AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1435910


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1435910 MtrunA17_Chr5g0446501 86.239 218 5 2 1 218 1 193 1.06e-126 355
Msa1435910 MtrunA17_Chr7g0249521 40.845 213 115 5 12 217 1 209 1.47e-44 147
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1435910 AT5G55710.1 74.432 176 44 1 43 218 35 209 7.07e-92 268
Msa1435910 AT2G47840.1 40.116 172 101 1 48 217 37 208 1.42e-41 140

Find 41 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGCTCTTCTTCTTGCATTT+TGG 0.091593 tig0027814:+36304 Msa1435910:CDS
TTTAAAAGCTTTCCCTTTAA+TGG 0.122210 tig0027814:+36062 Msa1435910:CDS
TTGTTGGTGTGTTTGATTTA+TGG 0.141836 tig0027814:+36284 Msa1435910:CDS
CTGACATATTTACTGAAATT+AGG 0.160115 tig0027814:-36128 Msa1435910:intergenic
ATCAGCTGAATCACTGTTAT+TGG 0.230476 tig0027814:-35904 Msa1435910:intergenic
TGAATCACTGTTATTGGATT+TGG 0.234223 tig0027814:-35898 Msa1435910:intergenic
ACCATTGATTCCTGCAATTA+GGG 0.256214 tig0027814:+36037 Msa1435910:CDS
ATTGGATTTGTTGATGAGTT+TGG 0.285770 tig0027814:+36241 Msa1435910:CDS
AAACACAAGAAACCCATTAA+AGG 0.293465 tig0027814:-36075 Msa1435910:intergenic
AACCATTGATTCCTGCAATT+AGG 0.294130 tig0027814:+36036 Msa1435910:CDS
TGACATATTTACTGAAATTA+GGG 0.297268 tig0027814:-36127 Msa1435910:intergenic
TTGGATTTAGTGAATTTCTT+TGG 0.309864 tig0027814:-35852 Msa1435910:intergenic
TTAAAAGCTTTCCCTTTAAT+GGG 0.310250 tig0027814:+36063 Msa1435910:CDS
TTTAGTGTAAATAGAGAAGA+AGG 0.362698 tig0027814:-35822 Msa1435910:intergenic
TTTAATCCAAGAGGTGGGTT+TGG 0.383345 tig0027814:+36218 Msa1435910:CDS
ATTGGATTTGGATACAGTTA+AGG 0.393120 tig0027814:-35886 Msa1435910:intergenic
GGTTGAACAATGGCTTGAAT+TGG 0.397199 tig0027814:-36017 Msa1435910:intergenic
AGAAGAAAGTTTGATTGAAG+TGG 0.429332 tig0027814:-35786 Msa1435910:intergenic
AACCCTCTTTCCAAAAGATC+AGG 0.429515 tig0027814:-36197 Msa1435910:intergenic
AACACAAGAAACCCATTAAA+GGG 0.432827 tig0027814:-36074 Msa1435910:intergenic
AACAAAGAGCTGAAATTAAA+CGG 0.439819 tig0027814:-35935 Msa1435910:intergenic
TCCAATCCAAACCCACCTCT+TGG 0.441020 tig0027814:-36224 Msa1435910:intergenic
TCCAAGAGGTGGGTTTGGAT+TGG 0.441807 tig0027814:+36223 Msa1435910:CDS
ACCCTAATTGCAGGAATCAA+TGG 0.448400 tig0027814:-36038 Msa1435910:intergenic
TCAGCAGCATCAGCAACAAT+AGG 0.464175 tig0027814:-36344 Msa1435910:intergenic
TTGTTGCTGATGCTGCTGAT+AGG 0.467577 tig0027814:+36348 Msa1435910:CDS
CTAATTTCAGTAAATATGTC+AGG 0.476366 tig0027814:+36129 Msa1435910:CDS
GTAAATAGAGAAGAAGGGTT+TGG 0.489765 tig0027814:-35816 Msa1435910:intergenic
AGTTAAGGTTCTGAGTTTGT+TGG 0.492424 tig0027814:-35871 Msa1435910:intergenic
GTTGAACAATGGCTTGAATT+GGG 0.507399 tig0027814:-36016 Msa1435910:intergenic
TGAGTGACTGAGAGAAGCTA+TGG 0.529411 tig0027814:-35757 Msa1435910:intergenic
CTATGGATACAGAAGAGAAG+AGG 0.532480 tig0027814:-35740 Msa1435910:intergenic
TTAGTGTAAATAGAGAAGAA+GGG 0.559666 tig0027814:-35821 Msa1435910:intergenic
AGAGGGTTTAATCCAAGAGG+TGG 0.570836 tig0027814:+36212 Msa1435910:CDS
TATGGATACAGAAGAGAAGA+GGG 0.589399 tig0027814:-35739 Msa1435910:intergenic
GAAGAGGGTGGAACTTGCCA+TGG 0.593576 tig0027814:-35724 Msa1435910:intergenic
GAGGGTTTAATCCAAGAGGT+GGG 0.602525 tig0027814:+36213 Msa1435910:CDS
TCAGCAACAATAGGCAACCT+AGG 0.619404 tig0027814:-36335 Msa1435910:intergenic
AGGAATCAATGGTTGAACAA+TGG 0.633806 tig0027814:-36027 Msa1435910:intergenic
GGATACAGAAGAGAAGAGGG+TGG 0.652021 tig0027814:-35736 Msa1435910:intergenic
GAAAGAGGGTTTAATCCAAG+AGG 0.654426 tig0027814:+36209 Msa1435910:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGACATATTTACTGAAATTA+GGG - tig0027814:36130-36149 Msa1435910:intergenic 20.0%
! TTAGTGTAAATAGAGAAGAA+GGG - tig0027814:35824-35843 None:intergenic 25.0%
! TTTAGTGTAAATAGAGAAGA+AGG - tig0027814:35825-35844 None:intergenic 25.0%
! TTGGATTTAGTGAATTTCTT+TGG - tig0027814:35855-35874 None:intergenic 25.0%
! AACAAAGAGCTGAAATTAAA+CGG - tig0027814:35938-35957 None:intergenic 25.0%
! TATTGAATGCCATCAAAAAA+GGG - tig0027814:35969-35988 Msa1435910:intergenic 25.0%
