AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003299

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003299 MtrunA17_Chr1g0183741 96.610 59 2 0 1 59 1 59 1.07e-37 125
MsaG003299 MtrunA17_Chr7g0261411 88.136 59 7 0 1 59 1 59 2.50e-33 114
MsaG003299 MtrunA17_Chr2g0309891 53.846 52 24 0 9 60 5 56 2.11e-15 67.8
MsaG003299 MtrunA17_Chr4g0060931 49.091 55 28 0 5 59 12 66 2.24e-15 67.8
MsaG003299 MtrunA17_Chr5g0433781 56.250 48 21 0 9 56 5 52 4.44e-15 67.4
MsaG003299 MtrunA17_Chr3g0109821 56.250 48 21 0 9 56 5 52 4.72e-15 67.0
MsaG003299 MtrunA17_Chr3g0091921 54.000 50 23 0 10 59 16 65 1.52e-14 65.5
MsaG003299 MtrunA17_Chr6g0481091 50.980 51 25 0 10 60 6 56 1.57e-14 64.7
MsaG003299 MtrunA17_Chr3g0113011 50.000 48 24 0 9 56 18 65 1.63e-14 61.2
MsaG003299 MtrunA17_Chr2g0316971 53.061 49 23 0 8 56 21 69 2.19e-14 65.1
MsaG003299 MtrunA17_Chr2g0318101 50.980 51 25 0 9 59 14 64 3.43e-14 64.7
MsaG003299 MtrunA17_Chr6g0453451 53.191 47 22 0 10 56 20 66 4.31e-14 64.3
MsaG003299 MtrunA17_Chr2g0312321 54.902 51 21 1 6 56 7 55 5.35e-14 63.9
MsaG003299 MtrunA17_Chr3g0124761 55.319 47 21 0 10 56 7 53 8.39e-14 63.2
MsaG003299 MtrunA17_Chr1g0147421 46.429 56 29 1 2 56 19 74 1.17e-13 63.2
MsaG003299 MtrunA17_Chr2g0326361 52.083 48 23 0 9 56 13 60 1.30e-13 62.8
MsaG003299 MtrunA17_Chr7g0263931 50.980 51 25 0 10 60 11 61 1.90e-13 62.4
MsaG003299 MtrunA17_Chr7g0252971 49.020 51 26 0 9 59 7 57 2.46e-13 62.0
MsaG003299 MtrunA17_Chr4g0054791 48.148 54 28 0 7 60 3 56 2.50e-13 62.0
MsaG003299 MtrunA17_Chr4g0047841 52.000 50 24 0 10 59 15 64 2.72e-13 62.0
MsaG003299 MtrunA17_Chr2g0318081 46.032 63 30 1 1 59 3 65 4.67e-13 61.2
MsaG003299 MtrunA17_Chr6g0484441 50.000 48 24 0 9 56 4 51 5.57e-13 61.2
MsaG003299 MtrunA17_Chr5g0398971 50.000 48 24 0 8 55 5 52 7.16e-13 60.8
MsaG003299 MtrunA17_Chr3g0113041 51.163 43 21 0 14 56 23 65 7.43e-13 57.0
MsaG003299 MtrunA17_Chr3g0139331 50.000 48 24 0 9 56 10 57 9.12e-13 60.5
MsaG003299 MtrunA17_Chr5g0400461 46.296 54 29 0 7 60 3 56 1.09e-12 60.5
MsaG003299 MtrunA17_Chr3g0130731 49.020 51 26 0 10 60 7 57 1.43e-12 59.7
MsaG003299 MtrunA17_Chr5g0405211 52.083 48 23 0 8 55 6 53 1.66e-12 59.7
MsaG003299 MtrunA17_Chr4g0042561 44.898 49 27 0 8 56 7 55 1.74e-12 59.3
MsaG003299 MtrunA17_Chr7g0253011 46.154 52 28 0 5 56 12 63 2.15e-12 59.7
