AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene064463

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064463.t1 MTR_1g063260 93.636 110 5 1 1 110 1 108 8.35e-72 209
MS.gene064463.t1 MTR_1g063300 86.239 109 11 1 1 109 1 105 2.63e-65 192
MS.gene064463.t1 MTR_1g063280 87.037 108 13 1 1 108 1 107 1.19e-64 191
MS.gene064463.t1 MTR_1g063290 85.455 110 12 1 1 110 1 106 8.34e-64 189
MS.gene064463.t1 MTR_1g063330 55.046 109 38 1 1 109 1 98 2.50e-36 119
MS.gene064463.t1 MTR_1g063340 52.294 109 41 1 1 109 1 98 8.90e-35 115
MS.gene064463.t1 MTR_1g063310 55.140 107 31 1 1 107 1 90 8.15e-34 113
MS.gene064463.t1 MTR_7g101890 47.297 74 39 0 37 110 46 119 8.17e-23 85.9
MS.gene064463.t1 MTR_4g057810 50.725 69 34 0 40 108 35 103 5.34e-19 76.3
MS.gene064463.t1 MTR_2g095430 41.558 77 43 1 34 108 36 112 2.83e-17 72.0
MS.gene064463.t1 MTR_7g101920 44.776 67 37 0 43 109 35 101 4.17e-16 68.6
MS.gene064463.t1 MTR_3g092220 32.292 96 61 2 19 110 8 103 7.75e-15 65.5
MS.gene064463.t1 MTR_4g057800 46.377 69 35 1 39 105 34 102 2.81e-14 64.3
MS.gene064463.t1 MTR_8g026730 43.548 62 35 0 43 104 27 88 2.25e-13 61.2
MS.gene064463.t1 MTR_1g009150 44.444 72 38 1 34 105 62 131 1.91e-12 60.5
MS.gene064463.t1 MTR_7g118010 41.935 62 36 0 43 104 23 84 2.56e-12 58.5
MS.gene064463.t1 MTR_4g005320 45.455 66 34 1 40 105 67 130 6.81e-12 58.9
MS.gene064463.t1 MTR_1g061570 38.889 72 42 1 34 105 10 79 2.39e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064463.t1 AT3G09870 42.308 78 44 1 34 110 36 113 2.27e-17 72.0
MS.gene064463.t1 AT2G28085 47.222 72 36 1 39 108 51 122 5.37e-15 65.9
MS.gene064463.t1 AT4G00880 33.019 106 55 3 8 110 6 98 1.77e-12 59.7
MS.gene064463.t1 AT2G46690 39.726 73 40 2 42 110 23 95 7.39e-12 57.8
MS.gene064463.t1 AT3G61900 38.356 73 44 1 25 96 12 84 7.79e-12 58.2
MS.gene064463.t1 AT3G43120 42.254 71 39 1 27 97 63 131 1.10e-11 58.2

