AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040187


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040187 MtrunA17_Chr7g0267101 97.561 287 6 1 1 286 1 287 0.0 558
MsaG040187 MtrunA17_Chr1g0210351 49.282 209 83 7 1 196 1 199 5.08e-56 181
MsaG040187 MtrunA17_Chr1g0177911 42.387 243 112 8 5 239 3 225 1.76e-40 140
MsaG040187 MtrunA17_Chr7g0259991 33.766 154 78 5 65 198 51 200 3.81e-17 78.2
MsaG040187 MtrunA17_Chr1g0185481 38.168 131 49 5 96 198 140 266 6.06e-16 75.9
MsaG040187 MtrunA17_Chr1g0205341 38.261 115 50 6 97 198 73 179 4.51e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040187 AT5G04820.1 40.079 252 111 13 1 222 1 242 2.36e-40 141
MsaG040187 AT2G36050.1 40.805 174 72 7 31 200 29 175 6.20e-25 100
MsaG040187 AT3G52540.1 40.306 196 100 8 86 270 91 280 1.13e-21 92.4
MsaG040187 AT1G05420.2 37.963 108 61 3 97 198 127 234 2.14e-11 63.2
MsaG040187 AT1G05420.1 37.963 108 61 3 97 198 111 218 2.14e-11 62.8

Find 35 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCAAGTAAACTGAGTTAA+TGG 0.182052 7:-97577500 None:intergenic
CTTTGTTGTTAGAACAAGTT+AGG 0.274105 7:+97578106 MsaT040187.1:CDS
TTCGATGGAATCAACTTGTT+TGG 0.312302 7:-97577596 None:intergenic
AATAATAAAGCTGCTGCAAT+AGG 0.359001 7:+97577691 MsaT040187.1:CDS
CACTCGTTGTGTTTCTTGTT+CGG 0.365942 7:+97578047 MsaT040187.1:CDS
GACTTTCGAAAATCGATATA+AGG 0.369168 7:-97577778 None:intergenic
TGAGACCAACTCCATCTTAG+AGG 0.373515 7:+97577666 MsaT040187.1:CDS
AACCATTAACTCAGTTTACT+TGG 0.384415 7:+97577498 MsaT040187.1:CDS
AAGATGGAGTTGGTCTCATC+TGG 0.396490 7:-97577661 None:intergenic
ATCAATCATGGCTATATTGT+TGG 0.406010 7:+97577889 MsaT040187.1:CDS
GAAAAGCTAGAATCACAGTT+TGG 0.407128 7:-97577550 None:intergenic
GAAGAACTATAAAACGATAA+AGG 0.409329 7:-97578006 None:intergenic
AAGCTCATGATGTTAAAGAT+TGG 0.417820 7:+97577818 MsaT040187.1:CDS
TTTATTATTAACCTCTAAGA+TGG 0.418526 7:-97577677 None:intergenic
AGCTCATGATGTTAAAGATT+GGG 0.430684 7:+97577819 MsaT040187.1:CDS
TTCGGAAATTCGCGAGGATG+AGG 0.438055 7:+97578065 MsaT040187.1:CDS
AATATTCATCTTCTTCATCA+TGG 0.472237 7:+97577401 MsaT040187.1:CDS
TTTGTTGTTAGAACAAGTTA+GGG 0.507023 7:+97578107 MsaT040187.1:CDS
TCCATCGAAACTGTGATTCG+AGG 0.507125 7:+97577610 MsaT040187.1:CDS
TAAAACGATAAAGGAGAAGA+AGG 0.515224 7:-97577997 None:intergenic
GTCAATGAGAAAATCAATCA+TGG 0.520445 7:+97577877 MsaT040187.1:CDS
AACACAACGAGTGCTATAAG+AGG 0.520738 7:-97578037 None:intergenic
TTCGAGGATTATCTTCTGAT+CGG 0.524502 7:+97577626 MsaT040187.1:CDS
TCCTCGAATCACAGTTTCGA+TGG 0.529971 7:-97577611 None:intergenic
ATTAACCTCTAAGATGGAGT+TGG 0.540469 7:-97577671 None:intergenic
AATAAAGCTGCTGCAATAGG+AGG 0.582511 7:+97577694 MsaT040187.1:CDS
GGTTGGTGACAATATGGCCA+TGG 0.583924 7:-97577424 None:intergenic
CATCTTCTTCATCATGGCCA+TGG 0.594079 7:+97577407 MsaT040187.1:CDS
AAAGCTGCTGCAATAGGAGG+TGG 0.598773 7:+97577697 MsaT040187.1:CDS
TCTAACAACAAAGAAGAACT+AGG 0.600863 7:-97578096 None:intergenic
GTTGTTAGAACAAGTTAGGG+AGG 0.604085 7:+97578110 MsaT040187.1:CDS
AAAACTACACTGTCTTTGAA+CGG 0.622124 7:-97577736 None:intergenic
ATCACAGTTTGGAGAAACAG+TGG 0.633886 7:-97577539 None:intergenic
CATGATGTTAAAGATTGGGA+AGG 0.635146 7:+97577823 MsaT040187.1:CDS
TTCTTGTTCGGAAATTCGCG+AGG 0.660121 7:+97578059 MsaT040187.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 97577346 97578206 97577346 ID=MsaG040187
Chr7 mRNA 97577346 97578206 97577346 ID=MsaT040187.1;Parent=MsaG040187
Chr7 exon 97577346 97578206 97577346 ID=MsaT040187.1.exon1;Parent=MsaT040187.1
Chr7 CDS 97577346 97578206 97577346 ID=cds.MsaT040187.1;Parent=MsaT040187.1
Gene Sequence