! ATATTGAATGCCATCAAAAA+AGG - tig0027814:35970-35989 Msa1435910:intergenic 25.0%
!!! TTTTTTGATGGCATTCAATA+TGG + tig0027814:35969-35988 Msa1435910:CDS 25.0%
! TTTAAAAGCTTTCCCTTTAA+TGG + tig0027814:36062-36081 Msa1435910:CDS 25.0%
! TTAAAAGCTTTCCCTTTAAT+GGG + tig0027814:36063-36082 Msa1435910:CDS 25.0%
! CTGACATATTTACTGAAATT+AGG - tig0027814:36131-36150 Msa1435910:intergenic 25.0%
! CTAATTTCAGTAAATATGTC+AGG + tig0027814:36129-36148 Msa1435910:CDS 25.0%
AGAAGAAAGTTTGATTGAAG+TGG - tig0027814:35789-35808 None:intergenic 30.0%
ATTGGATTTGGATACAGTTA+AGG - tig0027814:35889-35908 None:intergenic 30.0%
TGAATCACTGTTATTGGATT+TGG - tig0027814:35901-35920 None:intergenic 30.0%
ATTGAATGCCATCAAAAAAG+GGG - tig0027814:35968-35987 Msa1435910:intergenic 30.0%
!! CTTTTAAAAACCCTAATTGC+AGG - tig0027814:36050-36069 Msa1435910:intergenic 30.0%
AACACAAGAAACCCATTAAA+GGG - tig0027814:36077-36096 Msa1435910:intergenic 30.0%
AAACACAAGAAACCCATTAA+AGG - tig0027814:36078-36097 Msa1435910:intergenic 30.0%
!! GTTGATTTTTCCTGATCTTT+TGG + tig0027814:36187-36206 Msa1435910:CDS 30.0%
!! ATTGGATTTGTTGATGAGTT+TGG + tig0027814:36241-36260 Msa1435910:CDS 30.0%
! TTGTTGGTGTGTTTGATTTA+TGG + tig0027814:36284-36303 Msa1435910:CDS 30.0%
TATGGATACAGAAGAGAAGA+GGG - tig0027814:35742-35761 None:intergenic 35.0%
GTAAATAGAGAAGAAGGGTT+TGG - tig0027814:35819-35838 None:intergenic 35.0%
!! AGTTAAGGTTCTGAGTTTGT+TGG - tig0027814:35874-35893 None:intergenic 35.0%
ATCAGCTGAATCACTGTTAT+TGG - tig0027814:35907-35926 None:intergenic 35.0%
!!! TACTTCTACCCCTTTTTTGA+TGG + tig0027814:35957-35976 Msa1435910:CDS 35.0%
GTTGAACAATGGCTTGAATT+GGG - tig0027814:36019-36038 Msa1435910:intergenic 35.0%
AGGAATCAATGGTTGAACAA+TGG - tig0027814:36030-36049 Msa1435910:intergenic 35.0%
!! AACCATTGATTCCTGCAATT+AGG + tig0027814:36036-36055 Msa1435910:CDS 35.0%
!! ACCATTGATTCCTGCAATTA+GGG + tig0027814:36037-36056 Msa1435910:CDS 35.0%
!! TTTCCTGATCTTTTGGAAAG+AGG + tig0027814:36194-36213 Msa1435910:CDS 35.0%
!! TTCCTGATCTTTTGGAAAGA+GGG + tig0027814:36195-36214 Msa1435910:CDS 35.0%
!! CACTGTGTTTTTGTTCTTGT+TGG + tig0027814:36268-36287 Msa1435910:CDS 35.0%
CTATGGATACAGAAGAGAAG+AGG - tig0027814:35743-35762 None:intergenic 40.0%
GGTTGAACAATGGCTTGAAT+TGG - tig0027814:36020-36039 Msa1435910:intergenic 40.0%
ACCCTAATTGCAGGAATCAA+TGG - tig0027814:36041-36060 Msa1435910:intergenic 40.0%
AACCCTCTTTCCAAAAGATC+AGG - tig0027814:36200-36219 Msa1435910:intergenic 40.0%
GAAAGAGGGTTTAATCCAAG+AGG + tig0027814:36209-36228 Msa1435910:CDS 40.0%
! TTTAATCCAAGAGGTGGGTT+TGG + tig0027814:36218-36237 Msa1435910:CDS 40.0%
! TGGCTCTTCTTCTTGCATTT+TGG + tig0027814:36304-36323 Msa1435910:CDS 40.0%
! GGCTCTTCTTCTTGCATTTT+GGG + tig0027814:36305-36324 Msa1435910:CDS 40.0%
TGAGTGACTGAGAGAAGCTA+TGG - tig0027814:35760-35779 None:intergenic 45.0%
AGAGGGTTTAATCCAAGAGG+TGG + tig0027814:36212-36231 Msa1435910:CDS 45.0%
GAGGGTTTAATCCAAGAGGT+GGG + tig0027814:36213-36232 Msa1435910:CDS 45.0%
TCAGCAACAATAGGCAACCT+AGG - tig0027814:36338-36357 Msa1435910:intergenic 45.0%
TCAGCAGCATCAGCAACAAT+AGG - tig0027814:36347-36366 Msa1435910:intergenic 45.0%
TTGTTGCTGATGCTGCTGAT+AGG + tig0027814:36348-36367 Msa1435910:CDS 45.0%
GGATACAGAAGAGAAGAGGG+TGG - tig0027814:35739-35758 None:intergenic 50.0%
! TCCAAGAGGTGGGTTTGGAT+TGG + tig0027814:36223-36242 Msa1435910:CDS 50.0%
TCCAATCCAAACCCACCTCT+TGG - tig0027814:36227-36246 Msa1435910:intergenic 50.0%
!! GCATTTTGGGTCAGCTACCT+AGG + tig0027814:36318-36337 Msa1435910:CDS 50.0%
Chromosome Type Strat End Strand Name
tig0027814 gene 35726 36382 35726 ID=Msa1435910;Name=Msa1435910
tig0027814 mRNA 35726 36382 35726 ID=Msa1435910-mRNA-1;Parent=Msa1435910;Name=Msa1435910-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|218
tig0027814 exon 35726 36382 35726 ID=Msa1435910-mRNA-1:exon:9941;Parent=Msa1435910-mRNA-1
tig0027814 CDS 35726 36382 35726 ID=Msa1435910-mRNA-1:cds;Parent=Msa1435910-mRNA-1
Gene Sequence