Find 19 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGCTTGATTCATTTGT+TGG 0.341379 1.4:+52044245 None:intergenic
GATGATGCTTGGGAGGAGTA+TGG 0.392995 1.4:+52044479 MS.gene064463:CDS
CTTTGCTGTTCTTGCAAAGA+AGG 0.394733 1.4:+52044388 MS.gene064463:CDS
TGGGATTGCTTGATGATGCT+TGG 0.395014 1.4:+52044468 MS.gene064463:CDS
GGGATTGCTTGATGATGCTT+GGG 0.409014 1.4:+52044469 MS.gene064463:CDS
GAAACTAGAAGGTTTATTGT+TGG 0.428359 1.4:+52044416 MS.gene064463:CDS
AAATGCTTGATTCATTTGTT+GGG 0.431852 1.4:+52044246 None:intergenic
CTCACTTGTGGTTGTGATTG+TGG 0.437138 1.4:-52044339 None:intergenic
GGAGTATGGTTTCAGACAAA+AGG 0.443046 1.4:+52044493 MS.gene064463:CDS
AGAAGGGTGTAGAAACTAGA+AGG 0.457872 1.4:+52044405 MS.gene064463:CDS
GCTTGATTCATTTGTTGGGA+AGG 0.508242 1.4:+52044250 MS.gene064463:CDS
GAACTCTCGTTGTTCCGTGC+CGG 0.527691 1.4:+52044516 MS.gene064463:CDS
TACAAAACATTCTAGATAGT+CGG 0.531235 1.4:+52044549 MS.gene064463:CDS
TTTGCTGTTCTTGCAAAGAA+GGG 0.553621 1.4:+52044389 MS.gene064463:CDS
GAGTATGGTTTCAGACAAAA+GGG 0.556094 1.4:+52044494 MS.gene064463:CDS
ATCATCAGCAAGCTCACTTG+TGG 0.599516 1.4:-52044351 None:intergenic
ATTGCTTGATGATGCTTGGG+AGG 0.606537 1.4:+52044472 MS.gene064463:CDS
CTTGCTGATGATGTTATGAA+AGG 0.606752 1.4:+52044362 MS.gene064463:CDS
TGTAAGTCGATCGGCCGGCA+CGG 0.614103 1.4:-52044530 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TACAAAACATTCTAGATAGT+CGG + chr1.4:52044549-52044568 MS.gene064463:CDS 25.0%
GAAACTAGAAGGTTTATTGT+TGG + chr1.4:52044416-52044435 MS.gene064463:CDS 30.0%
! AGAATGTTTTGTAAGTCGAT+CGG - chr1.4:52044542-52044561 None:intergenic 30.0%
!!! TAACTCAGTGCATGTTTTTT+TGG - chr1.4:52044302-52044321 None:intergenic 30.0%
!!! TTAACTGATCCTGCTTTTTT+GGG + chr1.4:52044449-52044468 MS.gene064463:CDS 30.0%
AAAAACATGCACTGAGTTAC+AGG + chr1.4:52044303-52044322 MS.gene064463:CDS 35.0%
GAGTATGGTTTCAGACAAAA+GGG + chr1.4:52044494-52044513 MS.gene064463:CDS 35.0%
! CTTGCTGATGATGTTATGAA+AGG + chr1.4:52044362-52044381 MS.gene064463:CDS 35.0%
!! TTTGCTGTTCTTGCAAAGAA+GGG + chr1.4:52044389-52044408 MS.gene064463:CDS 35.0%
!!! CTTAACTGATCCTGCTTTTT+TGG + chr1.4:52044448-52044467 MS.gene064463:CDS 35.0%
GGAGTATGGTTTCAGACAAA+AGG + chr1.4:52044493-52044512 MS.gene064463:CDS 40.0%
TCAAGCAATCCCAAAAAAGC+AGG - chr1.4:52044461-52044480 None:intergenic 40.0%
! AGAAGGGTGTAGAAACTAGA+AGG + chr1.4:52044405-52044424 MS.gene064463:CDS 40.0%
! GCTTGATTCATTTGTTGGGA+AGG + chr1.4:52044250-52044269 MS.gene064463:CDS 40.0%
!! CTTTGCTGTTCTTGCAAAGA+AGG + chr1.4:52044388-52044407 MS.gene064463:CDS 40.0%
ATCATCAGCAAGCTCACTTG+TGG - chr1.4:52044354-52044373 None:intergenic 45.0%
CTCACTTGTGGTTGTGATTG+TGG - chr1.4:52044342-52044361 None:intergenic 45.0%
! TGTTTTGTAAGTCGATCGGC+CGG - chr1.4:52044538-52044557 None:intergenic 45.0%
!! ATTGCTTGATGATGCTTGGG+AGG + chr1.4:52044472-52044491 MS.gene064463:CDS 45.0%
!! GGGATTGCTTGATGATGCTT+GGG + chr1.4:52044469-52044488 MS.gene064463:CDS 45.0%
!! TGGGATTGCTTGATGATGCT+TGG + chr1.4:52044468-52044487 MS.gene064463:CDS 45.0%
GATGATGCTTGGGAGGAGTA+TGG + chr1.4:52044479-52044498 MS.gene064463:CDS 50.0%
GAACTCTCGTTGTTCCGTGC+CGG + chr1.4:52044516-52044535 MS.gene064463:CDS 55.0%
TGTAAGTCGATCGGCCGGCA+CGG - chr1.4:52044533-52044552 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 52044248 52044580 52044248 ID=MS.gene064463
chr1.4 mRNA 52044248 52044580 52044248 ID=MS.gene064463.t1;Parent=MS.gene064463
chr1.4 exon 52044248 52044580 52044248 ID=MS.gene064463.t1.exon1;Parent=MS.gene064463.t1
chr1.4 CDS 52044248 52044580 52044248 ID=cds.MS.gene064463.t1;Parent=MS.gene064463.t1
Gene Sequence

>MS.gene064463

ATGCTTGATTCATTTGTTGGGAAGGTACAAAAGAGTTTATCACTCTTTGTACCAAAAAAACATGCACTGAGTTACAGGAATGAAGATCATGCCACAATCACAACCACAAGTGAGCTTGCTGATGATGTTATGAAAGGTTACTTTGCTGTTCTTGCAAAGAAGGGTGTAGAAACTAGAAGGTTTATTGTTGGATTAGATTACTTAACTGATCCTGCTTTTTTGGGATTGCTTGATGATGCTTGGGAGGAGTATGGTTTCAGACAAAAGGGAACTCTCGTTGTTCCGTGCCGGCCGATCGACTTACAAAACATTCTAGATAGTCGGAAAACATAG
Protein sequence

>MS.gene064463.t1

MLDSFVGKVQKSLSLFVPKKHALSYRNEDHATITTTSELADDVMKGYFAVLAKKGVETRRFIVGLDYLTDPAFLGLLDDAWEEYGFRQKGTLVVPCRPIDLQNILDSRKT