MsaG003299 MtrunA17_Chr2g0309331 48.936 47 24 0 9 55 9 55 3.88e-12 58.9
MsaG003299 MtrunA17_Chr6g0461661 48.936 47 24 0 10 56 18 64 4.84e-12 58.5
MsaG003299 MtrunA17_Chr8g0359921 50.000 48 24 0 9 56 13 60 7.00e-12 58.2
MsaG003299 MtrunA17_Chr5g0417791 44.681 47 26 0 10 56 3 49 7.56e-12 57.8
MsaG003299 MtrunA17_Chr3g0144271 49.020 51 25 1 10 59 23 73 7.87e-12 58.2
MsaG003299 MtrunA17_Chr8g0384721 49.020 51 26 0 10 60 7 57 1.12e-11 57.4
MsaG003299 MtrunA17_Chr4g0056541 45.833 48 26 0 8 55 5 52 1.22e-11 57.4
MsaG003299 MtrunA17_Chr4g0018391 47.917 48 25 0 8 55 5 52 1.23e-11 57.4
MsaG003299 MtrunA17_Chr7g0214071 48.936 47 24 0 10 56 15 61 1.50e-11 57.0
MsaG003299 MtrunA17_Chr8g0345691 47.059 51 26 1 10 59 12 62 2.83e-11 56.6
MsaG003299 MtrunA17_Chr8g0346001 41.667 48 28 0 8 55 13 60 4.11e-11 55.8
MsaG003299 MtrunA17_Chr4g0017921 47.826 46 24 0 10 55 8 53 4.98e-11 55.8
MsaG003299 MtrunA17_Chr8g0372121 47.917 48 25 0 8 55 4 51 5.15e-11 55.5
MsaG003299 MtrunA17_Chr1g0197351 46.809 47 25 0 9 55 41 87 5.43e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003299 AT4G28530.2 54.167 72 17 2 1 56 1 72 1.11e-19 79.7
MsaG003299 AT4G28530.1 54.167 72 17 2 1 56 1 72 1.97e-19 79.3
MsaG003299 AT1G65910.1 56.250 48 21 0 9 56 5 52 1.30e-15 69.3
MsaG003299 AT3G04070.1 48.214 56 29 0 4 59 4 59 2.58e-15 68.2
MsaG003299 AT5G17260.1 54.167 48 22 0 9 56 5 52 2.92e-15 68.2
MsaG003299 AT3G04070.2 48.214 56 29 0 4 59 4 59 3.62e-15 67.8
MsaG003299 AT5G53950.1 55.319 47 21 0 10 56 17 63 5.94e-15 67.0
MsaG003299 AT3G03200.1 54.167 48 22 0 9 56 5 52 6.07e-15 67.4
MsaG003299 AT3G18400.1 49.020 51 26 0 9 59 4 54 2.14e-14 65.5
MsaG003299 AT5G61430.1 52.000 50 24 0 10 59 16 65 2.43e-14 65.5
MsaG003299 AT3G17730.1 50.980 51 25 0 10 60 6 56 4.85e-14 63.9
MsaG003299 AT1G54330.1 51.923 52 25 0 9 60 5 56 5.71e-14 64.3
MsaG003299 AT5G07680.2 52.000 50 24 0 10 59 3 52 6.04e-14 64.3
MsaG003299 AT5G07680.1 49.091 55 28 0 5 59 12 66 6.12e-14 64.3
MsaG003299 AT5G04395.1 46.667 60 32 0 1 60 19 78 2.88e-13 60.8
MsaG003299 AT3G15500.1 46.875 64 30 1 1 60 1 64 3.55e-13 62.0
MsaG003299 AT2G24430.2 47.917 48 25 0 9 56 15 62 3.68e-13 62.0
MsaG003299 AT2G24430.1 47.917 48 25 0 9 56 15 62 3.68e-13 62.0
MsaG003299 AT3G15170.1 46.809 47 25 0 10 56 20 66 3.79e-13 62.0
MsaG003299 AT1G01720.1 50.980 51 25 0 10 60 7 57 5.94e-13 61.2
