AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene80091

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80091.t1 MTR_1g105010 69.600 125 27 3 1 120 1 119 1.91e-50 156
MS.gene80091.t1 MTR_1g105960 45.783 83 40 1 12 94 2 79 1.04e-20 80.9
MS.gene80091.t1 MTR_8g062700 49.367 79 40 0 1 79 32 110 4.97e-20 85.1
MS.gene80091.t1 MTR_1g104940 47.368 76 40 0 4 79 7 82 5.13e-20 79.7
MS.gene80091.t1 MTR_1g105955 54.930 71 32 0 8 78 13 83 5.16e-20 81.3
MS.gene80091.t1 MTR_1g105955 54.286 70 32 0 10 79 94 163 2.47e-18 76.6
MS.gene80091.t1 MTR_8g062700 49.367 79 40 0 1 79 32 110 5.22e-20 84.7
MS.gene80091.t1 MTR_5g036670 49.315 73 37 0 7 79 39 111 8.52e-19 81.3
MS.gene80091.t1 MTR_1g104937 53.623 69 32 0 11 79 12 80 1.51e-18 75.5
MS.gene80091.t1 MTR_6g008970 44.444 90 43 2 7 96 59 141 3.37e-18 79.7
MS.gene80091.t1 MTR_7g089490 49.275 69 35 0 11 79 16 84 7.05e-18 73.9
MS.gene80091.t1 MTR_1g104960 51.429 70 34 0 10 79 98 167 9.91e-18 75.1
MS.gene80091.t1 MTR_1g104960 48.649 74 38 0 6 79 8 81 7.92e-14 65.1
MS.gene80091.t1 MTR_3g006125 45.882 85 41 2 4 83 173 257 3.32e-16 72.4
MS.gene80091.t1 MTR_3g006065 51.515 66 31 1 10 74 89 154 3.69e-15 68.6
MS.gene80091.t1 MTR_6g008995 41.026 78 46 0 7 84 33 110 5.09e-15 70.5
MS.gene80091.t1 MTR_3g006185 44.186 86 43 2 3 83 90 175 6.93e-15 67.8
MS.gene80091.t1 MTR_8g062350 44.000 75 42 0 4 78 7 81 1.54e-14 67.4
MS.gene80091.t1 MTR_3g006150 51.515 66 31 1 10 74 89 154 1.87e-14 66.2
MS.gene80091.t1 MTR_3g006150 40.845 71 39 1 8 78 5 72 9.73e-11 56.6
MS.gene80091.t1 MTR_7g013410 46.774 62 33 0 18 79 5 66 3.96e-14 64.7
MS.gene80091.t1 MTR_4g133300 47.945 73 38 0 7 79 85 157 1.11e-13 65.9
MS.gene80091.t1 MTR_4g133300 46.970 66 35 0 14 79 175 240 1.83e-13 65.1
MS.gene80091.t1 MTR_4g133300 53.846 52 24 0 27 78 25 76 3.87e-11 58.9
MS.gene80091.t1 MTR_4g133470 46.970 66 35 0 14 79 175 240 1.15e-13 65.5
MS.gene80091.t1 MTR_4g133470 46.575 73 39 0 7 79 85 157 8.99e-13 63.2
MS.gene80091.t1 MTR_4g133470 53.846 52 24 0 27 78 25 76 3.30e-11 58.9
MS.gene80091.t1 MTR_1g091047 49.231 65 32 1 10 73 8 72 1.22e-13 62.0
MS.gene80091.t1 MTR_1g104980 48.485 66 34 0 13 78 1 66 2.48e-13 63.5
MS.gene80091.t1 MTR_1g104980 48.485 66 34 0 14 79 73 138 6.89e-13 62.4
MS.gene80091.t1 MTR_3g006000 52.239 67 29 3 10 74 6 71 1.10e-12 59.7
MS.gene80091.t1 MTR_1g093310 41.667 72 36 1 8 79 6 71 2.52e-12 58.5
MS.gene80091.t1 MTR_1g109550 47.541 61 31 1 18 78 23 82 3.72e-12 59.7
