AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33230

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33230.t1 MTR_7g096610 90.141 71 7 0 1 71 2 72 1.64e-42 137
MS.gene33230.t1 MTR_1g070205 90.625 64 6 0 8 71 13 76 3.76e-39 129
MS.gene33230.t1 MTR_5g080470 63.014 73 27 0 1 73 1 73 2.54e-31 108
MS.gene33230.t1 MTR_7g096530 72.727 66 18 0 6 71 13 78 9.74e-31 107
MS.gene33230.t1 MTR_8g036085 70.312 64 19 0 8 71 24 87 8.80e-28 100
MS.gene33230.t1 MTR_6g027710 65.672 67 23 0 5 71 38 104 9.47e-28 100
MS.gene33230.t1 MTR_8g036105 65.152 66 23 0 8 73 19 84 8.11e-27 97.4
MS.gene33230.t1 MTR_7g074990 68.750 64 20 0 8 71 21 84 5.88e-26 95.5
MS.gene33230.t1 MTR_1g070220 67.188 64 21 0 8 71 16 79 9.60e-26 94.4
MS.gene33230.t1 MTR_7g075230 63.235 68 23 2 8 73 13 80 6.32e-23 86.7
MS.gene33230.t1 MTR_3g452660 53.521 71 32 1 1 71 1 70 1.19e-19 80.1
MS.gene33230.t1 MTR_3g071590 46.377 69 36 1 3 71 4 71 6.28e-19 75.5
MS.gene33230.t1 MTR_5g083230 52.239 67 29 2 6 71 5 69 2.22e-18 74.3
MS.gene33230.t1 MTR_6g027700 53.125 64 30 0 8 71 8 71 2.73e-18 75.1
MS.gene33230.t1 MTR_4g105170 53.030 66 30 1 6 71 10 74 3.06e-18 74.3
MS.gene33230.t1 MTR_5g075020 49.333 75 35 2 3 76 39 111 5.70e-18 74.7
MS.gene33230.t1 MTR_5g083960 46.667 75 37 2 3 76 35 107 7.59e-18 73.6
MS.gene33230.t1 MTR_5g075020 49.333 75 35 2 3 76 43 115 8.14e-18 74.3
MS.gene33230.t1 MTR_3g031660 45.070 71 38 1 1 71 1 70 8.54e-18 73.2
MS.gene33230.t1 MTR_8g040900 48.684 76 38 1 1 76 1 75 1.18e-17 73.6
MS.gene33230.t1 MTR_5g017950 52.857 70 32 1 2 71 3 71 1.82e-17 74.3
MS.gene33230.t1 MTR_3g077240 51.515 66 31 1 6 71 9 73 2.65e-17 72.0
MS.gene33230.t1 MTR_7g033800 51.471 68 32 1 4 71 8 74 2.77e-17 71.6
MS.gene33230.t1 MTR_5g083010 48.529 68 34 1 4 71 8 74 5.12e-17 71.2
MS.gene33230.t1 MTR_4g083680 48.485 66 33 1 6 71 14 78 1.00e-16 70.1
MS.gene33230.t1 MTR_6g005070 48.529 68 34 1 4 71 6 72 1.24e-16 69.3
MS.gene33230.t1 MTR_6g005080 47.059 68 35 1 4 71 7 73 3.07e-16 68.2
MS.gene33230.t1 MTR_3g071420 47.059 68 35 1 4 71 11 77 3.15e-16 69.3
MS.gene33230.t1 MTR_2g068760 45.588 68 36 1 4 71 10 76 3.83e-16 68.6
MS.gene33230.t1 MTR_3g073690 46.970 66 34 1 6 71 8 72 1.42e-15 67.8
MS.gene33230.t1 MTR_3g094690 44.595 74 38 2 4 76 44 115 2.55e-15 67.8
MS.gene33230.t1 MTR_2g093310 44.776 67 36 1 5 71 31 96 5.55e-15 66.2
MS.gene33230.t1 MTR_3g094690 44.595 74 37 3 4 76 44 114 1.41e-13 63.2
MS.gene33230.t1 MTR_4g060950 45.588 68 35 2 5 71 22 88 1.47e-12 59.7
MS.gene33230.t1 MTR_7g028905 37.879 66 40 1 6 71 4 68 1.27e-11 55.8
MS.gene33230.t1 MTR_5g093010 40.625 64 37 1 8 71 6 68 1.32e-11 56.2
MS.gene33230.t1 MTR_8g017090 38.028 71 43 1 4 74 9 78 3.57e-11 57.0
