AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1454300


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1454300 MtrunA17_Chr7g0273811 98.361 183 3 0 1 183 1 183 2.64e-135 375
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1454300 AT1G54500.1 62.121 198 57 7 1 183 1 195 9.04e-65 197

Find 36 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAAAACTGTGCTTATTTA+TGG 0.158905 tig0035128:+561 Msa1454300:CDS
GGGGTTGGTGTAATGGAGTT+TGG 0.242995 tig0035128:-142 None:intergenic
CTTGGTGGAAATTCTCTTAC+TGG 0.257542 tig0035128:+534 Msa1454300:CDS
AACTGAAAACCAGGTGGAAT+TGG 0.298992 tig0035128:-402 None:intergenic
GGGTTGGTGTAATGGAGTTT+GGG 0.326512 tig0035128:-141 None:intergenic
GGAGTTTGGGTTTGAGAGGA+TGG 0.335353 tig0035128:-128 None:intergenic
TTGAAAAGCTTCCAGATGAT+TGG 0.347062 tig0035128:+424 Msa1454300:CDS
TTTGCTCAGAATCAACAATA+TGG 0.354668 tig0035128:+510 Msa1454300:CDS
AGAGGATGGATTTGAGAGAA+AGG 0.359838 tig0035128:-114 None:intergenic
TTTGAGTTTGTTGGAGTGAT+GGG 0.360473 tig0035128:-187 None:intergenic
ATGAAGGGGTTTGAGTTTGT+TGG 0.377386 tig0035128:-196 None:intergenic
TTTGTTGGAGTGATGGGTTT+TGG 0.390206 tig0035128:-181 None:intergenic
AAAGGGAGGGGTTGGTGTAA+TGG 0.410099 tig0035128:-149 None:intergenic
AGTAAAAGTGTTGAAATTGC+TGG 0.415161 tig0035128:+486 Msa1454300:CDS
CAGTGAAGTTTCGTGGATGA+AGG 0.418966 tig0035128:-212 None:intergenic
GTTTGAGTTTGTTGGAGTGA+TGG 0.421219 tig0035128:-188 None:intergenic
AGGAGTTGAGAGATGGAAAG+TGG 0.425190 tig0035128:-94 None:intergenic
GTGGGACATCTCCAATCATC+TGG 0.448648 tig0035128:-435 None:intergenic
GAGTTTACAGTGAAGTTTCG+TGG 0.451202 tig0035128:-219 None:intergenic
CAGAATCAACAATATGGTCT+TGG 0.468077 tig0035128:+516 Msa1454300:CDS
AAGTTCGCTGTGTTGAATAC+AGG 0.478954 tig0035128:+318 Msa1454300:CDS
AATCAACAATATGGTCTTGG+TGG 0.481663 tig0035128:+519 Msa1454300:CDS
GAGAGAAAGGAGTTGAGAGA+TGG 0.493471 tig0035128:-101 None:intergenic
AGTGAAGTTTCGTGGATGAA+GGG 0.530603 tig0035128:-211 None:intergenic
CCTTCGTATCCAATTCCACC+TGG 0.534697 tig0035128:+393 Msa1454300:CDS
TAATGGAGTTTGGGTTTGAG+AGG 0.568113 tig0035128:-132 None:intergenic
ACTTTGTGCAGCACCACAAG+TGG 0.579838 tig0035128:-454 None:intergenic
GGTGGAAATTCTCTTACTGG+TGG 0.584178 tig0035128:+537 Msa1454300:CDS
CCAGGTGGAATTGGATACGA+AGG 0.592505 tig0035128:-393 None:intergenic
GTGAAGTTTCGTGGATGAAG+GGG 0.593003 tig0035128:-210 None:intergenic
TATAAATATGATGAAGGTGT+AGG 0.596708 tig0035128:+366 Msa1454300:CDS
TGTGGTTATAAATATGATGA+AGG 0.597525 tig0035128:+360 Msa1454300:CDS
ATCTATGAATGTCGTTCATG+TGG 0.599864 tig0035128:+342 Msa1454300:CDS
GATTGGAGATGTCCCACTTG+TGG 0.648504 tig0035128:+441 Msa1454300:CDS
CTTTGTGCAGCACCACAAGT+GGG 0.685384 tig0035128:-453 None:intergenic
CAGGTGGAATTGGATACGAA+GGG 0.702702 tig0035128:-392 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGTGGTTATAAATATGATGA+AGG + tig0035128:360-379 Msa1454300:CDS 25.0%
!! TATAAATATGATGAAGGTGT+AGG + tig0035128:366-385 Msa1454300:CDS 25.0%
!! AGTAAAAGTGTTGAAATTGC+TGG + tig0035128:486-505 Msa1454300:CDS 30.0%
TTTGCTCAGAATCAACAATA+TGG + tig0035128:510-529 Msa1454300:CDS 30.0%
CAGAAAACTGTGCTTATTTA+TGG + tig0035128:561-580 Msa1454300:CDS 30.0%
!!! GGTTTTGGAAAGGAGAAAAA+GGG - tig0035128:169-188 None:intergenic 35.0%
!! TTTGAGTTTGTTGGAGTGAT+GGG - tig0035128:190-209 None:intergenic 35.0%
