AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057312

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057312.t1 MTR_3g070110 92.571 175 13 0 1 175 27 201 9.01e-110 313
MS.gene057312.t1 MTR_5g081860 40.288 139 68 4 7 145 73 196 2.98e-20 85.9
MS.gene057312.t1 MTR_5g088010 57.143 77 27 4 66 141 57 128 2.21e-17 77.8
MS.gene057312.t1 MTR_5g069710 37.209 129 68 2 23 145 80 201 3.42e-17 77.8
MS.gene057312.t1 MTR_5g027570 36.567 134 75 3 12 141 32 159 7.73e-17 75.9
MS.gene057312.t1 MTR_3g462790 37.415 147 75 3 7 145 79 216 2.31e-16 75.9
MS.gene057312.t1 MTR_8g063600 36.691 139 76 4 6 141 44 173 2.93e-16 75.1
MS.gene057312.t1 MTR_7g067080 40.708 113 53 3 33 145 111 209 4.92e-16 74.7
MS.gene057312.t1 MTR_5g027550 43.023 86 43 2 35 114 37 122 8.36e-16 73.2
MS.gene057312.t1 MTR_3g104370 38.136 118 57 2 23 140 57 158 2.32e-15 72.0
MS.gene057312.t1 MTR_5g088060 58.904 73 24 4 70 141 273 340 2.42e-15 73.6
MS.gene057312.t1 MTR_5g488160 58.904 73 24 4 70 141 273 340 2.42e-15 73.6
MS.gene057312.t1 MTR_8g063870 39.007 141 64 6 6 144 42 162 2.45e-15 72.4
MS.gene057312.t1 MTR_1g048660 59.259 54 22 0 61 114 4 57 1.81e-14 66.2
MS.gene057312.t1 MTR_1g111830 32.639 144 79 3 1 144 67 192 1.48e-13 67.0
MS.gene057312.t1 MTR_4g107230 35.185 108 58 2 7 114 34 129 1.57e-13 67.8
MS.gene057312.t1 MTR_2g090305 46.667 75 33 2 68 142 27 94 6.21e-13 64.7
MS.gene057312.t1 MTR_2g100930 39.759 83 43 1 60 142 100 175 1.36e-12 65.5
MS.gene057312.t1 MTR_6g092540 51.724 58 26 1 57 114 87 142 2.16e-12 64.3
MS.gene057312.t1 MTR_4g100630 36.607 112 52 2 33 144 71 163 2.51e-12 64.7
MS.gene057312.t1 MTR_5g037080 47.368 57 30 0 58 114 91 147 4.38e-12 63.9
MS.gene057312.t1 MTR_4g111975 44.304 79 37 2 66 144 135 206 4.92e-12 63.5
MS.gene057312.t1 MTR_4g015130 47.826 69 29 1 77 145 1 62 6.08e-12 59.3
MS.gene057312.t1 MTR_5g075760 45.833 96 43 5 38 132 77 164 8.52e-12 62.0
MS.gene057312.t1 MTR_8g101650 41.489 94 36 3 66 153 102 182 1.05e-11 62.4
MS.gene057312.t1 MTR_0036s0260 45.333 75 34 2 68 142 27 94 2.21e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057312.t1 AT5G05790 40.458 131 66 3 23 149 82 204 4.56e-20 85.5
MS.gene057312.t1 AT5G05790 40.458 131 66 3 23 149 82 204 4.56e-20 85.5
MS.gene057312.t1 AT3G11280 41.406 128 63 4 23 149 84 200 6.02e-19 82.0
MS.gene057312.t1 AT3G11280 41.406 128 63 4 23 149 84 200 6.02e-19 82.0
MS.gene057312.t1 AT5G01200 45.299 117 50 4 30 145 112 215 1.92e-18 80.9