MS.gene33230.t1 MTR_1g095850 45.312 64 34 1 8 71 73 135 4.64e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33230.t1 AT3G58190 82.609 69 12 0 8 76 12 80 1.57e-39 129
MS.gene33230.t1 AT2G42440 78.873 71 15 0 1 71 1 71 2.06e-35 120
MS.gene33230.t1 AT2G31310 72.727 66 18 0 6 71 6 71 1.75e-31 108
MS.gene33230.t1 AT2G42430 69.014 71 22 0 6 76 14 84 6.87e-30 105
MS.gene33230.t1 AT5G06080 64.384 73 26 0 1 73 1 73 9.32e-30 103
MS.gene33230.t1 AT3G03760 69.697 66 20 0 6 71 50 115 8.75e-28 101
MS.gene33230.t1 AT2G45420 69.355 62 19 0 10 71 40 101 5.89e-25 93.6
MS.gene33230.t1 AT4G00210 60.870 69 27 0 8 76 12 80 7.69e-25 92.4
MS.gene33230.t1 AT2G45410 65.625 64 22 0 10 73 19 82 1.35e-24 90.9
MS.gene33230.t1 AT4G00220 67.742 62 20 0 10 71 20 81 3.89e-24 90.5
MS.gene33230.t1 AT1G65620 50.667 75 36 1 2 76 4 77 8.29e-19 76.3
MS.gene33230.t1 AT1G65620 50.667 75 36 1 2 76 4 77 8.29e-19 76.3
MS.gene33230.t1 AT1G65620 50.667 75 36 1 2 76 4 77 8.29e-19 76.3
MS.gene33230.t1 AT1G65620 50.667 75 36 1 2 76 4 77 8.29e-19 76.3
MS.gene33230.t1 AT1G65620 50.667 75 36 1 2 76 4 77 8.29e-19 76.3
MS.gene33230.t1 AT5G66870 53.521 71 32 1 1 71 1 70 7.46e-18 75.5
MS.gene33230.t1 AT5G63090 53.030 66 30 1 6 71 10 74 1.60e-17 72.8
MS.gene33230.t1 AT5G63090 53.030 66 30 1 6 71 10 74 1.60e-17 72.8
MS.gene33230.t1 AT5G63090 53.030 66 30 1 6 71 10 74 1.60e-17 72.8
MS.gene33230.t1 AT5G63090 53.030 66 30 1 6 71 10 74 1.60e-17 72.8
MS.gene33230.t1 AT2G30130 48.485 66 33 1 6 71 7 71 1.85e-17 72.8
MS.gene33230.t1 AT1G31320 46.970 66 34 1 6 71 12 76 2.52e-17 71.6
MS.gene33230.t1 AT2G40470 45.333 75 38 2 3 76 41 113 3.42e-17 72.4
MS.gene33230.t1 AT2G40470 45.333 75 38 2 3 76 16 88 3.54e-17 72.0
MS.gene33230.t1 AT3G27650 51.515 66 31 1 6 71 38 102 4.92e-17 70.9
MS.gene33230.t1 AT3G11090 47.945 73 37 1 4 76 8 79 5.23e-17 70.9
MS.gene33230.t1 AT3G26660 43.750 64 35 1 8 71 6 68 6.92e-16 67.0
MS.gene33230.t1 AT3G26620 43.750 64 35 1 8 71 6 68 8.60e-16 66.6
MS.gene33230.t1 AT2G30340 46.667 75 37 2 3 76 48 120 1.52e-15 68.9
MS.gene33230.t1 AT2G30340 46.667 75 37 2 3 76 49 121 1.67e-15 68.6
MS.gene33230.t1 AT1G07900 46.269 67 35 1 5 71 31 96 1.84e-14 64.7
MS.gene33230.t1 AT1G16530 46.377 69 35 2 4 71 11 78 5.67e-14 63.2
MS.gene33230.t1 AT2G23660 45.455 66 35 1 6 71 4 68 8.91e-14 64.3
MS.gene33230.t1 AT2G23660 45.455 66 35 1 6 71 4 68 8.91e-14 64.3
MS.gene33230.t1 AT2G23660 45.455 66 35 1 6 71 4 68 8.91e-14 64.3
MS.gene33230.t1 AT2G28500 46.269 67 35 1 5 71 53 118 9.94e-14 63.5
MS.gene33230.t1 AT1G06280 34.783 69 44 1 6 74 23 90 2.46e-11 56.6
MS.gene33230.t1 AT3G13850 40.000 65 38 1 7 71 36 99 5.34e-11 56.6
MS.gene33230.t1 AT1G72980 38.806 67 40 1 4 70 10 75 6.26e-11 55.8
MS.gene33230.t1 AT3G50510 42.254 71 40 1 1 71 6 75 7.07e-11 55.5
MS.gene33230.t1 AT3G50510 42.254 71 40 1 1 71 6 75 7.07e-11 55.5

