AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041752

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041752 MtrunA17_Chr8g0344481 95.745 235 10 0 1 235 1 235 1.16e-167 461
MsaG041752 MtrunA17_Chr2g0301131 32.328 232 118 7 11 210 12 236 7.86e-23 93.2
MsaG041752 MtrunA17_Chr5g0399881 33.071 127 70 4 85 208 24 138 4.20e-14 68.2
MsaG041752 MtrunA17_Chr5g0399861 30.882 136 72 4 79 208 19 138 6.84e-13 64.7
MsaG041752 MtrunA17_Chr4g0070271 30.693 202 100 7 11 208 12 177 2.81e-12 63.5
MsaG041752 MtrunA17_Chr5g0399851 30.508 118 79 1 91 208 7 121 4.91e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041752 AT1G72450.1 35.000 220 113 7 15 212 3 214 2.17e-24 98.2
MsaG041752 AT1G17380.1 33.180 217 110 8 17 212 11 213 8.78e-19 83.2
MsaG041752 AT1G72450.2 33.173 208 109 6 15 200 3 202 2.62e-18 80.5
MsaG041752 AT1G19180.1 32.589 224 116 8 12 209 14 228 3.38e-18 81.3
MsaG041752 AT1G19180.3 32.589 224 116 8 12 209 14 228 3.38e-18 81.3
MsaG041752 AT1G74950.1 29.600 250 142 10 1 223 1 243 1.66e-16 76.6
MsaG041752 AT1G17380.2 34.194 155 77 5 99 230 63 215 5.62e-13 66.6
MsaG041752 AT1G17380.3 31.220 205 109 7 16 202 10 200 7.23e-13 65.9
MsaG041752 AT1G19180.2 35.345 116 71 3 96 209 49 162 2.20e-12 63.9
MsaG041752 AT1G74950.2 28.634 227 129 9 1 200 1 221 3.48e-11 61.2

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCTGCTTTCTTTGGGAAAA+TGG 0.109042 8:+11375442 MsaT041752.1:CDS
TTGAAGGAAAAGAGAATTTC+TGG 0.175716 8:+11375410 MsaT041752.1:CDS
GATTCTACACCTGCTTTCTT+TGG 0.212849 8:+11375434 MsaT041752.1:CDS
TTAAGAAGTGAAGCTCTTCT+TGG 0.236604 8:-11377311 None:intergenic
GTGTTTGTTTGAGGAATTTC+GGG 0.278263 8:-11377108 None:intergenic
AACTAATTTACCTGAACATT+TGG 0.278582 8:-11377163 None:intergenic
TCCTTGTTCGGTTGTTTCTA+AGG 0.284638 8:-11377133 None:intergenic
GAACTTCTCCGGTGCCTTAC+CGG 0.289709 8:-11375351 None:intergenic
AGTGTTTGTTTGAGGAATTT+CGG 0.311669 8:-11377109 None:intergenic
AGAGGACCTTATCAAATTAA+TGG 0.313978 8:+11377476 MsaT041752.1:CDS
TGATCGGAAGAATTATCTTT+AGG 0.316360 8:-11377533 None:intergenic
CAATTGACGATATTCTATTC+CGG 0.343572 8:+11376946 MsaT041752.1:CDS
TTTGGCTTGGTTTCCTTGTT+CGG 0.349316 8:-11377145 None:intergenic
ATTCTACACCTGCTTTCTTT+GGG 0.379166 8:+11375435 MsaT041752.1:CDS
GGAAACCAAGCCAAATGTTC+AGG 0.389691 8:+11377153 MsaT041752.1:CDS
TTGTGACCATTAATTTGATA+AGG 0.394801 8:-11377482 None:intergenic
CACTAGTGACCGGTGCACTT+GGG 0.400373 8:-11377071 None:intergenic
AATTGACGATATTCTATTCC+GGG 0.411302 8:+11376947 MsaT041752.1:CDS
TCACTAGTGACCGGTGCACT+TGG 0.422956 8:-11377072 None:intergenic
AACTAAATCACTATAAGTTA+AGG 0.443726 8:-11377562 None:intergenic
GTGCCTTACCGGTGAGTCTC+CGG 0.457733 8:-11375340 None:intergenic
TGTGAAAATTTGAACTTCTC+CGG 0.466884 8:-11375362 None:intergenic
TCTAAGGCAGTGTTTGTTTG+AGG 0.469946 8:-11377117 None:intergenic
TTTGGGAAAATGGAACCTAA+AGG 0.472484 8:+11375452 MsaT041752.1:CDS
ACTAGTGACCGGTGCACTTG+GGG 0.487227 8:-11377070 None:intergenic
TACGAATGCAACTGAGATCA+TGG 0.488655 8:+11376999 MsaT041752.1:CDS
ATTTACCTGAACATTTGGCT+TGG 0.519424 8:-11377158 None:intergenic
GTATTAGACTTCTTAATGCA+AGG 0.531343 8:-11375843 None:intergenic
TGAATCTCTTCCTCAGCTTG+TGG 0.531942 8:+11375815 MsaT041752.1:CDS
CTAATACTGTGTCAGATGGC+CGG 0.536232 8:+11375321 MsaT041752.1:CDS
GCCAACATGCAAAATTCAGA+TGG 0.539238 8:+11375765 MsaT041752.1:CDS
CCAACATGCAAAATTCAGAT+GGG 0.542946 8:+11375766 MsaT041752.1:CDS
CTAGTGACCGGTGCACTTGG+GGG 0.549856 8:-11377069 None:intergenic
TCAGATGGCCGGAGACTCAC+CGG 0.554978 8:+11375332 MsaT041752.1:CDS
TGCAACTGAGATCATGGAGT+TGG 0.557096 8:+11377005 MsaT041752.1:CDS
TAAGTTAAGGTCGAATTGAT+CGG 0.557387 8:-11377549 None:intergenic
GAGACTCACCGGTAAGGCAC+CGG 0.568974 8:+11375343 MsaT041752.1:CDS
TAGTGACCGGTGCACTTGGG+GGG 0.574627 8:-11377068 None:intergenic
TTCTTGAGAAAAGAAAAGAA+AGG 0.582036 8:+11377336 MsaT041752.1:CDS
GAATAGAATATCGTCAATTG+TGG 0.583205 8:-11376943 None:intergenic
GCCTTAGAAACAACCGAACA+AGG 0.584084 8:+11377132 MsaT041752.1:CDS
TGGCCGGAGACTCACCGGTA+AGG 0.587038 8:+11375337 MsaT041752.1:CDS
TTAGCTAATACTGTGTCAGA+TGG 0.590836 8:+11375317 MsaT041752.1:CDS
ATGATCTCAGTTGCATTCGT+AGG 0.602248 8:-11376997 None:intergenic
TGTTGCAGGGTCATTGCTAG+AGG 0.603165 8:+11377458 MsaT041752.1:intron
CAACATGCAAAATTCAGATG+GGG 0.624122 8:+11375767 MsaT041752.1:CDS
AACATGCAAAATTCAGATGG+GGG 0.635592 8:+11375768 MsaT041752.1:CDS
GCATTAAGAAGTCTAATACA+AGG 0.639363 8:+11375847 MsaT041752.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 11375308 11377574 11375308 ID=MsaG041752
Chr8 mRNA 11375308 11377574 11375308 ID=MsaT041752.1;Parent=MsaG041752
Chr8 exon 11375308 11375473 11375308 ID=MsaT041752.1.exon1;Parent=MsaT041752.1
Chr8 CDS 11375308 11375473 11375308 ID=cds.MsaT041752.1;Parent=MsaT041752.1
Chr8 exon 11375745 11375868 11375745 ID=MsaT041752.1.exon2;Parent=MsaT041752.1
Chr8 CDS 11375745 11375868 11375745 ID=cds.MsaT041752.1;Parent=MsaT041752.1
Chr8 exon 11376924 11377174 11376924 ID=MsaT041752.1.exon3;Parent=MsaT041752.1
Chr8 CDS 11376924 11377174 11376924 ID=cds.MsaT041752.1;Parent=MsaT041752.1
Chr8 exon 11377300 11377357 11377300 ID=MsaT041752.1.exon4;Parent=MsaT041752.1
Chr8 CDS 11377300 11377357 11377300 ID=cds.MsaT041752.1;Parent=MsaT041752.1
Chr8 exon 11377466 11377574 11377466 ID=MsaT041752.1.exon5;Parent=MsaT041752.1
Chr8 CDS 11377466 11377574 11377466 ID=cds.MsaT041752.1;Parent=MsaT041752.1
Gene Sequence

