AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057311

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057311.t1 MTR_3g070110 92.632 190 14 0 1 190 27 216 1.86e-121 342
MS.gene057311.t1 MTR_5g081860 40.288 139 68 4 7 145 73 196 2.81e-20 85.9
MS.gene057311.t1 MTR_5g069710 37.209 129 68 2 23 145 80 201 1.58e-17 79.0
MS.gene057311.t1 MTR_5g088010 57.143 77 27 4 66 141 57 128 2.41e-17 77.4
MS.gene057311.t1 MTR_3g462790 37.415 147 75 3 7 145 79 216 1.20e-16 76.6
MS.gene057311.t1 MTR_5g027570 36.567 134 75 3 12 141 32 159 1.25e-16 75.5
MS.gene057311.t1 MTR_8g063600 36.691 139 76 4 6 141 44 173 4.64e-16 74.7
MS.gene057311.t1 MTR_7g067080 40.708 113 53 3 33 145 111 209 6.74e-16 74.3
MS.gene057311.t1 MTR_5g027550 43.023 86 43 2 35 114 37 122 1.00e-15 72.8
MS.gene057311.t1 MTR_3g104370 38.136 118 57 2 23 140 57 158 2.90e-15 71.6
MS.gene057311.t1 MTR_5g088060 58.904 73 24 4 70 141 273 340 3.02e-15 73.2
MS.gene057311.t1 MTR_5g488160 58.904 73 24 4 70 141 273 340 3.02e-15 73.2
MS.gene057311.t1 MTR_8g063870 39.007 141 64 6 6 144 42 162 3.69e-15 72.0
MS.gene057311.t1 MTR_1g048660 59.259 54 22 0 61 114 4 57 1.28e-14 66.6
MS.gene057311.t1 MTR_1g111830 49.367 79 33 2 66 144 121 192 1.34e-13 67.4
MS.gene057311.t1 MTR_4g107230 35.185 108 58 2 7 114 34 129 1.91e-13 67.4
MS.gene057311.t1 MTR_2g100930 39.759 83 43 1 60 142 100 175 1.09e-12 65.5
MS.gene057311.t1 MTR_2g090305 46.667 75 33 2 68 142 27 94 1.22e-12 63.9
MS.gene057311.t1 MTR_4g100630 36.607 112 52 2 33 144 71 163 2.33e-12 64.7
MS.gene057311.t1 MTR_6g092540 51.724 58 26 1 57 114 87 142 2.52e-12 64.3
MS.gene057311.t1 MTR_4g111975 44.304 79 37 2 66 144 135 206 3.04e-12 63.9
MS.gene057311.t1 MTR_5g037080 55.102 49 22 0 66 114 99 147 4.08e-12 63.9
MS.gene057311.t1 MTR_4g015130 47.826 69 29 1 77 145 1 62 6.99e-12 59.3
MS.gene057311.t1 MTR_8g101650 44.000 75 34 1 66 140 102 168 8.05e-12 62.8
MS.gene057311.t1 MTR_5g075760 45.833 96 43 5 38 132 77 164 8.26e-12 62.0
MS.gene057311.t1 MTR_0036s0260 45.333 75 34 2 68 142 27 94 2.93e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057311.t1 AT5G05790 40.602 133 67 3 23 151 82 206 3.25e-20 85.9
MS.gene057311.t1 AT5G05790 40.602 133 67 3 23 151 82 206 3.25e-20 85.9
MS.gene057311.t1 AT3G11280 41.406 128 63 4 23 149 84 200 6.05e-19 82.0
MS.gene057311.t1 AT3G11280 41.406 128 63 4 23 149 84 200 6.05e-19 82.0
MS.gene057311.t1 AT5G01200 45.299 117 50 4 30 145 112 215 1.76e-18 80.9