MsaG003299 AT5G66300.1 51.923 52 25 0 4 55 6 57 9.02e-13 60.8
MsaG003299 AT1G52890.1 54.167 48 22 0 9 56 13 60 1.20e-12 60.5
MsaG003299 AT4G36160.2 49.020 51 26 0 5 55 9 59 1.25e-12 60.5
MsaG003299 AT4G36160.1 49.020 51 26 0 5 55 5 55 1.29e-12 60.5
MsaG003299 AT4G36160.3 49.020 51 26 0 5 55 5 55 1.29e-12 60.5
MsaG003299 AT2G18060.3 53.191 47 22 0 9 55 8 54 1.69e-12 60.1
MsaG003299 AT2G18060.1 53.191 47 22 0 9 55 8 54 1.69e-12 60.1
MsaG003299 AT5G18270.2 50.000 50 25 0 10 59 21 70 1.94e-12 60.1
MsaG003299 AT5G18270.1 51.064 47 23 0 10 56 21 67 2.26e-12 59.7
MsaG003299 AT1G61110.1 48.387 62 29 1 1 59 4 65 2.93e-12 59.3
MsaG003299 AT4G27410.2 43.750 64 32 1 1 60 1 64 3.17e-12 59.3
MsaG003299 AT3G10490.1 44.828 58 32 0 2 59 19 76 3.26e-12 58.9
MsaG003299 AT3G29035.1 52.000 50 24 0 10 59 24 73 3.75e-12 59.3
MsaG003299 AT4G27410.3 45.000 60 29 1 1 56 1 60 3.78e-12 59.3
MsaG003299 AT3G12977.1 46.296 54 29 0 6 59 14 67 4.43e-12 58.9
MsaG003299 AT3G10490.2 44.828 58 32 0 2 59 19 76 4.52e-12 58.9
MsaG003299 AT1G76420.1 50.980 51 25 0 9 59 21 71 5.71e-12 58.5
MsaG003299 AT1G79580.3 48.936 47 24 0 9 55 16 62 6.27e-12 58.5
MsaG003299 AT1G79580.5 48.936 47 24 0 9 55 16 62 6.27e-12 58.5
MsaG003299 AT1G79580.4 48.936 47 24 0 9 55 16 62 6.27e-12 58.5
MsaG003299 AT1G79580.2 48.936 47 24 0 9 55 16 62 6.27e-12 58.5
MsaG003299 AT1G79580.1 48.936 47 24 0 9 55 16 62 6.27e-12 58.5
MsaG003299 AT5G39610.1 52.000 50 24 0 10 59 20 69 1.03e-11 57.8
MsaG003299 AT1G33280.1 52.174 46 22 0 10 55 8 53 1.22e-11 57.8
MsaG003299 AT2G33480.1 48.936 47 24 0 10 56 15 61 1.39e-11 57.4
MsaG003299 AT1G12260.1 47.917 48 25 0 8 55 5 52 1.43e-11 57.8
MsaG003299 AT5G46590.1 43.396 53 30 0 8 60 4 56 1.44e-11 57.4
MsaG003299 AT2G33480.2 48.936 47 24 0 10 56 15 61 1.57e-11 57.4
MsaG003299 AT3G04060.1 48.000 50 26 0 10 59 20 69 1.67e-11 57.4
MsaG003299 AT1G12260.2 47.917 48 25 0 8 55 5 52 1.78e-11 57.4
MsaG003299 AT5G46590.2 43.396 53 30 0 8 60 4 56 1.83e-11 57.0
MsaG003299 AT5G13180.1 46.809 47 25 0 10 56 14 60 2.26e-11 56.6
MsaG003299 AT4G17980.2 45.283 53 29 0 8 60 4 56 2.58e-11 56.6
MsaG003299 AT4G17980.1 45.283 53 29 0 8 60 4 56 2.88e-11 56.6
MsaG003299 AT3G10480.1 45.283 53 29 0 7 59 24 76 2.98e-11 56.6
MsaG003299 AT3G10480.2 45.283 53 29 0 7 59 24 76 3.04e-11 56.6
MsaG003299 AT4G10350.1 50.000 46 23 0 10 55 9 54 3.41e-11 56.6
