AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91422


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91422.t1 MTR_1g104960 93.064 173 12 0 1 173 1 173 1.23e-113 320
MS.gene91422.t1 MTR_1g104960 55.294 85 38 0 91 175 5 89 6.20e-23 90.1
MS.gene91422.t1 MTR_1g104980 69.182 159 34 1 17 175 3 146 2.24e-72 216
MS.gene91422.t1 MTR_1g104980 56.579 76 33 0 17 92 74 149 5.65e-21 85.1
MS.gene91422.t1 MTR_1g104980 58.824 68 28 0 101 168 1 68 4.09e-20 82.8
MS.gene91422.t1 MTR_4g133300 48.428 159 79 1 13 171 89 244 7.74e-42 140
MS.gene91422.t1 MTR_4g133300 42.857 175 90 3 1 175 1 165 5.42e-32 115
MS.gene91422.t1 MTR_4g133470 48.750 160 77 3 13 171 89 244 5.54e-40 136
MS.gene91422.t1 MTR_4g133470 41.714 175 92 3 1 175 1 165 7.62e-30 110
MS.gene91422.t1 MTR_3g006105 49.664 149 69 4 27 170 23 170 4.36e-36 124
MS.gene91422.t1 MTR_3g006105 43.421 76 42 1 100 174 9 84 4.86e-12 61.6
MS.gene91422.t1 MTR_3g006150 47.651 149 76 2 21 168 13 160 4.01e-35 120
MS.gene91422.t1 MTR_3g006150 47.297 74 36 1 100 173 9 79 4.97e-15 68.9
MS.gene91422.t1 MTR_3g006125 48.026 152 74 3 27 173 104 255 8.80e-35 122
MS.gene91422.t1 MTR_3g006185 45.562 169 85 4 11 173 6 173 1.67e-34 119
MS.gene91422.t1 MTR_1g105955 39.759 166 93 1 2 167 5 163 2.93e-34 119
MS.gene91422.t1 MTR_1g105955 43.243 74 42 0 98 171 15 88 3.29e-15 70.1
MS.gene91422.t1 MTR_1g104937 63.441 93 34 0 6 98 5 97 5.13e-33 114
MS.gene91422.t1 MTR_1g104937 57.895 76 32 0 100 175 13 88 5.92e-24 90.9
MS.gene91422.t1 MTR_3g006065 46.104 154 79 3 23 173 15 167 1.18e-32 115
MS.gene91422.t1 MTR_1g104950 67.059 85 24 2 36 120 1 81 1.42e-32 112
MS.gene91422.t1 MTR_1g104950 61.111 54 21 0 122 175 1 54 3.23e-16 70.1
MS.gene91422.t1 MTR_5g036670 39.216 153 93 0 11 163 41 193 1.19e-30 117
MS.gene91422.t1 MTR_5g036670 50.000 76 37 1 100 175 44 118 4.86e-18 81.3
MS.gene91422.t1 MTR_1g104940 65.000 80 28 0 13 92 14 93 7.46e-30 106
MS.gene91422.t1 MTR_1g104940 55.696 79 35 0 97 175 12 90 1.45e-25 95.5
MS.gene91422.t1 MTR_8g062700 38.816 152 93 0 11 162 40 191 4.55e-26 104
MS.gene91422.t1 MTR_8g062700 51.316 76 36 1 100 175 43 117 1.09e-18 82.8
MS.gene91422.t1 MTR_8g062700 38.816 152 93 0 11 162 40 191 4.55e-26 104
MS.gene91422.t1 MTR_8g062700 51.316 76 36 1 100 175 43 117 1.07e-18 83.2
MS.gene91422.t1 MTR_6g008995 37.086 151 93 2 13 163 37 185 2.21e-24 98.6
MS.gene91422.t1 MTR_6g008995 44.444 72 40 0 100 171 38 109 4.38e-15 72.4
MS.gene91422.t1 MTR_7g013380 33.526 173 109 3 1 169 1 171 3.05e-24 96.3
MS.gene91422.t1 MTR_7g013380 35.119 168 99 4 13 174 99 262 9.61e-24 95.1
MS.gene91422.t1 MTR_6g008970 35.948 153 98 0 11 163 61 213 2.34e-23 96.3
MS.gene91422.t1 MTR_6g008970 44.000 75 42 0 100 174 64 138 6.98e-15 72.0