MS.gene80091.t1 MTR_7g013380 44.286 70 37 1 11 78 185 254 7.29e-12 61.2
MS.gene80091.t1 MTR_7g013380 44.615 65 34 1 11 73 99 163 1.30e-11 60.5
MS.gene80091.t1 MTR_7g013380 46.875 64 32 1 12 73 14 77 2.15e-11 59.7
MS.gene80091.t1 MTR_3g006105 42.857 77 43 1 4 79 92 168 7.77e-12 59.7
MS.gene80091.t1 MTR_3g006105 38.554 83 50 1 11 92 8 90 2.50e-11 58.5
MS.gene80091.t1 MTR_2g097830 44.048 84 40 2 10 89 69 149 8.36e-12 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80091.t1 AT1G24190 51.250 80 35 1 4 79 3 82 3.09e-21 88.6
MS.gene80091.t1 AT1G24190 51.250 80 35 1 4 79 3 82 3.25e-21 88.6
MS.gene80091.t1 AT1G24190 51.250 80 35 1 4 79 3 82 3.28e-21 88.6
MS.gene80091.t1 AT1G70060 52.055 73 35 0 7 79 10 82 1.33e-19 84.0
MS.gene80091.t1 AT1G70060 52.055 73 35 0 7 79 10 82 1.33e-19 84.0
MS.gene80091.t1 AT3G01320 47.945 73 38 0 7 79 53 125 2.58e-19 82.8
MS.gene80091.t1 AT3G01320 47.945 73 38 0 7 79 53 125 2.60e-19 82.8
MS.gene80091.t1 AT1G24200 37.302 126 67 4 8 129 11 128 3.14e-18 77.0
MS.gene80091.t1 AT5G15020 45.333 75 41 0 7 81 48 122 4.54e-18 79.3
MS.gene80091.t1 AT5G15020 45.333 75 41 0 7 81 48 122 4.72e-18 79.3
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.34e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.39e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.40e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.40e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.42e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.43e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 235 308 1.46e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.46e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.48e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.48e-15 72.4
MS.gene80091.t1 AT4G12020 46.667 75 39 1 5 79 302 375 1.49e-15 72.4
MS.gene80091.t1 AT1G27250 40.541 74 44 0 7 80 17 90 1.86e-15 68.2
MS.gene80091.t1 AT1G59890 44.928 69 38 0 11 79 45 113 2.67e-15 71.6
MS.gene80091.t1 AT1G59890 44.928 69 38 0 11 79 45 113 2.70e-15 71.6
MS.gene80091.t1 AT1G59890 44.928 69 38 0 11 79 45 113 2.72e-15 71.6
MS.gene80091.t1 AT1G59890 44.928 69 38 0 11 79 45 113 2.75e-15 71.6
MS.gene80091.t1 AT5G15025 38.158 76 47 0 6 81 42 117 1.52e-14 65.5
MS.gene80091.t1 AT1G70030 41.558 77 43 1 7 81 18 94 3.61e-14 64.7
MS.gene80091.t1 AT1G70030 32.812 128 73 4 7 129 7 126 4.31e-14 65.5
MS.gene80091.t1 AT1G70030 41.558 77 43 1 7 81 18 94 7.46e-14 64.3
