AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene42430

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene42430.t1 MTR_7g077650 71.717 198 47 3 1 190 99 295 3.26e-91 271
MS.gene42430.t1 MTR_7g077620 69.072 194 54 3 2 190 101 293 3.56e-88 264
MS.gene42430.t1 MTR_7g077660 70.103 194 51 4 2 190 99 290 7.86e-86 257
MS.gene42430.t1 MTR_7g076110 50.521 192 85 5 6 188 38 228 3.46e-55 177
MS.gene42430.t1 MTR_7g076100 53.165 158 66 4 39 190 66 221 2.59e-46 154
MS.gene42430.t1 MTR_7g076130 56.410 117 47 2 71 184 27 142 2.97e-38 129
MS.gene42430.t1 MTR_1g108740 42.473 186 94 7 6 188 97 272 2.86e-36 129
MS.gene42430.t1 MTR_5g038260 42.500 200 91 7 6 188 96 288 4.53e-36 129
MS.gene42430.t1 MTR_5g038230 40.000 200 70 7 6 188 94 260 1.85e-32 119
MS.gene42430.t1 MTR_5g082770 40.933 193 85 5 6 184 90 267 1.32e-31 115
MS.gene42430.t1 MTR_1g064570 33.778 225 102 8 2 188 90 305 5.64e-22 92.0
MS.gene42430.t1 MTR_5g082780 32.474 194 89 7 15 190 1 170 1.00e-21 89.0
MS.gene42430.t1 MTR_1g016150 48.276 87 41 3 6 89 106 191 7.89e-17 75.9
MS.gene42430.t1 MTR_6g023955 41.837 98 53 3 41 137 73 167 9.65e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 29 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAGGATTGTTTAGCTTTA+AGG 0.194494 7.2:+28438576 None:intergenic
AAAGAGCAAGCCAATCATTT+TGG 0.202770 7.2:-28438690 MS.gene42430:CDS
GGAGGAATACTACATTTAAA+AGG 0.278895 7.2:+28438829 None:intergenic
ACCTCTCGAATCTCTCAAAA+AGG 0.330053 7.2:-28438794 MS.gene42430:CDS
CCATCATAACAACGTAGTTT+TGG 0.331154 7.2:+28438487 None:intergenic
TTCGAGAGGTGGCAGACTAA+TGG 0.374836 7.2:+28438807 None:intergenic
CCATGGTTGGCTTGCATTGG+TGG 0.397590 7.2:-28438881 MS.gene42430:CDS
CCAAAACTACGTTGTTATGA+TGG 0.407066 7.2:-28438487 MS.gene42430:CDS
TCGAGAGGTGGCAGACTAAT+GGG 0.438780 7.2:+28438808 None:intergenic
ACTAGCCATCTTCTCATAGT+AGG 0.443005 7.2:+28438525 None:intergenic
TAGCCATGGTTGGCTTGCAT+TGG 0.461010 7.2:-28438884 MS.gene42430:CDS
TAATCACTTGGATTTGTCAT+GGG 0.490766 7.2:+28438754 None:intergenic
CTACGCGAATCCAAAATGAT+TGG 0.502017 7.2:+28438680 None:intergenic
TGAGAAGATGCTTAATCGAC+GGG 0.520399 7.2:-28438420 MS.gene42430:CDS
AATCATTGACCGGAGACATA+TGG 0.521122 7.2:-28438447 MS.gene42430:CDS
AATGATTTCACAAAATAAGC+AGG 0.533478 7.2:+28438463 None:intergenic
ATAATCACTTGGATTTGTCA+TGG 0.537229 7.2:+28438753 None:intergenic
TGTCATGGGGTCAGCAGACA+AGG 0.556574 7.2:+28438768 None:intergenic
TCTCATCAACCATATGTCTC+CGG 0.558876 7.2:+28438438 None:intergenic
ATGAGAAGATGCTTAATCGA+CGG 0.569894 7.2:-28438421 MS.gene42430:CDS
GACAAATCCAAGTGATTATG+TGG 0.574598 7.2:-28438749 MS.gene42430:CDS
ATTGGAACTGAATGCTAGAG+TGG 0.576030 7.2:-28438371 MS.gene42430:CDS
CGATCAATTGAGTCATCAGA+AGG 0.588157 7.2:+28438556 None:intergenic
GTTTAGCTTTAAGGATACAA+TGG 0.589562 7.2:+28438585 None:intergenic
GCTGCAACCACATAATCACT+TGG 0.591162 7.2:+28438742 None:intergenic
AATCACTTGGATTTGTCATG+GGG 0.596697 7.2:+28438755 None:intergenic
TCAATTGAGTCATCAGAAGG+AGG 0.655171 7.2:+28438559 None:intergenic
CCACCAATGCAAGCCAACCA+TGG 0.665097 7.2:+28438881 None:intergenic
AGAGGTGGCAGACTAATGGG+AGG 0.718242 7.2:+28438811 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACGAATATTGTGTTTTATAA+AGG - chr7.2:28438621-28438640 MS.gene42430:CDS 20.0%