MS.gene057311.t1 AT2G38090 37.069 116 63 2 33 145 102 210 1.27e-16 76.3
MS.gene057311.t1 AT5G58900 44.681 94 45 1 52 145 124 210 2.68e-16 75.5
MS.gene057311.t1 AT5G08520 39.073 151 68 7 6 143 46 185 4.76e-16 74.7
MS.gene057311.t1 AT4G09450 39.837 123 61 4 44 160 66 181 2.91e-14 68.6
MS.gene057311.t1 AT5G04760 49.367 79 33 2 66 144 96 167 1.23e-13 67.0
MS.gene057311.t1 AT5G47390 33.588 131 69 2 60 190 87 199 3.34e-13 67.4
MS.gene057311.t1 AT1G19000 50.877 57 28 0 58 114 91 147 3.51e-13 66.6
MS.gene057311.t1 AT1G19000 50.877 57 28 0 58 114 91 147 3.51e-13 66.6
MS.gene057311.t1 AT1G70000 41.096 73 41 1 44 114 71 143 1.05e-12 65.1
MS.gene057311.t1 AT1G70000 41.096 73 41 1 44 114 71 143 1.05e-12 65.1
MS.gene057311.t1 AT3G10580 46.835 79 33 1 66 144 92 161 1.54e-12 64.7
MS.gene057311.t1 AT3G10580 46.835 79 33 1 66 144 92 161 1.56e-12 64.7
MS.gene057311.t1 AT1G49010 45.570 79 36 2 66 144 131 202 1.59e-12 65.1
MS.gene057311.t1 AT5G56840 52.632 57 27 0 66 122 88 144 1.55e-11 61.6
MS.gene057311.t1 AT5G61620 45.570 79 36 1 66 144 105 176 2.33e-11 61.6
MS.gene057311.t1 AT1G74840 55.102 49 22 0 66 114 93 141 3.93e-11 60.5
MS.gene057311.t1 AT1G74840 55.102 49 22 0 66 114 93 141 4.33e-11 60.5
MS.gene057311.t1 AT3G16350 53.061 49 23 0 66 114 134 182 5.43e-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:-57463760 None:intergenic
GACTCATATGCGTGGTTATT+TGG 0.243758 3.1:+57463677 MS.gene057311:CDS
ATAACTACTCTTGATCTTCT+TGG 0.251399 3.1:+57463647 MS.gene057311:CDS
AGTTCTATTGTTATTATTAT+CGG 0.281602 3.1:-57463262 None:intergenic
TTTGAGCATGGCTTGCTACT+TGG 0.356659 3.1:-57463544 None:intergenic
AAAATATCAAAAGGAAACTT+AGG 0.373972 3.1:+57463609 MS.gene057311:CDS
CATTCAAGAAAGTGGTTCAT+TGG 0.387227 3.1:+57463313 MS.gene057311:CDS
TTGAGCATGGCTTGCTACTT+GGG 0.417939 3.1:-57463543 None:intergenic
TATTTGTAGGCGTTTCTTGA+AGG 0.450413 3.1:+57463451 MS.gene057311:intron
AAATATCAAAAGGAAACTTA+GGG 0.461487 3.1:+57463610 MS.gene057311:CDS
AAAGTGGAAAGAAATCTCTA+AGG 0.472931 3.1:+57463496 MS.gene057311:CDS
AAAGAAATCATTCAAGAAAG+TGG 0.476326 3.1:+57463305 MS.gene057311:CDS
ATTTGTAGGCGTTTCTTGAA+GGG 0.494586 3.1:+57463452 MS.gene057311:intron
GATCAAGAGTAGTTATATCA+TGG 0.499404 3.1:-57463640 None:intergenic
TACACGGCAAAGACGGAAAG+TGG 0.504210 3.1:+57463480 MS.gene057311:CDS
GCATGGCTTGCTACTTGGGA+TGG 0.505418 3.1:-57463539 None:intergenic