MS.gene80091.t1 AT1G27220 36.486 74 47 0 7 80 10 83 1.42e-12 61.6
MS.gene80091.t1 AT1G10450 40.580 69 41 0 11 79 33 101 2.19e-12 63.2
MS.gene80091.t1 AT1G10450 40.580 69 41 0 11 79 33 101 2.19e-12 63.2
MS.gene80091.t1 AT1G23810 42.188 64 37 0 8 71 106 169 2.30e-12 62.0
MS.gene80091.t1 AT1G10450 40.580 69 41 0 11 79 84 152 2.33e-12 63.2
MS.gene80091.t1 AT1G27280 38.571 70 43 0 8 77 78 147 3.24e-12 61.6
MS.gene80091.t1 AT1G24230 43.478 69 38 1 6 73 9 77 4.36e-12 61.2
MS.gene80091.t1 AT1G24210 40.000 75 44 1 6 80 9 82 2.08e-11 58.2
MS.gene80091.t1 AT1G24250 42.188 64 37 0 8 71 117 180 2.39e-11 59.3
MS.gene80091.t1 AT5G15040 39.437 71 43 0 11 81 3 73 4.84e-11 55.5
MS.gene80091.t1 AT5G15040 39.437 71 43 0 11 81 3 73 4.84e-11 55.5
MS.gene80091.t1 AT5G15040 39.437 71 43 0 11 81 3 73 4.84e-11 55.5

Find 27 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATAAAATATTAGAGATTT+TGG 0.199052 1.1:-75213473 MS.gene80091:CDS
TGAAAGTCCTAAGCGATTAC+AGG 0.315902 1.1:-75213723 MS.gene80091:CDS
AGGATGGAGGAGCTGTTTAA+AGG 0.330709 1.1:-75213667 MS.gene80091:CDS
CTCTTGGCAATGCAGGATAA+AGG 0.369224 1.1:-75213835 MS.gene80091:intron
AAGAACCCACCTGATCGAAT+AGG 0.409769 1.1:-75213547 MS.gene80091:CDS
AAACGCTATTGCTTCTTCCT+TGG 0.431429 1.1:+75213801 None:intergenic
CAGTGATGACACTGGAGAAA+AGG 0.440953 1.1:-75213590 MS.gene80091:CDS
TCACTGATTTGAGATGGCTT+TGG 0.444928 1.1:+75213607 None:intergenic
GGATGGAGGAGCTGTTTAAA+GGG 0.456905 1.1:-75213666 MS.gene80091:CDS
AGAACCCACCTGATCGAATA+GGG 0.457483 1.1:-75213546 MS.gene80091:CDS
ATTTGCGACCCTATTCGATC+AGG 0.474283 1.1:+75213538 None:intergenic
TTGAGATGGCTTTGGCGTAA+AGG 0.479351 1.1:+75213615 None:intergenic
AGTTAAACTTCTGTCTCAAA+AGG 0.482056 1.1:-75213497 MS.gene80091:CDS
TGCGACCCTATTCGATCAGG+TGG 0.509774 1.1:+75213541 None:intergenic
GCTAAAAGAATTGATATAGC+AGG 0.520011 1.1:-75213700 MS.gene80091:CDS
GTGTCATCACTGATTTGAGA+TGG 0.558119 1.1:+75213601 None:intergenic
GAAAGTCCTAAGCGATTACA+GGG 0.564984 1.1:-75213722 MS.gene80091:CDS
AGTTAAGTTTCAAGACAAGA+GGG 0.571152 1.1:-75213764 MS.gene80091:CDS
AAGTTAAGTTTCAAGACAAG+AGG 0.577150 1.1:-75213765 MS.gene80091:CDS
AGCAGGTGTGACAACAAGGA+TGG 0.585519 1.1:-75213683 MS.gene80091:CDS
GCGACCCTATTCGATCAGGT+GGG 0.613931 1.1:+75213542 None:intergenic
ATATAGCAGGTGTGACAACA+AGG 0.623415 1.1:-75213687 MS.gene80091:CDS
TCTCAAATCAGTGATGACAC+TGG 0.643527 1.1:-75213598 MS.gene80091:CDS
AGGTGTGACAACAAGGATGG+AGG 0.648111 1.1:-75213680 MS.gene80091:CDS