! AATGATTTCACAAAATAAGC+AGG + chr7.2:28438798-28438817 None:intergenic 25.0%
!! TATTGTGTTTTATAAAGGCT+TGG - chr7.2:28438626-28438645 MS.gene42430:CDS 25.0%
!! TATTTTGTGAAATCATTGAC+CGG - chr7.2:28438801-28438820 MS.gene42430:CDS 25.0%
ATAATCACTTGGATTTGTCA+TGG + chr7.2:28438508-28438527 None:intergenic 30.0%
GGAGGAATACTACATTTAAA+AGG + chr7.2:28438432-28438451 None:intergenic 30.0%
TAATCACTTGGATTTGTCAT+GGG + chr7.2:28438507-28438526 None:intergenic 30.0%
! CAAAATGCACGTTTTCAAAT+TGG - chr7.2:28438869-28438888 MS.gene42430:CDS 30.0%
! TTTTTCCTACTATGAGAAGA+TGG - chr7.2:28438728-28438747 MS.gene42430:CDS 30.0%
!! GTTTAGCTTTAAGGATACAA+TGG + chr7.2:28438676-28438695 None:intergenic 30.0%
!!! CGTAGTTTTGGAATCATATA+TGG + chr7.2:28438762-28438781 None:intergenic 30.0%
AATCACTTGGATTTGTCATG+GGG + chr7.2:28438506-28438525 None:intergenic 35.0%
ATGAGAAGATGCTTAATCGA+CGG - chr7.2:28438837-28438856 MS.gene42430:CDS 35.0%
CCAAAACTACGTTGTTATGA+TGG - chr7.2:28438771-28438790 MS.gene42430:CDS 35.0%
GACAAATCCAAGTGATTATG+TGG - chr7.2:28438509-28438528 MS.gene42430:CDS 35.0%
! AAAGAGCAAGCCAATCATTT+TGG - chr7.2:28438568-28438587 MS.gene42430:CDS 35.0%
! CCATCATAACAACGTAGTTT+TGG + chr7.2:28438774-28438793 None:intergenic 35.0%
!! AGGAGGATTGTTTAGCTTTA+AGG + chr7.2:28438685-28438704 None:intergenic 35.0%
AATCATTGACCGGAGACATA+TGG - chr7.2:28438811-28438830 MS.gene42430:CDS 40.0%
ACCTCTCGAATCTCTCAAAA+AGG - chr7.2:28438464-28438483 MS.gene42430:CDS 40.0%
ACTAGCCATCTTCTCATAGT+AGG + chr7.2:28438736-28438755 None:intergenic 40.0%
ATTGGAACTGAATGCTAGAG+TGG - chr7.2:28438887-28438906 MS.gene42430:CDS 40.0%
CGATCAATTGAGTCATCAGA+AGG + chr7.2:28438705-28438724 None:intergenic 40.0%
CTACGCGAATCCAAAATGAT+TGG + chr7.2:28438581-28438600 None:intergenic 40.0%
TCAATTGAGTCATCAGAAGG+AGG + chr7.2:28438702-28438721 None:intergenic 40.0%
TCTCATCAACCATATGTCTC+CGG + chr7.2:28438823-28438842 None:intergenic 40.0%
TGAGAAGATGCTTAATCGAC+GGG - chr7.2:28438838-28438857 MS.gene42430:CDS 40.0%
!! ACCTTTTTGAGAGATTCGAG+AGG + chr7.2:28438468-28438487 None:intergenic 40.0%
!! TTTTTGAGAGATTCGAGAGG+TGG + chr7.2:28438465-28438484 None:intergenic 40.0%
GCTGCAACCACATAATCACT+TGG + chr7.2:28438519-28438538 None:intergenic 45.0%
!!! TTGTTTTTGGGCTGTAGCCA+TGG - chr7.2:28438360-28438379 MS.gene42430:CDS 45.0%
TCGAGAGGTGGCAGACTAAT+GGG + chr7.2:28438453-28438472 None:intergenic 50.0%
TTCGAGAGGTGGCAGACTAA+TGG + chr7.2:28438454-28438473 None:intergenic 50.0%
! TTTTGGGCTGTAGCCATGGT+TGG - chr7.2:28438364-28438383 MS.gene42430:CDS 50.0%
!! TAGCCATGGTTGGCTTGCAT+TGG - chr7.2:28438374-28438393 MS.gene42430:CDS 50.0%
AGAGGTGGCAGACTAATGGG+AGG + chr7.2:28438450-28438469 None:intergenic 55.0%
CCACCAATGCAAGCCAACCA+TGG + chr7.2:28438380-28438399 None:intergenic 55.0%
TGTCATGGGGTCAGCAGACA+AGG + chr7.2:28438493-28438512 None:intergenic 55.0%
!! CCATGGTTGGCTTGCATTGG+TGG - chr7.2:28438377-28438396 MS.gene42430:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 28438354 28438926 28438354 ID=MS.gene42430
chr7.2 mRNA 28438354 28438926 28438354 ID=MS.gene42430.t1;Parent=MS.gene42430
chr7.2 exon 28438354 28438926 28438354 ID=MS.gene42430.t1.exon1;Parent=MS.gene42430.t1
chr7.2 CDS 28438354 28438926 28438354 ID=cds.MS.gene42430.t1;Parent=MS.gene42430.t1
Gene Sequence