TGTTGTCGTCTTCAATCACT+TGG 0.511632 3.1:-57463703 None:intergenic
GGACTTCTACACGGCAAAGA+CGG 0.559413 3.1:+57463473 MS.gene057311:CDS
ATACATATGAACATATCAAG+TGG 0.590413 3.1:-57463795 None:intergenic
TTCTTGAAGGGACTTCTACA+CGG 0.594579 3.1:+57463464 MS.gene057311:CDS
GAAGACGACAACAATAACAA+TGG 0.605151 3.1:+57463713 MS.gene057311:CDS
TCAGCACAACATCGATGAAG+TGG 0.609150 3.1:+57463155 MS.gene057311:CDS
TTATTATTATCGGTTGCATG+AGG 0.632701 3.1:-57463252 None:intergenic
GCACAACATCGATGAAGTGG+TGG 0.668571 3.1:+57463158 MS.gene057311:CDS
AATATCAAAAGGAAACTTAG+GGG 0.670754 3.1:+57463611 MS.gene057311:CDS
GAAGTGATGACTCATATGCG+TGG 0.764866 3.1:+57463669 MS.gene057311:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTCTATTGTTATTATTAT+CGG - chr3.1:57463265-57463284 None:intergenic 15.0%
!! AAAATATCAAAAGGAAACTT+AGG + chr3.1:57463609-57463628 MS.gene057311:CDS 20.0%
!! AAATATCAAAAGGAAACTTA+GGG + chr3.1:57463610-57463629 MS.gene057311:CDS 20.0%
!! ATGATAGCAAAAATATCAAA+AGG + chr3.1:57463600-57463619 MS.gene057311:CDS 20.0%
!!! TTTCTTGAATGATTTCTTTT+TGG - chr3.1:57463304-57463323 None:intergenic 20.0%
! AAAGAAATCATTCAAGAAAG+TGG + chr3.1:57463305-57463324 MS.gene057311:CDS 25.0%
! AATATCAAAAGGAAACTTAG+GGG + chr3.1:57463611-57463630 MS.gene057311:CDS 25.0%
! GAAACAATAAACGATGAAAA+AGG - chr3.1:57463362-57463381 None:intergenic 25.0%
!!! GACATGGATTTTTTATTTGT+AGG + chr3.1:57463438-57463457 MS.gene057311:intron 25.0%
AAAGTGGAAAGAAATCTCTA+AGG + chr3.1:57463496-57463515 MS.gene057311:CDS 30.0%
ATAACTACTCTTGATCTTCT+TGG + chr3.1:57463647-57463666 MS.gene057311:CDS 30.0%
CATGATCTTTATCACATTCT+TGG - chr3.1:57463763-57463782 None:intergenic 30.0%
GATCAAGAGTAGTTATATCA+TGG - chr3.1:57463643-57463662 None:intergenic 30.0%
! TTATTATTATCGGTTGCATG+AGG - chr3.1:57463255-57463274 None:intergenic 30.0%
!! ATGCTCAAAAGTACCAAAAA+AGG + chr3.1:57463558-57463577 MS.gene057311:CDS 30.0%
!!! TTTTTTGGTACTTTTGAGCA+TGG - chr3.1:57463559-57463578 None:intergenic 30.0%
ATTTGTAGGCGTTTCTTGAA+GGG + chr3.1:57463452-57463471 MS.gene057311:intron 35.0%
CATTCAAGAAAGTGGTTCAT+TGG + chr3.1:57463313-57463332 MS.gene057311:CDS 35.0%
GAAGACGACAACAATAACAA+TGG + chr3.1:57463713-57463732 MS.gene057311:CDS 35.0%
TATTTGTAGGCGTTTCTTGA+AGG + chr3.1:57463451-57463470 MS.gene057311:intron 35.0%
!! GTCTTTGCTTTTGCCTTTTT+TGG - chr3.1:57463574-57463593 None:intergenic 35.0%
GACTCATATGCGTGGTTATT+TGG + chr3.1:57463677-57463696 MS.gene057311:CDS 40.0%