MS.gene91422.t1 MTR_1g105960 48.684 76 39 0 100 175 2 77 3.30e-20 81.3
MS.gene91422.t1 MTR_1g105960 37.190 121 50 1 14 134 2 96 3.44e-17 73.6
MS.gene91422.t1 MTR_1g109550 38.806 134 68 4 3 136 10 129 6.10e-18 76.3
MS.gene91422.t1 MTR_1g109550 44.615 65 35 1 102 166 19 82 7.66e-12 60.5
MS.gene91422.t1 MTR_6g008995 35.659 129 81 2 35 163 2 128 1.68e-17 79.0
MS.gene91422.t1 MTR_1g105010 51.429 70 34 0 98 167 15 84 3.40e-17 73.6
MS.gene91422.t1 MTR_1g105010 49.231 65 33 0 11 75 14 78 8.70e-13 62.0
MS.gene91422.t1 MTR_2g097830 41.525 118 59 3 1 118 59 166 6.85e-16 71.6
MS.gene91422.t1 MTR_2g097830 35.659 129 71 2 50 169 12 137 1.29e-12 62.8
MS.gene91422.t1 MTR_7g013410 26.027 146 103 1 16 161 1 141 3.90e-15 68.9
MS.gene91422.t1 MTR_7g013410 44.776 67 37 0 103 169 2 68 1.50e-11 59.3
MS.gene91422.t1 MTR_8g062350 45.833 72 39 0 97 168 12 83 1.88e-14 68.6
MS.gene91422.t1 MTR_8g062350 46.479 71 38 0 12 82 13 83 2.70e-14 68.2
MS.gene91422.t1 MTR_7g089490 40.541 74 43 1 90 163 8 80 7.97e-13 62.4
MS.gene91422.t1 MTR_7g089490 47.761 67 35 0 11 77 14 80 1.47e-11 58.9
MS.gene91422.t1 MTR_3g006010 55.172 58 26 0 27 84 23 80 9.43e-13 65.5
MS.gene91422.t1 MTR_1g093310 41.026 78 38 2 94 170 4 74 2.89e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91422.t1 AT5G15020 37.662 154 92 2 11 163 50 200 6.50e-25 100
MS.gene91422.t1 AT5G15020 42.105 76 44 0 93 168 46 121 5.63e-14 69.3
MS.gene91422.t1 AT5G15020 37.662 154 92 2 11 163 50 200 7.22e-25 100
MS.gene91422.t1 AT5G15020 42.105 76 44 0 93 168 46 121 5.96e-14 69.3
MS.gene91422.t1 AT3G01320 36.905 168 99 3 4 169 46 208 6.21e-24 98.2
MS.gene91422.t1 AT3G01320 36.905 168 99 3 4 169 46 208 6.40e-24 98.2
MS.gene91422.t1 AT1G24230 34.146 164 92 3 11 173 12 160 1.75e-23 93.2
MS.gene91422.t1 AT1G70060 37.908 153 94 1 11 162 12 164 2.37e-23 96.3
MS.gene91422.t1 AT1G70060 47.826 69 36 0 100 168 15 83 6.56e-15 72.0
MS.gene91422.t1 AT1G70060 37.908 153 94 1 11 162 12 164 2.37e-23 96.3
MS.gene91422.t1 AT1G70060 47.826 69 36 0 100 168 15 83 6.56e-15 72.0
MS.gene91422.t1 AT1G24190 35.625 160 102 1 11 169 12 171 4.98e-23 95.5
MS.gene91422.t1 AT1G24190 45.946 74 39 1 100 172 15 88 5.01e-15 72.4
MS.gene91422.t1 AT1G24190 36.184 152 97 0 11 162 12 163 5.28e-23 95.5
MS.gene91422.t1 AT1G24190 45.946 74 39 1 100 172 15 88 5.11e-15 72.4
MS.gene91422.t1 AT1G24190 35.625 160 102 1 11 169 12 171 5.48e-23 95.5
MS.gene91422.t1 AT1G24190 45.946 74 39 1 100 172 15 88 5.36e-15 72.4
MS.gene91422.t1 AT1G27260 37.419 155 91 4 11 160 1 154 5.54e-23 91.7
MS.gene91422.t1 AT1G27260 42.667 75 43 0 98 172 2 76 3.68e-12 62.8
MS.gene91422.t1 AT1G27260 32.203 118 79 1 11 128 91 207 6.59e-11 59.3