MsaG003299 AT5G24590.2 51.923 52 25 0 8 59 11 62 5.11e-11 56.2
MsaG003299 AT3G61910.1 45.833 48 26 0 8 55 9 56 5.88e-11 55.8
MsaG003299 AT1G56010.2 47.273 55 28 1 6 59 15 69 6.27e-11 55.8
MsaG003299 AT3G10500.1 50.000 48 24 0 9 56 8 55 6.76e-11 55.8
MsaG003299 AT1G33060.1 52.083 48 23 0 9 56 23 70 8.17e-11 55.5
MsaG003299 AT1G33060.2 52.083 48 23 0 9 56 23 70 8.18e-11 55.5
MsaG003299 AT1G32510.1 45.455 55 30 0 6 60 2 56 8.30e-11 55.5
MsaG003299 AT1G77450.1 48.214 56 27 1 7 60 5 60 9.53e-11 55.1

Find 15 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCGAGCCTTGGCAACTTCC+TGG 0.343644 1:+54532484 MsaT003299.1:CDS
TTATCCTAGTGATGAAGAAT+TGG 0.381724 1:+54532384 MsaT003299.1:CDS
CTAGGATAAAATCGAAAGCC+AGG 0.494510 1:-54532370 None:intergenic
CACAAATGAGGATGTTCTCA+AGG 0.510472 1:+54532432 MsaT003299.1:CDS
ACTTGCATACATGCGAGCCT+TGG 0.522819 1:+54532473 MsaT003299.1:CDS
GGATGTTCTCAAGGGTACCT+TGG 0.551085 1:+54532441 MsaT003299.1:CDS
TGTTCTCAAGGGTACCTTGG+AGG 0.553598 1:+54532444 MsaT003299.1:CDS
AGGACCAATTCTTCATCACT+AGG 0.581995 1:-54532388 None:intergenic
ATCATGGGTCTTAGAGATGT+CGG 0.583109 1:+54532334 None:intergenic
TATATACCAGGAAGTTGCCA+AGG 0.602199 1:-54532490 None:intergenic
TAGGATAAAATCGAAAGCCA+GGG 0.604860 1:-54532369 None:intergenic
ATGCAAGTCAATTTCCTCCA+AGG 0.605909 1:-54532458 None:intergenic
ACAAATGAGGATGTTCTCAA+GGG 0.646017 1:+54532433 MsaT003299.1:CDS
AGGATAAAATCGAAAGCCAG+GGG 0.675897 1:-54532368 None:intergenic
GGATAAAATCGAAAGCCAGG+GGG 0.720221 1:-54532367 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 54532337 54534733 54532337 ID=MsaG003299
Chr1 mRNA 54532337 54534733 54532337 ID=MsaT003299.1;Parent=MsaG003299
Chr1 exon 54532337 54532505 54532337 ID=MsaT003299.1.exon1;Parent=MsaT003299.1
Chr1 CDS 54532337 54532505 54532337 ID=cds.MsaT003299.1;Parent=MsaT003299.1
Chr1 exon 54534717 54534733 54534717 ID=MsaT003299.1.exon2;Parent=MsaT003299.1
Chr1 CDS 54534717 54534733 54534717 ID=cds.MsaT003299.1;Parent=MsaT003299.1
Gene Sequence

>MsaT003299.1

ATGGGTCTTAGAGATGTCGGTGCTTCACTTCCCCCTGGCTTTCGATTTTATCCTAGTGATGAAGAATTGGTCCTTCATTACCTTTACAAAAAAATCACAAATGAGGATGTTCTCAAGGGTACCTTGGAGGAAATTGACTTGCATACATGCGAGCCTTGGCAACTTCCTGTTTACGCGTTTGCATAA
Protein sequence

>MsaT003299.1

MGLRDVGASLPPGFRFYPSDEELVLHYLYKKITNEDVLKGTLEEIDLHTCEPWQLPVYAFA*