AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91423

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91423.t1 MTR_1g104980 69.231 104 18 2 32 121 73 176 1.01e-40 133
MS.gene91423.t1 MTR_1g104980 60.294 68 27 0 31 98 1 68 2.41e-22 86.7
MS.gene91423.t1 MTR_1g104940 61.957 92 35 0 29 120 14 105 1.39e-36 121
MS.gene91423.t1 MTR_1g104937 63.441 93 34 0 25 117 8 100 1.25e-35 118
MS.gene91423.t1 MTR_1g104960 66.265 83 28 0 21 103 91 173 1.40e-33 115
MS.gene91423.t1 MTR_1g104960 63.830 94 33 1 21 114 6 98 5.37e-33 114
MS.gene91423.t1 MTR_8g062700 55.696 79 34 1 27 105 40 117 1.59e-21 89.0
MS.gene91423.t1 MTR_8g062700 55.696 79 34 1 27 105 40 117 1.61e-21 89.0
MS.gene91423.t1 MTR_1g104950 67.797 59 17 1 52 108 1 59 1.94e-20 79.3
MS.gene91423.t1 MTR_3g006150 47.674 86 42 1 29 114 8 90 1.63e-19 79.0
MS.gene91423.t1 MTR_3g006150 49.315 73 36 1 27 98 88 160 2.13e-13 63.2
MS.gene91423.t1 MTR_5g036670 47.500 80 42 0 27 106 41 120 1.66e-19 83.2
MS.gene91423.t1 MTR_1g105960 48.052 77 40 0 30 106 2 78 2.32e-19 77.0
MS.gene91423.t1 MTR_3g006105 47.872 94 43 2 27 114 6 99 7.56e-18 75.1
MS.gene91423.t1 MTR_1g105010 50.000 82 36 1 21 97 3 84 1.12e-17 73.2
MS.gene91423.t1 MTR_4g133300 41.176 119 65 2 1 114 56 174 2.70e-17 75.1
MS.gene91423.t1 MTR_4g133300 50.000 70 35 0 32 101 175 244 1.79e-16 72.8
MS.gene91423.t1 MTR_4g133300 45.556 90 43 3 25 112 8 93 7.40e-13 63.2
MS.gene91423.t1 MTR_1g105955 47.368 76 40 0 22 97 88 163 8.97e-17 72.4
MS.gene91423.t1 MTR_1g105955 44.000 75 42 0 27 101 14 88 3.13e-14 65.9
MS.gene91423.t1 MTR_4g133470 42.500 120 62 4 1 114 56 174 1.09e-16 73.6
MS.gene91423.t1 MTR_4g133470 50.000 70 35 0 32 101 175 244 2.01e-16 72.8
MS.gene91423.t1 MTR_4g133470 45.556 90 43 3 25 112 8 93 7.32e-13 63.2
MS.gene91423.t1 MTR_6g008970 46.154 78 42 0 27 104 61 138 4.48e-16 73.2
MS.gene91423.t1 MTR_3g006065 44.186 86 45 1 29 114 8 90 6.44e-16 70.1
MS.gene91423.t1 MTR_3g006065 47.561 82 40 2 27 105 88 169 2.30e-14 66.2
MS.gene91423.t1 MTR_3g006125 45.745 94 45 2 27 114 87 180 2.48e-15 69.7
MS.gene91423.t1 MTR_3g006125 44.737 76 41 1 29 103 180 255 5.60e-14 66.2
MS.gene91423.t1 MTR_3g006185 47.312 93 44 2 27 114 6 98 5.87e-15 67.4
MS.gene91423.t1 MTR_3g006185 43.421 76 42 1 29 103 98 173 2.48e-12 60.5
MS.gene91423.t1 MTR_6g008995 42.308 78 45 0 29 106 37 114 1.56e-14 68.6