MS.gene91422.t1 AT1G24200 35.443 158 89 2 9 161 10 159 3.18e-22 89.0
MS.gene91422.t1 AT1G24200 45.588 68 37 0 100 167 15 82 1.94e-14 68.6
MS.gene91422.t1 AT1G10450 35.948 153 96 2 9 161 80 230 8.70e-22 92.0
MS.gene91422.t1 AT1G10450 47.826 69 36 0 100 168 85 153 3.78e-14 70.1
MS.gene91422.t1 AT1G10450 35.948 153 96 2 9 161 29 179 1.09e-21 91.7
MS.gene91422.t1 AT1G10450 47.826 69 36 0 100 168 34 102 3.66e-14 70.1
MS.gene91422.t1 AT1G10450 35.948 153 96 2 9 161 29 179 1.09e-21 91.7
MS.gene91422.t1 AT1G10450 47.826 69 36 0 100 168 34 102 3.66e-14 70.1
MS.gene91422.t1 AT1G24250 30.994 171 96 3 11 160 12 181 2.10e-21 87.8
MS.gene91422.t1 AT1G23810 29.586 169 108 3 2 160 3 170 5.49e-20 84.0
MS.gene91422.t1 AT1G70030 36.242 149 93 2 13 161 11 157 5.49e-20 82.0
MS.gene91422.t1 AT1G70030 43.056 72 41 0 100 171 12 83 5.36e-11 58.5
MS.gene91422.t1 AT1G59890 34.641 153 92 2 13 162 45 192 4.96e-19 84.0
MS.gene91422.t1 AT1G59890 46.377 69 37 0 100 168 46 114 3.24e-14 70.1
MS.gene91422.t1 AT1G59890 34.641 153 92 2 13 162 45 192 5.10e-19 84.0
MS.gene91422.t1 AT1G59890 46.377 69 37 0 100 168 46 114 3.40e-14 70.1
MS.gene91422.t1 AT1G59890 34.641 153 92 2 13 162 45 192 5.11e-19 84.0
MS.gene91422.t1 AT1G59890 46.377 69 37 0 100 168 46 114 3.43e-14 70.1
MS.gene91422.t1 AT1G59890 34.641 153 92 2 13 162 45 192 5.11e-19 84.0
MS.gene91422.t1 AT1G59890 46.377 69 37 0 100 168 46 114 3.40e-14 70.1
MS.gene91422.t1 AT1G27280 33.566 143 93 1 21 161 1 143 1.08e-16 75.1
MS.gene91422.t1 AT1G27220 45.070 71 39 0 11 81 12 82 9.55e-16 71.6
MS.gene91422.t1 AT1G27220 36.986 73 46 0 95 167 10 82 3.24e-11 59.3
MS.gene91422.t1 AT5G15040 46.269 67 36 0 102 168 6 72 2.02e-14 65.5
MS.gene91422.t1 AT5G15040 42.857 77 42 1 13 89 3 77 1.85e-13 63.2
MS.gene91422.t1 AT5G15040 46.269 67 36 0 102 168 6 72 2.02e-14 65.5
MS.gene91422.t1 AT5G15040 42.857 77 42 1 13 89 3 77 1.85e-13 63.2
MS.gene91422.t1 AT5G15040 46.269 67 36 0 102 168 6 72 2.02e-14 65.5
MS.gene91422.t1 AT5G15040 42.857 77 42 1 13 89 3 77 1.85e-13 63.2
MS.gene91422.t1 AT1G27250 47.826 69 36 0 12 80 20 88 1.37e-13 64.7
MS.gene91422.t1 AT5G15025 41.975 81 47 0 2 82 36 116 2.40e-13 63.9
MS.gene91422.t1 AT5G15025 40.845 71 42 0 98 168 46 116 1.43e-12 61.6
MS.gene91422.t1 AT1G70030 38.261 115 65 2 13 122 22 135 4.70e-13 63.5
MS.gene91422.t1 AT1G70030 43.056 72 41 0 100 171 23 94 4.74e-11 58.2
MS.gene91422.t1 AT1G27270 32.716 162 96 2 12 160 13 174 5.09e-13 65.5
MS.gene91422.t1 AT1G70030 40.206 97 57 1 13 109 22 117 1.32e-12 62.0
MS.gene91422.t1 AT1G70030 43.056 72 41 0 100 171 23 94 2.22e-11 58.5
MS.gene91422.t1 AT1G24210 42.667 75 41 1 4 76 3 77 1.55e-12 62.4
MS.gene91422.t1 AT5G35610 40.230 87 49 1 1 87 1 84 3.59e-11 58.9