ATCTATGAATGTCGTTCATG+TGG + tig0035128:342-361 Msa1454300:CDS 35.0%
! TTTTCAAACTGAAAACCAGG+TGG - tig0035128:411-430 None:intergenic 35.0%
! AGCTTTTCAAACTGAAAACC+AGG - tig0035128:414-433 None:intergenic 35.0%
TTGAAAAGCTTCCAGATGAT+TGG + tig0035128:424-443 Msa1454300:CDS 35.0%
CAGAATCAACAATATGGTCT+TGG + tig0035128:516-535 Msa1454300:CDS 35.0%
! AATCAACAATATGGTCTTGG+TGG + tig0035128:519-538 Msa1454300:CDS 35.0%
!!! TTCTTTGCACTTTTTCTCAG+TGG + tig0035128:597-616 Msa1454300:CDS 35.0%
! AGAGGATGGATTTGAGAGAA+AGG - tig0035128:117-136 None:intergenic 40.0%
! TAATGGAGTTTGGGTTTGAG+AGG - tig0035128:135-154 None:intergenic 40.0%
TTGGAAAGGAGAAAAAGGGA+GGG - tig0035128:165-184 None:intergenic 40.0%
TTTGGAAAGGAGAAAAAGGG+AGG - tig0035128:166-185 None:intergenic 40.0%
!!! GGGTTTTGGAAAGGAGAAAA+AGG - tig0035128:170-189 None:intergenic 40.0%
!!! TTTGTTGGAGTGATGGGTTT+TGG - tig0035128:184-203 None:intergenic 40.0%
!! GTTTGAGTTTGTTGGAGTGA+TGG - tig0035128:191-210 None:intergenic 40.0%
! ATGAAGGGGTTTGAGTTTGT+TGG - tig0035128:199-218 None:intergenic 40.0%
AGTGAAGTTTCGTGGATGAA+GGG - tig0035128:214-233 None:intergenic 40.0%
GAGTTTACAGTGAAGTTTCG+TGG - tig0035128:222-241 None:intergenic 40.0%
! AAACGACGTTTTTCTGAGTC+GGG - tig0035128:291-310 None:intergenic 40.0%
! CAAACGACGTTTTTCTGAGT+CGG - tig0035128:292-311 None:intergenic 40.0%
AAGTTCGCTGTGTTGAATAC+AGG + tig0035128:318-337 Msa1454300:CDS 40.0%
AACTGAAAACCAGGTGGAAT+TGG - tig0035128:405-424 None:intergenic 40.0%
CTTGGTGGAAATTCTCTTAC+TGG + tig0035128:534-553 Msa1454300:CDS 40.0%
AGGAGTTGAGAGATGGAAAG+TGG - tig0035128:97-116 None:intergenic 45.0%
GAGAGAAAGGAGTTGAGAGA+TGG - tig0035128:104-123 None:intergenic 45.0%
!! GGGTTGGTGTAATGGAGTTT+GGG - tig0035128:144-163 None:intergenic 45.0%
TGGAAAGGAGAAAAAGGGAG+GGG - tig0035128:164-183 None:intergenic 45.0%
!!! TGGAGTGATGGGTTTTGGAA+AGG - tig0035128:179-198 None:intergenic 45.0%
GTGAAGTTTCGTGGATGAAG+GGG - tig0035128:213-232 None:intergenic 45.0%
CAGTGAAGTTTCGTGGATGA+AGG - tig0035128:215-234 None:intergenic 45.0%
CGACTCAGAAAAACGTCGTT+TGG + tig0035128:290-309 Msa1454300:CDS 45.0%
CAGGTGGAATTGGATACGAA+GGG - tig0035128:395-414 None:intergenic 45.0%
GGTGGAAATTCTCTTACTGG+TGG + tig0035128:537-556 Msa1454300:CDS 45.0%
! GGAGTTTGGGTTTGAGAGGA+TGG - tig0035128:131-150 None:intergenic 50.0%
!! GGGGTTGGTGTAATGGAGTT+TGG - tig0035128:145-164 None:intergenic 50.0%
!! AAAGGGAGGGGTTGGTGTAA+TGG - tig0035128:152-171 None:intergenic 50.0%
AAGGAGAAAAAGGGAGGGGT+TGG - tig0035128:160-179 None:intergenic 50.0%
CCAGGTGGAATTGGATACGA+AGG - tig0035128:396-415 None:intergenic 50.0%
CCTTCGTATCCAATTCCACC+TGG + tig0035128:393-412 Msa1454300:CDS 50.0%
GTGGGACATCTCCAATCATC+TGG - tig0035128:438-457 None:intergenic 50.0%
GATTGGAGATGTCCCACTTG+TGG + tig0035128:441-460 Msa1454300:CDS 50.0%
CTTTGTGCAGCACCACAAGT+GGG - tig0035128:456-475 None:intergenic 50.0%
ACTTTGTGCAGCACCACAAG+TGG - tig0035128:457-476 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
tig0035128 gene 84 635 84 ID=Msa1454300;Name=Msa1454300
tig0035128 mRNA 84 635 84 ID=Msa1454300-mRNA-1;Parent=Msa1454300;Name=Msa1454300-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|183
tig0035128 exon 84 635 84 ID=Msa1454300-mRNA-1:exon:19653;Parent=Msa1454300-mRNA-1
tig0035128 CDS 84 635 84 ID=Msa1454300-mRNA-1:cds;Parent=Msa1454300-mRNA-1
Gene Sequence