MS.gene91423.t1 MTR_3g006010 48.000 75 38 1 27 100 6 80 2.00e-14 68.6
MS.gene91423.t1 MTR_2g097830 42.553 94 50 2 25 117 66 156 1.54e-13 63.5
MS.gene91423.t1 MTR_8g062350 40.964 83 47 1 28 110 13 93 1.70e-13 64.3
MS.gene91423.t1 MTR_1g091047 50.746 67 32 1 28 93 8 74 2.55e-13 60.8
MS.gene91423.t1 MTR_1g093310 44.595 74 33 2 28 100 8 74 5.42e-13 60.1
MS.gene91423.t1 MTR_7g013410 47.619 63 33 0 37 99 6 68 4.24e-12 59.3
MS.gene91423.t1 MTR_1g109550 50.000 60 29 1 37 96 24 82 6.54e-12 58.9
MS.gene91423.t1 MTR_7g013380 42.667 75 41 1 27 99 11 85 8.16e-12 60.8
MS.gene91423.t1 MTR_7g013380 35.556 90 53 1 15 104 178 262 8.41e-11 57.8
MS.gene91423.t1 MTR_5g073430 53.125 64 27 2 33 93 16 79 1.84e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91423.t1 AT1G24200 51.429 70 34 0 28 97 13 82 6.46e-18 75.9
MS.gene91423.t1 AT1G70060 47.436 78 41 0 27 104 12 89 5.33e-17 75.9
MS.gene91423.t1 AT1G70060 47.436 78 41 0 27 104 12 89 5.33e-17 75.9
MS.gene91423.t1 AT1G24190 48.611 72 37 0 27 98 12 83 7.49e-17 75.5
MS.gene91423.t1 AT1G24190 48.611 72 37 0 27 98 12 83 7.86e-17 75.5
MS.gene91423.t1 AT1G24190 48.611 72 37 0 27 98 12 83 7.93e-17 75.5
MS.gene91423.t1 AT3G01320 48.611 72 37 0 27 98 55 126 2.20e-16 74.3
MS.gene91423.t1 AT3G01320 48.611 72 37 0 27 98 55 126 2.33e-16 74.3
MS.gene91423.t1 AT1G10450 43.956 91 49 2 24 114 29 117 3.46e-15 70.9
MS.gene91423.t1 AT1G10450 43.956 91 49 2 24 114 29 117 3.46e-15 70.9
MS.gene91423.t1 AT1G10450 43.956 91 49 2 24 114 80 168 3.47e-15 70.9
MS.gene91423.t1 AT5G15020 45.833 72 39 0 27 98 50 121 3.85e-15 70.5
MS.gene91423.t1 AT5G15020 45.833 72 39 0 27 98 50 121 3.97e-15 70.5
MS.gene91423.t1 AT1G59890 47.143 70 37 0 29 98 45 114 6.71e-15 70.1
MS.gene91423.t1 AT1G59890 47.143 70 37 0 29 98 45 114 6.97e-15 70.1
MS.gene91423.t1 AT1G59890 47.143 70 37 0 29 98 45 114 7.04e-15 70.1
MS.gene91423.t1 AT1G59890 47.143 70 37 0 29 98 45 114 7.25e-15 69.7
MS.gene91423.t1 AT5G35610 47.500 80 39 1 37 116 18 94 4.33e-14 64.7
MS.gene91423.t1 AT5G15040 42.857 70 40 0 29 98 3 72 1.74e-13 61.6
MS.gene91423.t1 AT5G15040 42.857 70 40 0 29 98 3 72 1.74e-13 61.6
MS.gene91423.t1 AT5G15040 42.857 70 40 0 29 98 3 72 1.74e-13 61.6
MS.gene91423.t1 AT1G27220 39.726 73 44 0 25 97 10 82 4.62e-13 62.8
MS.gene91423.t1 AT1G70030 44.286 70 39 0 29 98 22 91 4.85e-13 61.2
