AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1372150


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1372150 MtrunA17_Chr1g0150771 100.000 93 0 0 1 93 378 470 3.95e-63 199
Msa1372150 MtrunA17_Chr4g0070891 70.000 90 26 1 3 92 331 419 4.20e-41 140
Msa1372150 MtrunA17_Chr2g0299761 81.356 59 11 0 36 94 1 59 1.14e-33 112
Msa1372150 MtrunA17_Chr1g0212591 36.275 102 49 2 3 88 232 333 3.83e-13 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1372150 AT5G12010.1 79.570 93 19 0 1 93 345 437 2.42e-51 168
Msa1372150 AT4G29780.1 68.478 92 29 0 1 92 383 474 7.38e-41 140

Find 18 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGGATTGTTGGTAGTTC+AGG 0.230857 tig0019271:+90808 Msa1372150:CDS
TAGTTCAGGGTATCCTTTAA+TGG 0.269828 tig0019271:+90822 Msa1372150:CDS
CTCAAAGGTGTTTGGATTGT+TGG 0.301353 tig0019271:+90799 Msa1372150:CDS
AGGGTATCCTTTAATGGATT+GGG 0.331257 tig0019271:+90828 Msa1372150:CDS
ACTAAAACCCAATCCATTAA+AGG 0.331503 tig0019271:-90835 None:intergenic
GAGGACTTCTCAAAGGTGTT+TGG 0.343408 tig0019271:+90791 Msa1372150:CDS
CAGGGTATCCTTTAATGGAT+TGG 0.376667 tig0019271:+90827 Msa1372150:CDS
GGTGGTCTTGTTTGCAGAAA+AGG 0.390719 tig0019271:+90962 Msa1372150:CDS
TTTGGATTGTTGGTAGTTCA+GGG 0.411269 tig0019271:+90809 Msa1372150:CDS
ATACTCAACAAAATCTTACT+TGG 0.425165 tig0019271:+90863 Msa1372150:CDS
CATGGTTTCAATGAGAAGAT+TGG 0.432259 tig0019271:+90892 Msa1372150:CDS
GATGCATTTGCTAGATTGAA+AGG 0.474433 tig0019271:+90937 Msa1372150:CDS
TCTCACAAATGTTAAGCTAC+TGG 0.493745 tig0019271:-91009 None:intergenic
CATTTGCTAGATTGAAAGGT+AGG 0.539789 tig0019271:+90941 Msa1372150:CDS
TTTCAAAGGGCTAATAATGG+AGG 0.561620 tig0019271:+90772 Msa1372150:CDS
AATCTTACTTGGACACAACA+TGG 0.563523 tig0019271:+90874 Msa1372150:CDS
AATAATGGAGGACTTCTCAA+AGG 0.617005 tig0019271:+90784 Msa1372150:CDS
TTGCTAGATTGAAAGGTAGG+TGG 0.638704 tig0019271:+90944 Msa1372150:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAAGATTTTGTTGAGTATA+AGG - tig0019271:90862-90881 None:intergenic 25.0%
! ATACTCAACAAAATCTTACT+TGG + tig0019271:90863-90882 Msa1372150:CDS 25.0%
! TTTTCTAACACTTGATCATC+AGG - tig0019271:90742-90761 None:intergenic 30.0%
!!! AAAAATCAGCGCTTTTTCAA+AGG + tig0019271:90758-90777 Msa1372150:CDS 30.0%
!!! AAAATCAGCGCTTTTTCAAA+GGG + tig0019271:90759-90778 Msa1372150:CDS 30.0%
!!! CTTTTTCAAAGGGCTAATAA+TGG + tig0019271:90769-90788 Msa1372150:CDS 30.0%
ACTAAAACCCAATCCATTAA+AGG - tig0019271:90838-90857 None:intergenic 30.0%
TTTCAAAGGGCTAATAATGG+AGG + tig0019271:90772-90791 Msa1372150:CDS 35.0%
! AATAATGGAGGACTTCTCAA+AGG + tig0019271:90784-90803 Msa1372150:CDS 35.0%
!! TTTGGATTGTTGGTAGTTCA+GGG + tig0019271:90809-90828 Msa1372150:CDS 35.0%
! TAGTTCAGGGTATCCTTTAA+TGG + tig0019271:90822-90841 Msa1372150:CDS 35.0%
!! AGGGTATCCTTTAATGGATT+GGG + tig0019271:90828-90847 Msa1372150:CDS 35.0%
AATCTTACTTGGACACAACA+TGG + tig0019271:90874-90893 Msa1372150:CDS 35.0%
CATGGTTTCAATGAGAAGAT+TGG + tig0019271:90892-90911 Msa1372150:CDS 35.0%
! GATGCATTTGCTAGATTGAA+AGG + tig0019271:90937-90956 Msa1372150:CDS 35.0%
! CATTTGCTAGATTGAAAGGT+AGG + tig0019271:90941-90960 Msa1372150:CDS 35.0%
!! CTCAAAGGTGTTTGGATTGT+TGG + tig0019271:90799-90818 Msa1372150:CDS 40.0%
!! GTTTGGATTGTTGGTAGTTC+AGG + tig0019271:90808-90827 Msa1372150:CDS 40.0%
! CAGGGTATCCTTTAATGGAT+TGG + tig0019271:90827-90846 Msa1372150:CDS 40.0%
TTGCTAGATTGAAAGGTAGG+TGG + tig0019271:90944-90963 Msa1372150:CDS 40.0%
!! GAGGACTTCTCAAAGGTGTT+TGG + tig0019271:90791-90810 Msa1372150:CDS 45.0%
!! GGTGGTCTTGTTTGCAGAAA+AGG + tig0019271:90962-90981 Msa1372150:CDS 45.0%
Chromosome Type Strat End Strand Name
tig0019271 gene 90736 91020 90736 ID=Msa1372150;Name=Msa1372150
tig0019271 mRNA 90736 91020 90736 ID=Msa1372150-mRNA-1;Parent=Msa1372150;Name=Msa1372150-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|-1|0|1|-1|1|1|0|94
tig0019271 exon 90736 91020 90736 ID=Msa1372150-mRNA-1:exon:2588;Parent=Msa1372150-mRNA-1
tig0019271 CDS 90736 91020 90736 ID=Msa1372150-mRNA-1:cds;Parent=Msa1372150-mRNA-1
Gene Sequence

>Msa1372150

ATGCCTGATGATCAAGTGTTAGAAAAATCAGCGCTTTTTCAAAGGGCTAATAATGGAGGACTTCTCAAAGGTGTTTGGATTGTTGGTAGTTCAGGGTATCCTTTAATGGATTGGGTTTTAGTACCTTATACTCAACAAAATCTTACTTGGACACAACATGGTTTCAATGAGAAGATTGGTGAGATACAAAAAGTTGCTAAAGATGCATTTGCTAGATTGAAAGGTAGGTGGTCTTGTTTGCAGAAAAGGACTGAAGTTAAGCTACAAGATTTGCCAGTAGCTTAA

Protein sequence

>Msa1372150

MPDDQVLEKSALFQRANNGGLLKGVWIVGSSGYPLMDWVLVPYTQQNLTWTQHGFNEKIGEIQKVAKDAFARLKGRWSCLQKRTEVKLQDLPVA*