TGTTGTCGTCTTCAATCACT+TGG - chr3.1:57463706-57463725 None:intergenic 40.0%
TTCTTGAAGGGACTTCTACA+CGG + chr3.1:57463464-57463483 MS.gene057311:CDS 40.0%
GAAGTGATGACTCATATGCG+TGG + chr3.1:57463669-57463688 MS.gene057311:CDS 45.0%
TCAGCACAACATCGATGAAG+TGG + chr3.1:57463155-57463174 MS.gene057311:CDS 45.0%
!! TCGACGAGCGTTTCACTTTT+TGG + chr3.1:57463198-57463217 MS.gene057311:CDS 45.0%
!! TTGAGCATGGCTTGCTACTT+GGG - chr3.1:57463546-57463565 None:intergenic 45.0%
!! TTTGAGCATGGCTTGCTACT+TGG - chr3.1:57463547-57463566 None:intergenic 45.0%
GCACAACATCGATGAAGTGG+TGG + chr3.1:57463158-57463177 MS.gene057311:CDS 50.0%
GCGCACACATGTGTTTGACA+TGG + chr3.1:57463422-57463441 MS.gene057311:intron 50.0%
GGACTTCTACACGGCAAAGA+CGG + chr3.1:57463473-57463492 MS.gene057311:CDS 50.0%
TACACGGCAAAGACGGAAAG+TGG + chr3.1:57463480-57463499 MS.gene057311:CDS 50.0%
!! GCATGGCTTGCTACTTGGGA+TGG - chr3.1:57463542-57463561 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 57463123 57463802 57463123 ID=MS.gene057311
chr3.1 mRNA 57463123 57463802 57463123 ID=MS.gene057311.t1;Parent=MS.gene057311
chr3.1 exon 57463123 57463352 57463123 ID=MS.gene057311.t1.exon1;Parent=MS.gene057311.t1
chr3.1 CDS 57463123 57463352 57463123 ID=cds.MS.gene057311.t1;Parent=MS.gene057311.t1
chr3.1 exon 57463460 57463802 57463460 ID=MS.gene057311.t1.exon2;Parent=MS.gene057311.t1
chr3.1 CDS 57463460 57463802 57463460 ID=cds.MS.gene057311.t1;Parent=MS.gene057311.t1
Gene Sequence

>MS.gene057311

GAAACTATGCTATGTAGTGTTGATCAAATCAATCAGCACAACATCGATGAAGTGGTGGTAGAAAATAATATTGCATCGACGAGCGTTTCACTTTTTGGATATGATTCAGTTGATTCTTTCAACTTCTCTCCTCATGCAACCGATAATAATAACAATAGAACTACGAATATCGTAGAATCCAAAAAGAAATCATTCAAGAAAGTGGTTCATTGGTCACGTGATGAACACATGTAAGTCCTTTTTCATCGTTTATTGTTTCATGTAGTTTGAATTATATCTCTCTTTATATATACTCGTGCGCGCACACATGTGTTTGACATGGATTTTTTATTTGTAGGCGTTTCTTGAAGGGACTTCTACACGGCAAAGACGGAAAGTGGAAAGAAATCTCTAAGGACTATGTAAAAACAAAGACTCCATCCCAAGTAGCAAGCCATGCTCAAAAGTACCAAAAAAGGCAAAAGCAAAGACTTGATGATGATAGCAAAAATATCAAAAGGAAACTTAGGGGTAGCATCCATGATATAACTACTCTTGATCTTCTTGGAAGTGATGACTCATATGCGTGGTTATTTGGTGACCAAGTGATTGAAGACGACAACAATAACAATGGATCACTCTCAGTCACAACTTTCAACCAAGAATGTGATAAAGATCATGAAGTTGTTGCTTCCACTTGA
Protein sequence

>MS.gene057311.t1

ETMLCSVDQINQHNIDEVVVENNIASTSVSLFGYDSVDSFNFSPHATDNNNNRTTNIVESKKKSFKKVVHWSRDEHMRFLKGLLHGKDGKWKEISKDYVKTKTPSQVASHAQKYQKRQKQRLDDDSKNIKRKLRGSIHDITTLDLLGSDDSYAWLFGDQVIEDDNNNNGSLSVTTFNQECDKDHEVVAST