AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene56674

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56674.t1 MTR_5g081990 91.473 129 7 3 1 126 1 128 3.00e-80 234
MS.gene56674.t1 MTR_7g060630 69.841 63 19 0 33 95 8 70 8.01e-29 104
MS.gene56674.t1 MTR_4g084550 59.155 71 29 0 33 103 64 134 4.04e-28 102
MS.gene56674.t1 MTR_8g107210 64.789 71 25 0 25 95 88 158 2.77e-27 103
MS.gene56674.t1 MTR_1g019130 65.152 66 23 0 33 98 90 155 1.08e-26 99.4
MS.gene56674.t1 MTR_1g019130 65.152 66 23 0 33 98 90 155 1.53e-26 99.4
MS.gene56674.t1 MTR_5g021930 59.459 74 26 2 33 105 30 100 4.37e-25 96.7
MS.gene56674.t1 MTR_4g063735 57.576 66 28 0 33 98 25 90 1.48e-24 94.4
MS.gene56674.t1 MTR_8g095580 69.091 55 17 0 44 98 93 147 6.79e-21 82.8
MS.gene56674.t1 MTR_3g088485 67.273 55 18 0 44 98 91 145 1.52e-20 82.0
MS.gene56674.t1 MTR_2g015000 45.312 64 35 0 33 96 55 118 5.69e-16 73.2
MS.gene56674.t1 MTR_7g025010 43.750 64 36 0 33 96 47 110 6.09e-16 73.2
MS.gene56674.t1 MTR_4g088070 40.984 61 36 0 33 93 29 89 1.49e-13 66.2
MS.gene56674.t1 MTR_1g115315 43.333 60 34 0 33 92 85 144 3.40e-12 61.6
MS.gene56674.t1 MTR_1g115315 43.333 60 34 0 33 92 85 144 4.96e-12 61.2
MS.gene56674.t1 MTR_4g088080 39.706 68 39 1 33 100 40 105 1.11e-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.gene56674.t1 AT3G11260 77.273 88 18 1 14 101 7 92 1.96e-45 145
MS.gene56674.t1 AT5G05770 68.932 103 27 2 4 103 2 102 1.11e-41 134
MS.gene56674.t1 AT3G18010 71.429 63 18 0 33 95 76 138 1.17e-27 104
MS.gene56674.t1 AT2G28610 65.079 63 22 0 33 95 8 70 3.12e-27 101
MS.gene56674.t1 AT5G59340 57.333 75 27 1 21 95 7 76 5.72e-26 98.2
MS.gene56674.t1 AT1G46480 63.492 63 23 0 33 95 90 152 1.43e-25 95.5
MS.gene56674.t1 AT1G46480 63.492 63 23 0 33 95 90 152 8.48e-25 95.1
MS.gene56674.t1 AT2G17950 66.667 63 20 1 33 94 38 100 1.74e-24 95.1
MS.gene56674.t1 AT2G01500 67.273 55 18 0 33 87 61 115 1.24e-22 89.7
MS.gene56674.t1 AT2G33880 45.161 62 34 0 33 94 55 116 1.70e-15 71.6
MS.gene56674.t1 AT2G33880 43.750 64 36 0 33 96 55 118 2.24e-15 71.2
MS.gene56674.t1 AT5G45980 46.774 62 33 0 33 94 55 116 5.13e-15 70.1
MS.gene56674.t1 AT4G35550 42.623 61 35 0 33 93 99 159 3.02e-12 62.0
MS.gene56674.t1 AT1G20700 35.556 90 55 2 19 106 20 108 3.39e-12 60.1
MS.gene56674.t1 AT1G20700 38.667 75 45 1 19 93 82 155 6.03e-12 60.5
MS.gene56674.t1 AT1G20700 38.667 75 45 1 19 93 82 155 6.77e-12 60.5
MS.gene56674.t1 AT5G17810 41.176 68 38 1 19 84 5 72 4.26e-11 58.5
MS.gene56674.t1 AT5G17810 41.176 68 38 1 19 84 5 72 4.26e-11 58.5
MS.gene56674.t1 AT5G17810 41.176 68 38 1 19 84 5 72 4.83e-11 58.5