>MS.gene42430

ATGAAATTGTTTTTGGGCTGTAGCCATGGTTGGCTTGCATTGGTGGATGATAACGATGTCATTACTCTAGTGAATCCTTTTAAATGTAGTATTCCTCCCATTAGTCTGCCACCTCTCGAATCTCTCAAAAAGGTTACCTTGTCTGCTGACCCCATGACAAATCCAAGTGATTATGTGGTTGCAGCAATTCACAAGTTTGTTTATCTCGCTTTCAAAAGAGCAAGCCAATCATTTTGGATTCGCGTAGACACAAATGAATTTACTTTCACGAATATTGTGTTTTATAAAGGCTTGGTATTTGCTGATAGCAACAGAGACACCATTGTATCCTTAAAGCTAAACAATCCTCCTTCTGATGACTCAATTGATCGTAATTTTTCCTACTATGAGAAGATGGCTAGTACTCCATATATGATTCCAAAACTACGTTGTTATGATGGACCTGCTTATTTTGTGAAATCATTGACCGGAGACATATGGTTGATGAGAAGATGCTTAATCGACGGGTTTTCTATCAAAATGCACGTTTTCAAATTGGAACTGAATGCTAGAGTGGAAAACTTGAACAAATGA
Protein sequence

>MS.gene42430.t1

MKLFLGCSHGWLALVDDNDVITLVNPFKCSIPPISLPPLESLKKVTLSADPMTNPSDYVVAAIHKFVYLAFKRASQSFWIRVDTNEFTFTNIVFYKGLVFADSNRDTIVSLKLNNPPSDDSIDRNFSYYEKMASTPYMIPKLRCYDGPAYFVKSLTGDIWLMRRCLIDGFSIKMHVFKLELNARVENLNK