>MsaT041752.1

ATGTCAAATTTAGCTAATACTGTGTCAGATGGCCGGAGACTCACCGGTAAGGCACCGGAGAAGTTCAAATTTTCACAGACTTGTAGTCTTTTGAGTCAGTTCTTGAAGGAAAAGAGAATTTCTGGTGATTCTACACCTGCTTTCTTTGGGAAAATGGAACCTAAAGCAAGTACAAAGGATTTGTTAGCCAACATGCAAAATTCAGATGGGGGTTTGAGACTAAATGCATCTGCTATTGAATCTCTTCCTCAGCTTGTGGAAAATCCTTGCATTAAGAAGTCTAATACAAGATCAACAGATCCTAAAACTCCACAATTGACGATATTCTATTCCGGGAAAATGTTAGTATTTGACGCTTTTTCGCCTACGAATGCAACTGAGATCATGGAGTTGGCCACCAAATTAGCCTCTGAAAATCCAAGCGCTGAAGAAAACCCCCCAAGTGCACCGGTCACTAGTGAAAAATTAAAGGAGCCCGAAATTCCTCAAACAAACACTGCCTTAGAAACAACCGAACAAGGAAACCAAGCCAAATGTTCAGATATGAGATATCCAAGAAGAGCTTCACTTCTTAAATTTCTTGAGAAAAGAAAAGAAAGGGTCATTGCTAGAGGACCTTATCAAATTAATGGTCACAAAAATGAGGGTAGTAGTTCTGGAAGTGAACCTAAAGATAATTCTTCCGATCAATTCGACCTTAACTTATAG
Protein sequence

>MsaT041752.1

MSNLANTVSDGRRLTGKAPEKFKFSQTCSLLSQFLKEKRISGDSTPAFFGKMEPKASTKDLLANMQNSDGGLRLNASAIESLPQLVENPCIKKSNTRSTDPKTPQLTIFYSGKMLVFDAFSPTNATEIMELATKLASENPSAEENPPSAPVTSEKLKEPEIPQTNTALETTEQGNQAKCSDMRYPRRASLLKFLEKRKERVIARGPYQINGHKNEGSSSGSEPKDNSSDQFDLNL*