>Msa1454300

ATGGCTGCTTCCACTTTCCATCTCTCAACTCCTTTCTCTCAAATCCATCCTCTCAAACCCAAACTCCATTACACCAACCCCTCCCTTTTTCTCCTTTCCAAAACCCATCACTCCAACAAACTCAAACCCCTTCATCCACGAAACTTCACTGTAAACTCTGTAGACATCTCAAATGAAGAAGATACAACTTCAGAGTCTGAAAAACCCGACTCAGAAAAACGTCGTTTGGAAGAAAAGTTCGCTGTGTTGAATACAGGAATCTATGAATGTCGTTCATGTGGTTATAAATATGATGAAGGTGTAGGTGACCCTTCGTATCCAATTCCACCTGGTTTTCAGTTTGAAAAGCTTCCAGATGATTGGAGATGTCCCACTTGTGGTGCTGCACAAAGTTTCTTTGAAAGTAAAAGTGTTGAAATTGCTGGTTTTGCTCAGAATCAACAATATGGTCTTGGTGGAAATTCTCTTACTGGTGGTCAGAAAACTGTGCTTATTTATGGTACTTTGTTGTTTTTCTTTGCACTTTTTCTCAGTGGCTACTTCATACAATAG

Protein sequence

>Msa1454300

MAASTFHLSTPFSQIHPLKPKLHYTNPSLFLLSKTHHSNKLKPLHPRNFTVNSVDISNEEDTTSESEKPDSEKRRLEEKFAVLNTGIYECRSCGYKYDEGVGDPSYPIPPGFQFEKLPDDWRCPTCGAAQSFFESKSVEIAGFAQNQQYGLGGNSLTGGQKTVLIYGTLLFFFALFLSGYFIQ*