
Chr8 exon 25700689 25701135 25700689 ID=MsaT042667.1.exon3;Parent=MsaT042667.1
Chr8 CDS 25700689 25701135 25700689 ID=cds.MsaT042667.1;Parent=MsaT042667.1
Chr8 exon 25701762 25701816 25701762 ID=MsaT042667.1.exon4;Parent=MsaT042667.1
Chr8 CDS 25701762 25701816 25701762 ID=cds.MsaT042667.1;Parent=MsaT042667.1
Gene Sequence

>MsaT042667.1

ATGAATGGATGCATGGATGATGAGGAAGTTATGGAGGAGGTAACAGAAAGTTCAGCTGACAGTAATGACAATATTAACATCGAGGAAATGGACGAAGCTTCAGACGAAGGAGATAATATGGATGACAACGGGGCTAATGAGTGTGATGGAGATTTAGAAGCGAGTAGCGATTCATCCGAGTCTAATGGGAATGCTATAGTCATAAATGGCATCGGTGATATTTTAAAGATGGACATGAAAAACATTTCTGTAGATGTAGTTGAAAGGTTTGACTTTGCTGATTTAGATGTTGCATATAATTTCTACTCATGCAAACTTTTGTTTGTTCGCGGGAAGGTTTTAGAGAATAGGGGATTGACCTTGGAGAGGCGGAAGCGAGAACCCAGAAATGATACCAGGTGTGGATGTTCTGCAAAATGTCGTGTCCACATAGACATTGTTTCGAAGCGTTGGTATGTGACCGTATTTGAATTTGCGCATAACCACGAGCTGTTGGATGGTTTGCTATGTGGTCTTTTACCGGCACATAGAAAGCTAACACCAACTGATTTGATTGAGATTGAAAAGTATAAGAATGTTGGTGTAAGACCATATCAAATGTATGGTGCAATGGCTAATTCATCAGGTGGTTTTCACAAGTTAGGTTTTGTGAAAAAGGATTTGTATAACCAATCAGGAAAACAAAGGAAATTAGTTTCATCTGACTCTTGCGGTGCACTGAAGTATCTTCATATGCTTCGTACAAAAGACCCTTTAATGCCAATTTGTGCATTCGATCTTGAATGTAAGTACTCTCAAGTCCATCAACACTAG
Protein sequence

>MsaT042667.1

MNGCMDDEEVMEEVTESSADSNDNINIEEMDEASDEGDNMDDNGANECDGDLEASSDSSESNGNAIVINGIGDILKMDMKNISVDVVERFDFADLDVAYNFYSCKLLFVRGKVLENRGLTLERRKREPRNDTRCGCSAKCRVHIDIVSKRWYVTVFEFAHNHELLDGLLCGLLPAHRKLTPTDLIEIEKYKNVGVRPYQMYGAMANSSGGFHKLGFVKKDLYNQSGKQRKLVSSDSCGALKYLHMLRTKDPLMPICAFDLECKYSQVHQH*