TAAAGGTGGTGGTGTAACCA+AGG 0.651615 1.1:-75213818 MS.gene80091:CDS
GCAATGCAGGATAAAGGTGG+TGG 0.669430 1.1:-75213829 MS.gene80091:intron
TTGGCAATGCAGGATAAAGG+TGG 0.685630 1.1:-75213832 MS.gene80091:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATAAAATATTAGAGATTT+TGG - chr1.1:75214093-75214112 MS.gene80091:intron 15.0%
!! CTTAATAAGTTAATTTCTCT+TGG - chr1.1:75213715-75213734 MS.gene80091:CDS 20.0%
!!! TAAAATATTAGAGATTTTGG+AGG - chr1.1:75214096-75214115 MS.gene80091:intron 20.0%
!!! TTATTTTTTCCTTCCAATTT+TGG - chr1.1:75213476-75213495 MS.gene80091:CDS 20.0%
!!! TTTTTTTTGAGAGATTGAAT+TGG - chr1.1:75213529-75213548 MS.gene80091:CDS 20.0%
! AGGAGTTTAATTAGTATGAT+AGG + chr1.1:75213672-75213691 None:intergenic 25.0%
! ATTCAAAACAAAGCCAAAAT+TGG + chr1.1:75213492-75213511 None:intergenic 25.0%
! CATATACATGTATAATGTGT+TGG - chr1.1:75213582-75213601 MS.gene80091:CDS 25.0%
!!! ATTTTGGCTTTGTTTTGAAT+TGG - chr1.1:75213492-75213511 MS.gene80091:CDS 25.0%
AAAACAAAGCCAAAATTGGA+AGG + chr1.1:75213488-75213507 None:intergenic 30.0%
AAGTTAAGTTTCAAGACAAG+AGG - chr1.1:75213801-75213820 MS.gene80091:CDS 30.0%
AGTTAAACTTCTGTCTCAAA+AGG - chr1.1:75214069-75214088 MS.gene80091:intron 30.0%
AGTTAAGTTTCAAGACAAGA+GGG - chr1.1:75213802-75213821 MS.gene80091:CDS 30.0%
GCTAAAAGAATTGATATAGC+AGG - chr1.1:75213866-75213885 MS.gene80091:intron 30.0%
GGCATGTCAATCAATTAATA+TGG - chr1.1:75213603-75213622 MS.gene80091:CDS 30.0%
GTAACAAGCATGTTTAATTC+AGG + chr1.1:75213692-75213711 None:intergenic 30.0%
TTAATTTCTCTTGGCAATGC+AGG - chr1.1:75213724-75213743 MS.gene80091:CDS 35.0%
AAACGCTATTGCTTCTTCCT+TGG + chr1.1:75213768-75213787 None:intergenic 40.0%
ATATAGCAGGTGTGACAACA+AGG - chr1.1:75213879-75213898 MS.gene80091:intron 40.0%
GAAAGTCCTAAGCGATTACA+GGG - chr1.1:75213844-75213863 MS.gene80091:intron 40.0%
TCTCAAATCAGTGATGACAC+TGG - chr1.1:75213968-75213987 MS.gene80091:intron 40.0%
TGAAAGTCCTAAGCGATTAC+AGG - chr1.1:75213843-75213862 MS.gene80091:intron 40.0%
! TTTTAGCCCTGTAATCGCTT+AGG + chr1.1:75213853-75213872 None:intergenic 40.0%
!! GTGTCATCACTGATTTGAGA+TGG + chr1.1:75213968-75213987 None:intergenic 40.0%
!! TCACTGATTTGAGATGGCTT+TGG + chr1.1:75213962-75213981 None:intergenic 40.0%
AAGAACCCACCTGATCGAAT+AGG - chr1.1:75214019-75214038 MS.gene80091:intron 45.0%
AGAACCCACCTGATCGAATA+GGG - chr1.1:75214020-75214039 MS.gene80091:intron 45.0%
AGGATGGAGGAGCTGTTTAA+AGG - chr1.1:75213899-75213918 MS.gene80091:intron 45.0%
