AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003570

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003570 MtrunA17_Chr1g0187231 96.774 93 3 0 1 93 1 93 5.11e-64 191
MsaG003570 MtrunA17_Chr7g0239441 64.286 56 17 1 11 63 30 85 1.75e-18 75.1
MsaG003570 MtrunA17_Chr4g0032111 50.633 79 26 2 8 73 10 88 2.77e-17 72.4
MsaG003570 MtrunA17_Chr1g0168181 60.317 63 18 3 1 56 5 67 3.32e-16 69.3
MsaG003570 MtrunA17_Chr1g0184331 78.947 38 8 0 14 51 34 71 7.89e-16 67.8
MsaG003570 MtrunA17_Chr4g0009461 69.444 36 11 0 18 53 59 94 1.19e-13 64.7
MsaG003570 MtrunA17_Chr5g0400571 53.704 54 24 1 12 64 74 127 1.31e-13 63.9
MsaG003570 MtrunA17_Chr3g0112181 67.568 37 12 0 18 54 55 91 5.76e-12 59.7
MsaG003570 MtrunA17_Chr1g0184381 68.750 32 10 0 18 49 35 66 1.64e-11 57.4
MsaG003570 MtrunA17_Chr5g0435711 52.727 55 20 2 18 66 47 101 2.21e-11 57.8
MsaG003570 MtrunA17_Chr2g0315591 65.625 32 11 0 18 49 50 81 3.33e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003570 AT5G43540.1 68.293 41 13 0 20 60 35 75 1.06e-15 67.8
MsaG003570 AT3G09290.1 83.871 31 5 0 18 48 33 63 1.87e-14 65.5
MsaG003570 AT3G53820.1 83.871 31 5 0 18 48 19 49 1.03e-13 62.8
MsaG003570 AT3G23140.1 55.102 49 21 1 1 48 1 49 8.85e-13 60.8
MsaG003570 AT5G06070.1 52.727 55 26 0 4 58 39 93 1.98e-12 60.8
MsaG003570 AT3G23130.1 68.571 35 11 0 18 52 45 79 2.71e-12 60.5
MsaG003570 AT2G37740.1 50.000 58 23 1 7 58 26 83 3.22e-12 60.8
MsaG003570 AT2G42410.3 43.077 65 20 1 6 53 44 108 1.36e-11 58.9
MsaG003570 AT2G42410.2 43.077 65 20 1 6 53 18 82 1.66e-11 58.2
MsaG003570 AT2G42410.1 43.077 65 20 1 6 53 18 82 1.66e-11 58.2
MsaG003570 AT4G17810.1 55.319 47 18 1 6 49 29 75 2.90e-11 57.4
MsaG003570 AT4G17810.2 68.750 32 10 0 18 49 44 75 3.49e-11 57.0

Find 21 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTCTTCTTCATCACAAAT+TGG 0.256233 1:+59024182 MsaT003570.1:CDS
TCAGAACAAAATTCCTTTGT+TGG 0.304478 1:+59024251 MsaT003570.1:CDS
ATTTGTGATGAAGAAGAATT+TGG 0.304515 1:-59024179 None:intergenic
GGAAATTAAAGGTGGCAAAT+AGG 0.319530 1:+59025361 MsaT003570.1:CDS
TATGTTAAAGGGGAAATTAA+AGG 0.341395 1:+59025350 MsaT003570.1:intron
TTCACAAATGCACAAGCTTT+AGG 0.350501 1:+59024107 MsaT003570.1:CDS
ATGGCAATGATCAAGGAAAA+AGG 0.379483 1:+59024051 MsaT003570.1:CDS
CTACACCAATGATGAAACTA+TGG 0.411572 1:+59024214 MsaT003570.1:CDS
CCTTAGCTCTATCTTTCCTA+TGG 0.421858 1:-59024145 None:intergenic
AAAGACCATAGTTTCATCAT+TGG 0.428141 1:-59024219 None:intergenic
GAATAACCATGCATATTTGA+AGG 0.444582 1:-59024284 None:intergenic
ATGAATTATTCAAGTGAAGA+AGG 0.471381 1:+59024023 MsaT003570.1:CDS
AACCATGCATATTTGAAGGT+TGG 0.490265 1:-59024280 None:intergenic
TCAAGTGAAGAAGGTGATGA+TGG 0.515818 1:+59024032 MsaT003570.1:CDS
GGTGATGATGGCAATGATCA+AGG 0.525173 1:+59024044 MsaT003570.1:CDS
TACCAACCTTCAAATATGCA+TGG 0.566990 1:+59024278 MsaT003570.1:CDS
GTTAAAGGGGAAATTAAAGG+TGG 0.570665 1:+59025353 MsaT003570.1:intron
AGGTTGGTAATTTCCAACAA+AGG 0.601009 1:-59024264 None:intergenic
GTGGTCACATGAATATCCAT+AGG 0.605103 1:+59024129 MsaT003570.1:CDS
CCATAGGAAAGATAGAGCTA+AGG 0.615552 1:+59024145 MsaT003570.1:CDS
ACAAATGCACAAGCTTTAGG+TGG 0.646984 1:+59024110 MsaT003570.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 59024023 59025382 59024023 ID=MsaG003570
Chr1 mRNA 59024023 59025382 59024023 ID=MsaT003570.1;Parent=MsaG003570
Chr1 exon 59024023 59024299 59024023 ID=MsaT003570.1.exon1;Parent=MsaT003570.1
Chr1 CDS 59024023 59024299 59024023 ID=cds.MsaT003570.1;Parent=MsaT003570.1
Chr1 exon 59025360 59025382 59025360 ID=MsaT003570.1.exon2;Parent=MsaT003570.1
Chr1 CDS 59025360 59025382 59025360 ID=cds.MsaT003570.1;Parent=MsaT003570.1
Gene Sequence

>MsaT003570.1

ATGAATTATTCAAGTGAAGAAGGTGATGATGGCAATGATCAAGGAAAAAGGCGTTCTTATGAATGCACATTTTGCAAAAGAGGATTCACAAATGCACAAGCTTTAGGTGGTCACATGAATATCCATAGGAAAGATAGAGCTAAGGCTAGTAAGCAACCAAATTCTTCTTCATCACAAATTGGAAACAAATTCTACACCAATGATGAAACTATGGTCTTTCCTTTTGCTTCAGAACAAAATTCCTTTGTTGGAAATTACCAACCTTCAAATATGCATGGGGAAATTAAAGGTGGCAAATAG
Protein sequence

>MsaT003570.1

MNYSSEEGDDGNDQGKRRSYECTFCKRGFTNAQALGGHMNIHRKDRAKASKQPNSSSSQIGNKFYTNDETMVFPFASEQNSFVGNYQPSNMHGEIKGGK*