MS.gene057312.t1 AT2G38090 37.069 116 63 2 33 145 102 210 1.08e-16 76.6
MS.gene057312.t1 AT5G58900 44.681 94 45 1 52 145 124 210 4.15e-16 74.7
MS.gene057312.t1 AT5G08520 39.073 151 68 7 6 143 46 185 4.24e-16 75.1
MS.gene057312.t1 AT4G09450 39.837 123 61 4 44 160 66 181 1.99e-14 68.9
MS.gene057312.t1 AT5G04760 49.367 79 33 2 66 144 96 167 2.01e-13 66.2
MS.gene057312.t1 AT1G19000 50.877 57 28 0 58 114 91 147 3.63e-13 66.6
MS.gene057312.t1 AT1G19000 50.877 57 28 0 58 114 91 147 3.63e-13 66.6
MS.gene057312.t1 AT1G70000 41.096 73 41 1 44 114 71 143 8.54e-13 65.5
MS.gene057312.t1 AT1G70000 41.096 73 41 1 44 114 71 143 8.54e-13 65.5
MS.gene057312.t1 AT5G47390 44.444 81 38 1 60 140 87 160 1.02e-12 65.9
MS.gene057312.t1 AT3G10580 46.835 79 33 1 66 144 92 161 1.71e-12 64.3
MS.gene057312.t1 AT3G10580 46.835 79 33 1 66 144 92 161 1.83e-12 64.7
MS.gene057312.t1 AT1G49010 45.570 79 36 2 66 144 131 202 1.90e-12 64.7
MS.gene057312.t1 AT5G56840 52.632 57 27 0 66 122 88 144 1.73e-11 61.2
MS.gene057312.t1 AT5G61620 45.570 79 36 1 66 144 105 176 2.52e-11 61.6
MS.gene057312.t1 AT1G74840 55.102 49 22 0 66 114 93 141 4.26e-11 60.5
MS.gene057312.t1 AT1G74840 55.102 49 22 0 66 114 93 141 4.74e-11 60.5
MS.gene057312.t1 AT3G16350 48.148 54 28 0 61 114 129 182 6.23e-11 60.8

Find 26 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGATCTTTATCACATTCT+TGG 0.225450 3.1:-57478202 None:intergenic
GACTCATATGCGTGGTTATT+TGG 0.243758 3.1:+57478120 MS.gene057312:CDS
ATAACTACTCTTGATCTTCT+TGG 0.251399 3.1:+57478090 MS.gene057312:CDS
AGTTCTATTGTTATTATTAT+CGG 0.281602 3.1:-57477705 None:intergenic
TTTGAGCATGGCTTGCTACT+TGG 0.356659 3.1:-57477987 None:intergenic
AAAATATCAAAAGGAAACTT+AGG 0.373972 3.1:+57478052 MS.gene057312:CDS
CATTCAAGAAAGTGGTTCAT+TGG 0.387227 3.1:+57477756 MS.gene057312:CDS
TTGAGCATGGCTTGCTACTT+GGG 0.417939 3.1:-57477986 None:intergenic
TATTTGTAGGCGTTTCTTGA+AGG 0.450413 3.1:+57477894 MS.gene057312:intron
AAATATCAAAAGGAAACTTA+GGG 0.461487 3.1:+57478053 MS.gene057312:CDS
AAAGTGGAAAGAAATCTCTA+AGG 0.472931 3.1:+57477939 MS.gene057312:CDS
AAAGAAATCATTCAAGAAAG+TGG 0.476326 3.1:+57477748 MS.gene057312:CDS
ATTTGTAGGCGTTTCTTGAA+GGG 0.494586 3.1:+57477895 MS.gene057312:intron
GATCAAGAGTAGTTATATCA+TGG 0.499404 3.1:-57478083 None:intergenic
TACACGGCAAAGACGGAAAG+TGG 0.504210 3.1:+57477923 MS.gene057312:CDS
GCATGGCTTGCTACTTGGGA+TGG 0.505418 3.1:-57477982 None:intergenic