>Msa1435910

ATGGCAAGTTCCACCCTCTTCTCTTCTGTATCCATAGCTTCTCTCAGTCACTCACGAAAACCACTTCAATCAAACTTTCTTCTTTCTTCACCAAACCCTTCTTCTCTATTTACACTAAACGCTCTTCCAAAGAAATTCACTAAATCCAACAAACTCAGAACCTTAACTGTATCCAAATCCAATAACAGTGATTCAGCTGATGCTAGTGACCGTTTAATTTCAGCTCTTTGTTACTTCTACCCCTTTTTTGATGGCATTCAATATGGAAAATTTGTAATCACTCAATTTTACCCAATTCAAGCCATTGTTCAACCATTGATTCCTGCAATTAGGGTTTTTAAAAGCTTTCCCTTTAATGGGTTTCTTGTGTTTTTGACACTTTACTTTTTTGTTGTCAGAAACCCTAATTTCAGTAAATATGTCAGGTTCAATACAATGCAAGCTATTGTTCTTGATGTGCTGTTGATTTTTCCTGATCTTTTGGAAAGAGGGTTTAATCCAAGAGGTGGGTTTGGATTGGATTTGTTGATGAGTTTGGATAGCACTGTGTTTTTGTTCTTGTTGGTGTGTTTGATTTATGGCTCTTCTTCTTGCATTTTGGGTCAGCTACCTAGGTTGCCTATTGTTGCTGATGCTGCTGATAGGCAAGTTATGTGA

Protein sequence

>Msa1435910

MASSTLFSSVSIASLSHSRKPLQSNFLLSSPNPSSLFTLNALPKKFTKSNKLRTLTVSKSNNSDSADASDRLISALCYFYPFFDGIQYGKFVITQFYPIQAIVQPLIPAIRVFKSFPFNGFLVFLTLYFFVVRNPNFSKYVRFNTMQAIVLDVLLIFPDLLERGFNPRGGFGLDLLMSLDSTVFLFLLVCLIYGSSSCILGQLPRLPIVADAADRQVM*