MS.gene91423.t1 AT1G23810 39.583 96 56 2 14 109 95 188 7.55e-13 63.2
MS.gene91423.t1 AT1G70030 44.286 70 39 0 29 98 22 91 1.01e-12 60.8
MS.gene91423.t1 AT1G70030 43.836 73 41 0 29 101 11 83 1.38e-12 60.8
MS.gene91423.t1 AT1G24250 39.000 100 59 2 10 109 102 199 1.49e-12 62.4
MS.gene91423.t1 AT1G24230 47.222 72 36 2 23 92 7 78 9.78e-12 60.1
MS.gene91423.t1 AT1G27260 41.667 72 42 0 27 98 1 72 1.03e-11 59.7
MS.gene91423.t1 AT5G15025 38.889 72 44 0 27 98 45 116 2.33e-11 57.0
MS.gene91423.t1 AT1G24210 48.571 70 35 1 23 91 7 76 3.05e-11 57.4
MS.gene91423.t1 AT1G27250 38.889 72 44 0 25 96 17 88 3.95e-11 56.6

Find 21 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTCTTATATCAATTCTTT+TGG 0.302742 1.3:-71689326 None:intergenic
AGAGCATCAAGATTTACTTT+TGG 0.331136 1.3:+71689378 MS.gene91423:CDS
AAGTTGCATTTCAAAATAAG+AGG 0.445054 1.3:+71689260 MS.gene91423:CDS
AGTTGTCAAAGAAGGAGTGA+TGG 0.486303 1.3:+71689345 MS.gene91423:CDS
TGAAATCTCATTTCCATTGG+AGG 0.501735 1.3:+71689149 MS.gene91423:CDS
TGAGTGCTGGTCCATCTTTG+AGG 0.502051 1.3:-71689204 None:intergenic
ACATGAAATCTCATTTCCAT+TGG 0.503318 1.3:+71689146 None:intergenic
CTCAACACTTTCTTGCCAGC+GGG 0.511799 1.3:+71689403 MS.gene91423:CDS
GATATAAGAGTTGTCAAAGA+AGG 0.512296 1.3:+71689337 MS.gene91423:CDS
ACACGAAATCTCACTTCCAT+TGG 0.519367 1.3:+71689426 MS.gene91423:CDS
AGGTGATGGATTAACATTCA+AGG 0.537891 1.3:+71689465 MS.gene91423:CDS
GATCAGTGCATCCTCAAAGA+TGG 0.538557 1.3:+71689193 MS.gene91423:CDS
AGTGAGATTTCGTGTCCCGC+TGG 0.542973 1.3:-71689418 None:intergenic
ATTGCTTCATCTATGAGTGC+TGG 0.548558 1.3:-71689217 None:intergenic
AGTTGCATTTCAAAATAAGA+GGG 0.555199 1.3:+71689261 MS.gene91423:CDS
TGTTGTTCATCACTATCCAA+TGG 0.563918 1.3:-71689442 None:intergenic
GATGATCAACAACGATGTGA+TGG 0.569542 1.3:+71689171 MS.gene91423:CDS
AGTGATGAACAACAAGGTGA+TGG 0.574311 1.3:+71689451 MS.gene91423:CDS
CGTTGTTGATCATCCTCCAA+TGG 0.597089 1.3:-71689162 None:intergenic
ACTCAACACTTTCTTGCCAG+CGG 0.612834 1.3:+71689402 MS.gene91423:CDS
TTGGATAGTGATGAACAACA+AGG 0.741257 1.3:+71689445 MS.gene91423:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACTCTTATATCAATTCTTT+TGG - chr1.3:71689329-71689348 None:intergenic 20.0%
! AAGTTGCATTTCAAAATAAG+AGG + chr1.3:71689260-71689279 MS.gene91423:CDS 25.0%
! AGTTGCATTTCAAAATAAGA+GGG + chr1.3:71689261-71689280 MS.gene91423:CDS 25.0%