TGTTGTCGTCTTCAATCACT+TGG 0.511632 3.1:-57478146 None:intergenic
GGACTTCTACACGGCAAAGA+CGG 0.559413 3.1:+57477916 MS.gene057312:CDS
ATACATATGAACATATCAAG+TGG 0.590413 3.1:-57478237 None:intergenic
TTCTTGAAGGGACTTCTACA+CGG 0.594579 3.1:+57477907 MS.gene057312:CDS
GAAGACGACAACAATAACAA+TGG 0.605151 3.1:+57478156 MS.gene057312:CDS
TCAGCACAACATCGATGAAG+TGG 0.609150 3.1:+57477598 MS.gene057312:CDS
TTATTATTATCGGTTGCATG+AGG 0.632701 3.1:-57477695 None:intergenic
GCACAACATCGATGAAGTGG+TGG 0.668571 3.1:+57477601 MS.gene057312:CDS
AATATCAAAAGGAAACTTAG+GGG 0.670754 3.1:+57478054 MS.gene057312:CDS
GAAGTGATGACTCATATGCG+TGG 0.764866 3.1:+57478112 MS.gene057312:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTCTATTGTTATTATTAT+CGG - chr3.1:57477708-57477727 None:intergenic 15.0%
!! AAAATATCAAAAGGAAACTT+AGG + chr3.1:57478052-57478071 MS.gene057312:CDS 20.0%
!! AAATATCAAAAGGAAACTTA+GGG + chr3.1:57478053-57478072 MS.gene057312:CDS 20.0%
!! ATGATAGCAAAAATATCAAA+AGG + chr3.1:57478043-57478062 MS.gene057312:CDS 20.0%
!!! TTTCTTGAATGATTTCTTTT+TGG - chr3.1:57477747-57477766 None:intergenic 20.0%
! AAAGAAATCATTCAAGAAAG+TGG + chr3.1:57477748-57477767 MS.gene057312:CDS 25.0%
! AATATCAAAAGGAAACTTAG+GGG + chr3.1:57478054-57478073 MS.gene057312:CDS 25.0%
! GAAACAATAAACGATGAAAA+AGG - chr3.1:57477805-57477824 None:intergenic 25.0%
!!! GACATGGATTTTTTATTTGT+AGG + chr3.1:57477881-57477900 MS.gene057312:intron 25.0%
AAAGTGGAAAGAAATCTCTA+AGG + chr3.1:57477939-57477958 MS.gene057312:CDS 30.0%
ATAACTACTCTTGATCTTCT+TGG + chr3.1:57478090-57478109 MS.gene057312:CDS 30.0%
CATGATCTTTATCACATTCT+TGG - chr3.1:57478205-57478224 None:intergenic 30.0%
GATCAAGAGTAGTTATATCA+TGG - chr3.1:57478086-57478105 None:intergenic 30.0%
! TTATTATTATCGGTTGCATG+AGG - chr3.1:57477698-57477717 None:intergenic 30.0%
!! ATGCTCAAAAGTACCAAAAA+AGG + chr3.1:57478001-57478020 MS.gene057312:CDS 30.0%
!!! TTTTTTGGTACTTTTGAGCA+TGG - chr3.1:57478002-57478021 None:intergenic 30.0%
ATTTGTAGGCGTTTCTTGAA+GGG + chr3.1:57477895-57477914 MS.gene057312:intron 35.0%
CATTCAAGAAAGTGGTTCAT+TGG + chr3.1:57477756-57477775 MS.gene057312:CDS 35.0%
GAAGACGACAACAATAACAA+TGG + chr3.1:57478156-57478175 MS.gene057312:CDS 35.0%
TATTTGTAGGCGTTTCTTGA+AGG + chr3.1:57477894-57477913 MS.gene057312:intron 35.0%
!! GTCTTTGCTTTTGCCTTTTT+TGG - chr3.1:57478017-57478036 None:intergenic 35.0%
GACTCATATGCGTGGTTATT+TGG + chr3.1:57478120-57478139 MS.gene057312:CDS 40.0%