Find 11 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTTAACTTGTTCTGTTGT+TGG 0.328649 5.1:+64245542 None:intergenic
AGAGCAAGAATGTGTTCTAT+TGG 0.384217 5.1:-64245427 MS.gene56674:CDS
GGTTTCAGAATCACAAAGCT+AGG 0.453724 5.1:-64245406 MS.gene56674:CDS
TTCTGAATTTGATCAGTGCT+TGG 0.470346 5.1:+64245485 None:intergenic
AGTGGAAGCAGCAGCAGCAC+TGG 0.493876 5.1:-64245587 MS.gene56674:CDS
AATATGGAAGAGAGCATGTC+AGG 0.497698 5.1:-64245650 MS.gene56674:CDS
AGTAGTTTCCATGGTAAAAG+TGG 0.503916 5.1:-64245605 MS.gene56674:CDS
TCATCTGGAAGTAGTTTCCA+TGG 0.556114 5.1:-64245614 MS.gene56674:CDS
GTTTCAGAATCACAAAGCTA+GGG 0.556495 5.1:-64245405 MS.gene56674:CDS
AGCAGCACTGGCACAAAGTG+TGG 0.575447 5.1:-64245575 MS.gene56674:CDS
CTGGCACAAAGTGTGGTCGT+TGG 0.591246 5.1:-64245568 MS.gene56674:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATGAATAAATGAGTTGTGT+CGG + chr5.1:64245567-64245586 None:intergenic 25.0%
!!! ACCATAAAAACTAAGTTGAT+TGG + chr5.1:64245377-64245396 None:intergenic 25.0%
!!! TCCAATCAACTTAGTTTTTA+TGG - chr5.1:64245373-64245392 MS.gene56674:CDS 25.0%
AGTATCAGATCAAAGTTTCA+AGG + chr5.1:64245607-64245626 None:intergenic 30.0%
!! AGTTTAACTTGTTCTGTTGT+TGG + chr5.1:64245292-64245311 None:intergenic 30.0%
AGAGCAAGAATGTGTTCTAT+TGG - chr5.1:64245404-64245423 MS.gene56674:CDS 35.0%
AGTAGTTTCCATGGTAAAAG+TGG - chr5.1:64245226-64245245 MS.gene56674:intron 35.0%
GTTTCAGAATCACAAAGCTA+GGG - chr5.1:64245426-64245445 MS.gene56674:CDS 35.0%
TTCTGAATTTGATCAGTGCT+TGG + chr5.1:64245349-64245368 None:intergenic 35.0%
!!! GGTTTCTTTTGATGATGACA+AGG - chr5.1:64245468-64245487 MS.gene56674:CDS 35.0%
GGAAAGACAAAAACGTCGTA+AGG - chr5.1:64245447-64245466 MS.gene56674:CDS 40.0%
GGTTTCAGAATCACAAAGCT+AGG - chr5.1:64245425-64245444 MS.gene56674:CDS 40.0%
TCATCTGGAAGTAGTTTCCA+TGG - chr5.1:64245217-64245236 MS.gene56674:intron 40.0%
! GGCTTTTGCATGAAATCATC+TGG - chr5.1:64245202-64245221 MS.gene56674:intron 40.0%
! TGACTGAACTTTTCAGAGCA+GGG - chr5.1:64245314-64245333 MS.gene56674:intron 40.0%
! CTGACTGAACTTTTCAGAGC+AGG - chr5.1:64245313-64245332 MS.gene56674:intron 45.0%
!! TGCTGCTTCCACTTTTACCA+TGG + chr5.1:64245237-64245256 None:intergenic 45.0%
CTGGCACAAAGTGTGGTCGT+TGG - chr5.1:64245263-64245282 MS.gene56674:intron 55.0%
!! AGCAGCACTGGCACAAAGTG+TGG - chr5.1:64245256-64245275 MS.gene56674:intron 55.0%
AGTGGAAGCAGCAGCAGCAC+TGG - chr5.1:64245244-64245263 MS.gene56674:intron 60.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 64245184 64245669 64245184 ID=MS.gene56674
chr5.1 mRNA 64245184 64245669 64245184 ID=MS.gene56674.t1;Parent=MS.gene56674
chr5.1 exon 64245318 64245669 64245318 ID=MS.gene56674.t1.exon1;Parent=MS.gene56674.t1
chr5.1 CDS 64245318 64245669 64245318 ID=cds.MS.gene56674.t1;Parent=MS.gene56674.t1
chr5.1 exon 64245184 64245212 64245184 ID=MS.gene56674.t1.exon2;Parent=MS.gene56674.t1
chr5.1 CDS 64245184 64245212 64245184 ID=cds.MS.gene56674.t1;Parent=MS.gene56674.t1
Gene Sequence

>MS.gene56674

ATGGAAGAGAGCATGTCAGGCTTTTGCATGAAATCATCTGGAAGTAGTTTCCATGGTAAAAGTGGAAGCAGCAGCAGCACTGGCACAAAGTGTGGTCGTTGGAATCCAACAACAGAACAAGTTAAACTTCTGACTGAACTTTTCAGAGCAGGGCTCAGAACTCCAAGCACTGATCAAATTCAGAAAATATCCAATCAACTTAGTTTTTATGGTAAGATAGAGAGCAAGAATGTGTTCTATTGGTTTCAGAATCACAAAGCTAGGGAAAGACAAAAACGTCGTAAGGTTTCTTTTGATGATGACAAGGATGTCATAGTTCATAGAGACAACTCTATGAATGCTTCAACACAAAGTAAGTCAAAAATCACTTACTCTATTTACCGACACAACTCATTTATTCATTTACTTTCGTATCAATTTCCTTGAAACTTTGATCTGATACTATGTTAATCACAAGATCTAAGAGATAAAGATCCATCTCGTTAG
Protein sequence

>MS.gene56674.t1

MEESMSGFCMKSSGSSFHGKSGSSSSTGTKCGRWNPTTEQVKLLTELFRAGLRTPSTDQIQKISNQLSFYGKIESKNVFYWFQNHKARERQKRRKVSFDDDKDVIVHRDNSMNASTQNLRDKDPSR