GATATAAGAGTTGTCAAAGA+AGG + chr1.3:71689337-71689356 MS.gene91423:CDS 30.0%
! TTTTGGCATTGTAATCAACT+AGG - chr1.3:71689312-71689331 None:intergenic 30.0%
!! AGAGCATCAAGATTTACTTT+TGG + chr1.3:71689378-71689397 MS.gene91423:CDS 30.0%
!! GAGCATCAAGATTTACTTTT+GGG + chr1.3:71689379-71689398 MS.gene91423:CDS 30.0%
TGAAATCTCATTTCCATTGG+AGG + chr1.3:71689149-71689168 MS.gene91423:CDS 35.0%
TGTTGTTCATCACTATCCAA+TGG - chr1.3:71689445-71689464 None:intergenic 35.0%
TTGGATAGTGATGAACAACA+AGG + chr1.3:71689445-71689464 MS.gene91423:CDS 35.0%
!! AGGTGATGGATTAACATTCA+AGG + chr1.3:71689465-71689484 MS.gene91423:CDS 35.0%
ACACGAAATCTCACTTCCAT+TGG + chr1.3:71689426-71689445 MS.gene91423:CDS 40.0%
AGTGATGAACAACAAGGTGA+TGG + chr1.3:71689451-71689470 MS.gene91423:CDS 40.0%
AGTTGTCAAAGAAGGAGTGA+TGG + chr1.3:71689345-71689364 MS.gene91423:CDS 40.0%
ATTGCTTCATCTATGAGTGC+TGG - chr1.3:71689220-71689239 None:intergenic 40.0%
GATGATCAACAACGATGTGA+TGG + chr1.3:71689171-71689190 MS.gene91423:CDS 40.0%
ACTCAACACTTTCTTGCCAG+CGG + chr1.3:71689402-71689421 MS.gene91423:CDS 45.0%
CGTTGTTGATCATCCTCCAA+TGG - chr1.3:71689165-71689184 None:intergenic 45.0%
GATCAGTGCATCCTCAAAGA+TGG + chr1.3:71689193-71689212 MS.gene91423:CDS 45.0%
CTCAACACTTTCTTGCCAGC+GGG + chr1.3:71689403-71689422 MS.gene91423:CDS 50.0%
!! TGAGTGCTGGTCCATCTTTG+AGG - chr1.3:71689207-71689226 None:intergenic 50.0%
AGTGAGATTTCGTGTCCCGC+TGG - chr1.3:71689421-71689440 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 71689148 71689513 71689148 ID=MS.gene91423
chr1.3 mRNA 71689148 71689513 71689148 ID=MS.gene91423.t1;Parent=MS.gene91423
chr1.3 exon 71689148 71689513 71689148 ID=MS.gene91423.t1.exon1;Parent=MS.gene91423.t1
chr1.3 CDS 71689148 71689513 71689148 ID=cds.MS.gene91423.t1;Parent=MS.gene91423.t1
Gene Sequence

>MS.gene91423

ATGAAATCTCATTTCCATTGGAGGATGATCAACAACGATGTGATGGATCAGTGCATCCTCAAAGATGGACCAGCACTCATAGATGAAGCAATGTCGCTTGTAACAGCAGTTAAAGTTGCATTTCAAAATAAGAGGGAAAAGTATGATGAATTCTTGAAACTCCTAGTTGATTACAATGCCAAAAGAATTGATATAAGAGTTGTCAAAGAAGGAGTGATGGAGTTGTTTAAAGAGCATCAAGATTTACTTTTGGGACTCAACACTTTCTTGCCAGCGGGACACGAAATCTCACTTCCATTGGATAGTGATGAACAACAAGGTGATGGATTAACATTCAAGGATGAACAGAAAGATGATGAGCAATAA
Protein sequence

>MS.gene91423.t1

MKSHFHWRMINNDVMDQCILKDGPALIDEAMSLVTAVKVAFQNKREKYDEFLKLLVDYNAKRIDIRVVKEGVMELFKEHQDLLLGLNTFLPAGHEISLPLDSDEQQGDGLTFKDEQKDDEQ