AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0261460

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0261460 MtrunA17_Chr2g0323631 90.110 91 9 0 1 91 1 91 2.34e-58 173
Msa0261460 MtrunA17_Chr2g0323571 91.209 91 8 0 1 91 1 91 2.42e-58 173
Msa0261460 MtrunA17_Chr2g0323671 90.110 91 9 0 1 91 1 91 9.03e-58 172
Msa0261460 MtrunA17_Chr4g0022611 72.941 85 20 2 9 91 6 89 2.77e-37 120
Msa0261460 MtrunA17_Chr2g0323701 64.444 90 27 3 5 91 2 89 4.41e-35 115
Msa0261460 MtrunA17_Chr2g0323721 63.953 86 26 3 9 91 6 89 9.81e-33 108
Msa0261460 MtrunA17_Chr2g0323661 65.432 81 22 3 11 91 10 84 3.75e-31 104
Msa0261460 MtrunA17_Chr2g0323601 60.870 92 30 3 5 91 2 92 5.92e-31 104
Msa0261460 MtrunA17_Chr2g0323611 64.198 81 23 3 11 91 10 84 1.10e-30 103
Msa0261460 MtrunA17_Chr2g0323651 60.440 91 31 2 5 91 2 91 5.74e-30 102
Msa0261460 MtrunA17_Chr2g0323711 60.440 91 31 2 5 91 2 91 5.74e-30 102
Msa0261460 MtrunA17_Chr2g0323681 57.292 96 31 2 5 91 2 96 2.48e-28 98.2
Msa0261460 MtrunA17_Chr2g0318611 54.651 86 36 1 5 90 2 84 2.52e-26 92.8
Msa0261460 MtrunA17_Chr2g0318601 52.326 86 38 1 5 90 2 84 1.26e-25 90.9
Msa0261460 MtrunA17_Chr2g0318641 52.747 91 36 3 1 90 31 115 2.16e-25 91.3
Msa0261460 MtrunA17_Chr2g0323551 55.682 88 35 4 6 91 3 88 9.23e-23 84.0
Msa0261460 MtrunA17_Chr2g0318591 47.126 87 43 2 5 91 2 85 4.69e-17 69.3
Msa0261460 MtrunA17_Chr2g0281091 44.737 76 36 3 19 91 17 89 7.16e-11 53.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0261460 AT4G10265.1 65.556 90 23 2 1 90 1 82 8.52e-36 117
Msa0261460 AT4G10270.1 66.292 89 28 1 5 91 2 90 2.27e-35 115