TGTTGTCGTCTTCAATCACT+TGG - chr3.1:57478149-57478168 None:intergenic 40.0%
TTCTTGAAGGGACTTCTACA+CGG + chr3.1:57477907-57477926 MS.gene057312:CDS 40.0%
GAAGTGATGACTCATATGCG+TGG + chr3.1:57478112-57478131 MS.gene057312:CDS 45.0%
TCAGCACAACATCGATGAAG+TGG + chr3.1:57477598-57477617 MS.gene057312:CDS 45.0%
!! TCGACGAGCGTTTCACTTTT+TGG + chr3.1:57477641-57477660 MS.gene057312:CDS 45.0%
!! TTGAGCATGGCTTGCTACTT+GGG - chr3.1:57477989-57478008 None:intergenic 45.0%
!! TTTGAGCATGGCTTGCTACT+TGG - chr3.1:57477990-57478009 None:intergenic 45.0%
GCACAACATCGATGAAGTGG+TGG + chr3.1:57477601-57477620 MS.gene057312:CDS 50.0%
GCGCACACATGTGTTTGACA+TGG + chr3.1:57477865-57477884 MS.gene057312:intron 50.0%
GGACTTCTACACGGCAAAGA+CGG + chr3.1:57477916-57477935 MS.gene057312:CDS 50.0%
TACACGGCAAAGACGGAAAG+TGG + chr3.1:57477923-57477942 MS.gene057312:CDS 50.0%
!! GCATGGCTTGCTACTTGGGA+TGG - chr3.1:57477985-57478004 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 57477566 57478247 57477566 ID=MS.gene057312
chr3.1 mRNA 57477566 57478247 57477566 ID=MS.gene057312.t1;Parent=MS.gene057312
chr3.1 exon 57477566 57477795 57477566 ID=MS.gene057312.t1.exon1;Parent=MS.gene057312.t1
chr3.1 CDS 57477566 57477795 57477566 ID=cds.MS.gene057312.t1;Parent=MS.gene057312.t1
chr3.1 exon 57477903 57478247 57477903 ID=MS.gene057312.t1.exon2;Parent=MS.gene057312.t1
chr3.1 CDS 57477903 57478247 57477903 ID=cds.MS.gene057312.t1;Parent=MS.gene057312.t1
Gene Sequence

>MS.gene057312

GAAACTATGCTATGTAGTGTTGATCAAATCAATCAGCACAACATCGATGAAGTGGTGGTAGAAAATAATATTGCATCGACGAGCGTTTCACTTTTTGGATATGATTCAGTTGATTCTTTCAACTTCTCTCCTCATGCAACCGATAATAATAACAATAGAACTACGAATATCGTAGAATCCAAAAAGAAATCATTCAAGAAAGTGGTTCATTGGTCACGTGATGAACACATGTAAGTCCTTTTTCATCGTTTATTGTTTCATGTAGTTTGAATTATATCTCTCTTTATATATACTCGTGCGCGCACACATGTGTTTGACATGGATTTTTTATTTGTAGGCGTTTCTTGAAGGGACTTCTACACGGCAAAGACGGAAAGTGGAAAGAAATCTCTAAGGACTATGTAAAAACAAAGACTCCATCCCAAGTAGCAAGCCATGCTCAAAAGTACCAAAAAAGGCAAAAGCAAAGACTTGATGATGATAGCAAAAATATCAAAAGGAAACTTAGGGGTAGCATCCATGATATAACTACTCTTGATCTTCTTGGAAGTGATGACTCATATGCGTGGTTATTTGGTGACCAAGTGATTGAAGACGACAACAATAACAATGGATCACTCTCAGTCACAACTTCAACCAAGAATGTGATAAAGATCATGAAGTTGTTGCTTCCACTTGATAT
Protein sequence

>MS.gene057312.t1

ETMLCSVDQINQHNIDEVVVENNIASTSVSLFGYDSVDSFNFSPHATDNNNNRTTNIVESKKKSFKKVVHWSRDEHMRFLKGLLHGKDGKWKEISKDYVKTKTPSQVASHAQKYQKRQKQRLDDDSKNIKRKLRGSIHDITTLDLLGSDDSYAWLFGDQVIEDDNNNNGSLSVTTSTKNVIKIMKLLLPLD