Find 30 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGAAACTCCTACAAGATTT+TGG 0.194654 1.3:+71691550 MS.gene91422:CDS
AACTCTTACATCAATTCTTT+TGG 0.285232 1.3:-71691833 None:intergenic
GACTCTTCTATCAATTCTTT+TGG 0.310378 1.3:-71691575 None:intergenic
GGTTACATTTGAAGATAAGA+TGG 0.406022 1.3:+71691768 MS.gene91422:CDS
AAGCTGTGTTTCAAGATAAG+AGG 0.447897 1.3:+71691509 MS.gene91422:CDS
CACCCTTGCATCGTCAATCA+AGG 0.459246 1.3:-71691470 None:intergenic
ATGAACAGCTCAAGAAGAAC+AGG 0.465556 1.3:+71691445 MS.gene91422:CDS
AGTCGTCAAAGAAGGAGTTA+TGG 0.477577 1.3:+71691594 MS.gene91422:CDS
AGTTGTCAAAGAAGGAATGA+TGG 0.479247 1.3:+71691852 MS.gene91422:CDS
ACATGAAATCCCACTTCCAT+TGG 0.486277 1.3:+71691675 MS.gene91422:CDS
GATAGAAGAGTCGTCAAAGA+AGG 0.515587 1.3:+71691586 MS.gene91422:CDS
AAATCATCATCCAATGGAAG+TGG 0.515740 1.3:-71691685 None:intergenic
TTCAACATCTTCTTGCCACC+AGG 0.516818 1.3:+71691652 MS.gene91422:CDS
ACACAAAATCTCACTTCCAT+TGG 0.521284 1.3:+71691933 MS.gene91422:CDS
GTCCCTTGATTGACGATGCA+AGG 0.537025 1.3:+71691467 MS.gene91422:CDS
AGCTGTGTTTCAAGATAAGA+GGG 0.537554 1.3:+71691510 MS.gene91422:CDS
GATGTAAGAGTTGTCAAAGA+AGG 0.540360 1.3:+71691844 MS.gene91422:CDS
CGATGCAAGGGTGTTTGTAA+AGG 0.542038 1.3:+71691480 MS.gene91422:CDS
TTTGTGTCCCTCTGGCAAGA+AGG 0.563533 1.3:-71691917 None:intergenic
TATTGTTCATCACCATCCAA+TGG 0.573399 1.3:-71691949 None:intergenic
GGAAGTGGGATTTCATGTCC+TGG 0.588837 1.3:-71691670 None:intergenic
TTCAACACCTTCTTGCCAGA+GGG 0.592249 1.3:+71691910 MS.gene91422:CDS
AAAATCTCACTTCCATTGGA+TGG 0.592611 1.3:+71691937 MS.gene91422:CDS
TCCCTTGATTGACGATGCAA+GGG 0.593982 1.3:+71691468 MS.gene91422:CDS
TGTTGTAAATCATCATCCAA+TGG 0.600709 1.3:-71691691 None:intergenic
AATCATCATCCAATGGAAGT+GGG 0.616288 1.3:-71691684 None:intergenic
ACCCTTGCATCGTCAATCAA+GGG 0.616892 1.3:-71691469 None:intergenic
ATTCAACACCTTCTTGCCAG+AGG 0.655191 1.3:+71691909 MS.gene91422:CDS
AGCGCTCGAAGATCGAGCAA+TGG 0.658283 1.3:+71691726 MS.gene91422:CDS
AGTGGGATTTCATGTCCTGG+TGG 0.734772 1.3:-71691667 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGACCATAAAAATTTACTTT+TGG + chr1.3:71691885-71691904 MS.gene91422:CDS 20.0%
!!! ATCCCAAAAGTAAATTTTTA+TGG - chr1.3:71691891-71691910 None:intergenic 20.0%
!!! GACCATAAAAATTTACTTTT+GGG + chr1.3:71691886-71691905 MS.gene91422:CDS 20.0%
!! AACTCTTACATCAATTCTTT+TGG - chr1.3:71691836-71691855 None:intergenic 25.0%
GGTTACATTTGAAGATAAGA+TGG + chr1.3:71691768-71691787 MS.gene91422:CDS 30.0%
TGTTGTAAATCATCATCCAA+TGG - chr1.3:71691694-71691713 None:intergenic 30.0%
! GACTCTTCTATCAATTCTTT+TGG - chr1.3:71691578-71691597 None:intergenic 30.0%
! GGCATTTTTAACAACAGTTA+AGG + chr1.3:71691747-71691766 MS.gene91422:CDS 30.0%