>MsaT040187.1

ATGGGGAAGAAAAAAACATTGAACATCTCTTCTCTTCTCAAAAACACAGAACTCAAATATTCATCTTCTTCATCATGGCCATGGCCATATTGTCACCAACCAAAAACACTCTCTTTTAGAGCTGATAACATCAACAAAGATGACACTTTCAAAACCATTAACTCAGTTTACTTGGAAGCTTCTGAATCTTTCTCCACTGTTTCTCCAAACTGTGATTCTAGCTTTTCAAAAGCTTCTAATGATCAAGAATCCAAACAAGTTGATTCCATCGAAACTGTGATTCGAGGATTATCTTCTGATCGGTTTTTCTTCGAGCCAGATGAGACCAACTCCATCTTAGAGGTTAATAATAAAGCTGCTGCAATAGGAGGTGGTGAAACTCAAAGCTTGCCGTTCAAAGACAGTGTAGTTTTATCTATGGAATCTCGAGATCCTTATATCGATTTTCGAAAGTCTATGGAGGAAATAGTAGAAGCTCATGATGTTAAAGATTGGGAAGGTCTTCAAGAGCTTTTGAGTTGGTATTTGAAGGTCAATGAGAAAATCAATCATGGCTATATTGTTGGTGCTTTTGTTGATTTATTGGTTGGTCTTGCATTTGCTTCAACTTCGTCGTCATTTTCTACTTCATCTTCTTCGTCTTCTCGTTCTCCTTCTTCTCCTTTATCGTTTTATAGTTCTTCTTTGTCTTCCTCTTATAGCACTCGTTGTGTTTCTTGTTCGGAAATTCGCGAGGATGAGGTTGATACTCCTAGTTCTTCTTTGTTGTTAGAACAAGTTAGGGAGGAGATTGATTGCGAAGATGAAGTTGAAGCTTCAGAAACTCAAGCTTCAACTTCATCTTCTTCTTCAAGTACTTAA

Protein sequence

>MsaT040187.1

MGKKKTLNISSLLKNTELKYSSSSSWPWPYCHQPKTLSFRADNINKDDTFKTINSVYLEASESFSTVSPNCDSSFSKASNDQESKQVDSIETVIRGLSSDRFFFEPDETNSILEVNNKAAAIGGGETQSLPFKDSVVLSMESRDPYIDFRKSMEEIVEAHDVKDWEGLQELLSWYLKVNEKINHGYIVGAFVDLLVGLAFASTSSSFSTSSSSSSRSPSSPLSFYSSSLSSSYSTRCVSCSEIREDEVDTPSSSLLLEQVREEIDCEDEVEASETQASTSSSSSST*