Find 16 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGCTATTCATAAGGTCTT+TGG 0.245994 6.3:-60461435 MS.gene33230:CDS
CCTTATGAATAGCAGCAAAA+TGG 0.265465 6.3:+60461442 None:intergenic
TTTACTCCTCAAGAATTTGC+AGG 0.386003 6.3:+60461518 None:intergenic
ACAACTTCTGTTTCTGCTTG+TGG 0.404550 6.3:-60461543 MS.gene33230:CDS
CTTATGAATAGCAGCAAAAT+GGG 0.445588 6.3:+60461443 None:intergenic
AATGGGTAGCACCTTGTTCA+TGG 0.448967 6.3:+60461460 None:intergenic
CCTTGTTCATGGCAAAAGTA+AGG 0.524451 6.3:+60461471 None:intergenic
TTGAGGAGTAAATGCGGTAG+AGG 0.526696 6.3:-60461507 MS.gene33230:CDS
GCTTCACAACGATCAGTCAC+AGG 0.531664 6.3:+60461378 None:intergenic
GTGGAGCCTGCAAATTCTTG+AGG 0.534107 6.3:-60461524 MS.gene33230:CDS
CAGTCACAGGGAGGTGTGCA+AGG 0.550402 6.3:+60461391 None:intergenic
AGCAGAAACAGAAGTTGTCA+TGG 0.597094 6.3:+60461548 None:intergenic
AATCTCTTATGAAGTCGTCA+TGG 0.626783 6.3:-60461346 MS.gene33230:CDS
CTTCACAACGATCAGTCACA+GGG 0.652040 6.3:+60461379 None:intergenic
AAATTCTTGAGGAGTAAATG+CGG 0.736913 6.3:-60461513 MS.gene33230:CDS
CACAACGATCAGTCACAGGG+AGG 0.754403 6.3:+60461382 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATTCTTGAGGAGTAAATG+CGG - chr6.3:60461371-60461390 MS.gene33230:CDS 30.0%
CTTATGAATAGCAGCAAAAT+GGG + chr6.3:60461444-60461463 None:intergenic 30.0%
AATCTCTTATGAAGTCGTCA+TGG - chr6.3:60461538-60461557 MS.gene33230:CDS 35.0%
CCTTATGAATAGCAGCAAAA+TGG + chr6.3:60461445-60461464 None:intergenic 35.0%
TTTACTCCTCAAGAATTTGC+AGG + chr6.3:60461369-60461388 None:intergenic 35.0%
! CCATTTTGCTGCTATTCATA+AGG - chr6.3:60461442-60461461 MS.gene33230:CDS 35.0%
CCTTGTTCATGGCAAAAGTA+AGG + chr6.3:60461416-60461435 None:intergenic 40.0%
GCTGCTATTCATAAGGTCTT+TGG - chr6.3:60461449-60461468 MS.gene33230:CDS 40.0%
!! ACAACTTCTGTTTCTGCTTG+TGG - chr6.3:60461341-60461360 MS.gene33230:CDS 40.0%
!! CCTTACTTTTGCCATGAACA+AGG - chr6.3:60461413-60461432 MS.gene33230:CDS 40.0%
AATGGGTAGCACCTTGTTCA+TGG + chr6.3:60461427-60461446 None:intergenic 45.0%
CTTCACAACGATCAGTCACA+GGG + chr6.3:60461508-60461527 None:intergenic 45.0%
TTGAGGAGTAAATGCGGTAG+AGG - chr6.3:60461377-60461396 MS.gene33230:CDS 45.0%
GCTTCACAACGATCAGTCAC+AGG + chr6.3:60461509-60461528 None:intergenic 50.0%
GTGGAGCCTGCAAATTCTTG+AGG - chr6.3:60461360-60461379 MS.gene33230:CDS 50.0%
CACAACGATCAGTCACAGGG+AGG + chr6.3:60461505-60461524 None:intergenic 55.0%
! CAGTCACAGGGAGGTGTGCA+AGG + chr6.3:60461496-60461515 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 60461338 60461568 60461338 ID=MS.gene33230
chr6.3 mRNA 60461338 60461568 60461338 ID=MS.gene33230.t1;Parent=MS.gene33230
chr6.3 exon 60461338 60461568 60461338 ID=MS.gene33230.t1.exon1;Parent=MS.gene33230.t1
chr6.3 CDS 60461338 60461568 60461338 ID=cds.MS.gene33230.t1;Parent=MS.gene33230.t1
Gene Sequence

>MS.gene33230

ATGACAACTTCTGTTTCTGCTTGTGGAGCCTGCAAATTCTTGAGGAGTAAATGCGGTAGAGGTTGTGTTTTTGCACCTTACTTTTGCCATGAACAAGGTGCTACCCATTTTGCTGCTATTCATAAGGTCTTTGGTGCAAGTAATGCTTCAAAGCTCCTTGCACACCTCCCTGTGACTGATCGTTGTGAAGCTGCAGTCACAATCTCTTATGAAGTCGTCATGGCCTTATGA
Protein sequence

>MS.gene33230.t1

MTTSVSACGACKFLRSKCGRGCVFAPYFCHEQGATHFAAIHKVFGASNASKLLAHLPVTDRCEAAVTISYEVVMAL