Find 21 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTATTGCTAGCAAATTTA+AGG 0.110379 2_2:+59884309 Msa0261460:CDS
AAGATCAAGCTGGTATTTGC+AGG 0.390816 2_2:+59884200 Msa0261460:CDS
CTATGTACAAATTAATCAAT+TGG 0.391707 2_2:-59884398 None:intergenic
GGATGAGAAGAAGGCAAAAC+AGG 0.400035 2_2:+59884330 Msa0261460:CDS
CTGTCATGTACTTGAGCTGC+TGG 0.406277 2_2:+59884371 Msa0261460:CDS
TTAAATTTGCTAGCAATAAG+TGG 0.408213 2_2:-59884307 None:intergenic
TGTCATGTACTTGAGCTGCT+GGG 0.470465 2_2:+59884372 Msa0261460:CDS
GGCTGCAAGTGTTGGAGTTG+TGG 0.471925 2_2:+59884168 Msa0261460:CDS
TATGTACAAATTAATCAATT+GGG 0.478187 2_2:-59884397 None:intergenic
CAAATTTAAGGATGAGAAGA+AGG 0.496478 2_2:+59884321 Msa0261460:CDS
AGCAACAAGCAAAGCATGGA+TGG 0.538950 2_2:+59884144 Msa0261460:CDS
CAAGTACATGACAGTCCTCA+AGG 0.563012 2_2:-59884362 None:intergenic
GTCATGTACTTGAGCTGCTG+GGG 0.565171 2_2:+59884373 Msa0261460:CDS
CAACAGCAACAAGCAAAGCA+TGG 0.569709 2_2:+59884140 Msa0261460:CDS
TGGATGGTGGCTGCAAGTGT+TGG 0.573709 2_2:+59884160 Msa0261460:CDS
GAAGAAGGCAAAACAGGCAG+AGG 0.577515 2_2:+59884336 Msa0261460:CDS
TGCAAGTGTTGGAGTTGTGG+AGG 0.602761 2_2:+59884171 Msa0261460:CDS
ATCAAGCTGGTATTTGCAGG+TGG 0.636589 2_2:+59884203 Msa0261460:CDS
AACAAGCAAAGCATGGATGG+TGG 0.650577 2_2:+59884147 Msa0261460:CDS
GAGGCATTGAAAGATCAAGC+TGG 0.657595 2_2:+59884190 Msa0261460:CDS
AACAGGCAGAGGAATCCTTG+AGG 0.700969 2_2:+59884347 Msa0261460:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGATCTAACACGATTTTTA+AGG - chr2_2:59884258-59884277 None:intergenic 25.0%
!!! TTAAATTTGCTAGCAATAAG+TGG - chr2_2:59884310-59884329 None:intergenic 25.0%
! ACTTATTGCTAGCAAATTTA+AGG + chr2_2:59884309-59884328 Msa0261460:CDS 25.0%
CAAATTTAAGGATGAGAAGA+AGG + chr2_2:59884321-59884340 Msa0261460:CDS 30.0%
AAGATCAAGCTGGTATTTGC+AGG + chr2_2:59884200-59884219 Msa0261460:CDS 40.0%
CAACAGCAACAAGCAAAGCA+TGG + chr2_2:59884140-59884159 Msa0261460:CDS 45.0%
AGCAACAAGCAAAGCATGGA+TGG + chr2_2:59884144-59884163 Msa0261460:CDS 45.0%
AACAAGCAAAGCATGGATGG+TGG + chr2_2:59884147-59884166 Msa0261460:CDS 45.0%
!! GAGGCATTGAAAGATCAAGC+TGG + chr2_2:59884190-59884209 Msa0261460:CDS 45.0%
ATCAAGCTGGTATTTGCAGG+TGG + chr2_2:59884203-59884222 Msa0261460:CDS 45.0%
GGATGAGAAGAAGGCAAAAC+AGG + chr2_2:59884330-59884349 Msa0261460:CDS 45.0%
CAAGTACATGACAGTCCTCA+AGG - chr2_2:59884365-59884384 None:intergenic 45.0%
TGTCATGTACTTGAGCTGCT+GGG + chr2_2:59884372-59884391 Msa0261460:CDS 45.0%
!! TGCAAGTGTTGGAGTTGTGG+AGG + chr2_2:59884171-59884190 Msa0261460:CDS 50.0%
GAAGAAGGCAAAACAGGCAG+AGG + chr2_2:59884336-59884355 Msa0261460:CDS 50.0%
AACAGGCAGAGGAATCCTTG+AGG + chr2_2:59884347-59884366 Msa0261460:CDS 50.0%
CTGTCATGTACTTGAGCTGC+TGG + chr2_2:59884371-59884390 Msa0261460:CDS 50.0%
GTCATGTACTTGAGCTGCTG+GGG + chr2_2:59884373-59884392 Msa0261460:CDS 50.0%
! TGGATGGTGGCTGCAAGTGT+TGG + chr2_2:59884160-59884179 Msa0261460:CDS 55.0%
!! GGCTGCAAGTGTTGGAGTTG+TGG + chr2_2:59884168-59884187 Msa0261460:CDS 55.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 59884130 59884405 59884130 ID=Msa0261460;Name=Msa0261460
chr2_2 mRNA 59884130 59884405 59884130 ID=Msa0261460-mRNA-1;Parent=Msa0261460;Name=Msa0261460-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|91
chr2_2 exon 59884130 59884405 59884130 ID=Msa0261460-mRNA-1:exon:18421;Parent=Msa0261460-mRNA-1
chr2_2 CDS 59884130 59884405 59884130 ID=Msa0261460-mRNA-1:cds;Parent=Msa0261460-mRNA-1
Gene Sequence

>Msa0261460

ATGAGTAGTGCAACAGCAACAAGCAAAGCATGGATGGTGGCTGCAAGTGTTGGAGTTGTGGAGGCATTGAAAGATCAAGCTGGTATTTGCAGGTGGAACTATGCTTTAAGACAAGCTCAACAACACCTTAAAAATCGTGTTAGATCAATGTCTCAAGCAAAGAATTTCTCTTCTTCTCCACTTATTGCTAGCAAATTTAAGGATGAGAAGAAGGCAAAACAGGCAGAGGAATCCTTGAGGACTGTCATGTACTTGAGCTGCTGGGGTCCCAATTGA
Protein sequence

>Msa0261460

MSSATATSKAWMVAASVGVVEALKDQAGICRWNYALRQAQQHLKNRVRSMSQAKNFSSSPLIASKFKDEKKAKQAEESLRTVMYLSCWGPN*