ATTTGCGACCCTATTCGATC+AGG + chr1.1:75214031-75214050 None:intergenic 45.0%
CAGTGATGACACTGGAGAAA+AGG - chr1.1:75213976-75213995 MS.gene80091:intron 45.0%
CTCTTGGCAATGCAGGATAA+AGG - chr1.1:75213731-75213750 MS.gene80091:CDS 45.0%
GGATGGAGGAGCTGTTTAAA+GGG - chr1.1:75213900-75213919 MS.gene80091:intron 45.0%
TTGGCAATGCAGGATAAAGG+TGG - chr1.1:75213734-75213753 MS.gene80091:CDS 45.0%
! TAAAGGTGGTGGTGTAACCA+AGG - chr1.1:75213748-75213767 MS.gene80091:CDS 45.0%
!! TTGAGATGGCTTTGGCGTAA+AGG + chr1.1:75213954-75213973 None:intergenic 45.0%
AGCAGGTGTGACAACAAGGA+TGG - chr1.1:75213883-75213902 MS.gene80091:intron 50.0%
AGGTGTGACAACAAGGATGG+AGG - chr1.1:75213886-75213905 MS.gene80091:intron 50.0%
GCAATGCAGGATAAAGGTGG+TGG - chr1.1:75213737-75213756 MS.gene80091:CDS 50.0%
GCGACCCTATTCGATCAGGT+GGG + chr1.1:75214027-75214046 None:intergenic 55.0%
GGCAACACGTCACACATGCA+TGG - chr1.1:75213624-75213643 MS.gene80091:CDS 55.0%
TGCGACCCTATTCGATCAGG+TGG + chr1.1:75214028-75214047 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 75213453 75214135 75213453 ID=MS.gene80091
chr1.1 mRNA 75213453 75214135 75213453 ID=MS.gene80091.t1;Parent=MS.gene80091
chr1.1 exon 75214133 75214135 75214133 ID=MS.gene80091.t1.exon1;Parent=MS.gene80091.t1
chr1.1 CDS 75214133 75214135 75214133 ID=cds.MS.gene80091.t1;Parent=MS.gene80091.t1
chr1.1 exon 75213453 75213842 75213453 ID=MS.gene80091.t1.exon2;Parent=MS.gene80091.t1
chr1.1 CDS 75213453 75213842 75213453 ID=cds.MS.gene80091.t1;Parent=MS.gene80091.t1
Gene Sequence

>MS.gene80091

ATGGTATGAGCTTTCTTCAATAATTATTTTTTCCTTCCAATTTTGGCTTTGTTTTGAATTGGATTGAATATTTTTTTTTTTTTTGAGAGATTGAATTGGATTGAGTATAACTAGCATGTAAGTAATTAGCATATACATGTATAATGTGTTGGCATGTCAATCAATTAATATGGCAACACGTCACACATGCATGGTGTAAAAATAATTGTATACTAACCTATCATACTAATTAAACTCCTGAATTAAACATGCTTGTTACTCTCTTAATAAGTTAATTTCTCTTGGCAATGCAGGATAAAGGTGGTGGTGTAACCAAGGAAGAAGCAATAGCGTTTGTACTTGATGTAAAAGTTAAGTTTCAAGACAAGAGGGAAAAGTATGATGAATTTTTGAAAGTCCTAAGCGATTACAGGGCTAAAAGAATTGATATAGCAGGTGTGACAACAAGGATGGAGGAGCTGTTTAAAGGGCATTCAGATTTGATTTTGAAATTCAAATCCTTTACGCCAAAGCCATCTCAAATCAGTGATGACACTGGAGAAAAGGAAGAAGACACTGATGAACAGAAGAACCCACCTGATCGAATAGGGTCGCAAATTCAACTTATATCTCAAGAAGTTAAACTTCTGTCTCAAAAGGCTGATAAAATATTAGAGATTTTGGAGGAGAAGAAGAAAGTATAA
Protein sequence

>MS.gene80091.t1

MDKGGGVTKEEAIAFVLDVKVKFQDKREKYDEFLKVLSDYRAKRIDIAGVTTRMEELFKGHSDLILKFKSFTPKPSQISDDTGEKEEDTDEQKNPPDRIGSQIQLISQEVKLLSQKADKILEILEEKKKV