! TTACATCAATTCTTTTGGCA+CGG - chr1.3:71691831-71691850 None:intergenic 30.0%
AAAATCTCACTTCCATTGGA+TGG + chr1.3:71691937-71691956 MS.gene91422:CDS 35.0%
AAATCATCATCCAATGGAAG+TGG - chr1.3:71691688-71691707 None:intergenic 35.0%
AAGCTGTGTTTCAAGATAAG+AGG + chr1.3:71691509-71691528 MS.gene91422:CDS 35.0%
AATCATCATCCAATGGAAGT+GGG - chr1.3:71691687-71691706 None:intergenic 35.0%
ACACAAAATCTCACTTCCAT+TGG + chr1.3:71691933-71691952 MS.gene91422:CDS 35.0%
AGCTGTGTTTCAAGATAAGA+GGG + chr1.3:71691510-71691529 MS.gene91422:CDS 35.0%
AGTTGTCAAAGAAGGAATGA+TGG + chr1.3:71691852-71691871 MS.gene91422:CDS 35.0%
GATGTAAGAGTTGTCAAAGA+AGG + chr1.3:71691844-71691863 MS.gene91422:CDS 35.0%
TATTGTTCATCACCATCCAA+TGG - chr1.3:71691952-71691971 None:intergenic 35.0%
! GTGAAACTCCTACAAGATTT+TGG + chr1.3:71691550-71691569 MS.gene91422:CDS 35.0%
ACATGAAATCCCACTTCCAT+TGG + chr1.3:71691675-71691694 MS.gene91422:CDS 40.0%
AGTCGTCAAAGAAGGAGTTA+TGG + chr1.3:71691594-71691613 MS.gene91422:CDS 40.0%
ATGAACAGCTCAAGAAGAAC+AGG + chr1.3:71691445-71691464 MS.gene91422:CDS 40.0%
GATAGAAGAGTCGTCAAAGA+AGG + chr1.3:71691586-71691605 MS.gene91422:CDS 40.0%
! TTTTGGCGCCAAAATCTTGT+AGG - chr1.3:71691561-71691580 None:intergenic 40.0%
ACCCTTGCATCGTCAATCAA+GGG - chr1.3:71691472-71691491 None:intergenic 45.0%
ATTCAACACCTTCTTGCCAG+AGG + chr1.3:71691909-71691928 MS.gene91422:CDS 45.0%
TCCCTTGATTGACGATGCAA+GGG + chr1.3:71691468-71691487 MS.gene91422:CDS 45.0%
TTCAACACCTTCTTGCCAGA+GGG + chr1.3:71691910-71691929 MS.gene91422:CDS 45.0%
TTCAACATCTTCTTGCCACC+AGG + chr1.3:71691652-71691671 MS.gene91422:CDS 45.0%
! AGTGAGATTTTGTGTCCCTC+TGG - chr1.3:71691928-71691947 None:intergenic 45.0%
! TTTTGGCACGGTAATCAGCT+AGG - chr1.3:71691819-71691838 None:intergenic 45.0%
!! CGATGCAAGGGTGTTTGTAA+AGG + chr1.3:71691480-71691499 MS.gene91422:CDS 45.0%
AGTGGGATTTCATGTCCTGG+TGG - chr1.3:71691670-71691689 None:intergenic 50.0%
CACCCTTGCATCGTCAATCA+AGG - chr1.3:71691473-71691492 None:intergenic 50.0%
GGAAGTGGGATTTCATGTCC+TGG - chr1.3:71691673-71691692 None:intergenic 50.0%
GTCCCTTGATTGACGATGCA+AGG + chr1.3:71691467-71691486 MS.gene91422:CDS 50.0%
TTTGTGTCCCTCTGGCAAGA+AGG - chr1.3:71691920-71691939 None:intergenic 50.0%
AGCGCTCGAAGATCGAGCAA+TGG + chr1.3:71691726-71691745 MS.gene91422:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 71691445 71691972 71691445 ID=MS.gene91422
chr1.3 mRNA 71691445 71691972 71691445 ID=MS.gene91422.t1;Parent=MS.gene91422
chr1.3 exon 71691445 71691972 71691445 ID=MS.gene91422.t1.exon1;Parent=MS.gene91422.t1
chr1.3 CDS 71691445 71691972 71691445 ID=cds.MS.gene91422.t1;Parent=MS.gene91422.t1
Gene Sequence

>MS.gene91422

ATGAACAGCTCAAGAAGAACAGGTCCCTTGATTGACGATGCAAGGGTGTTTGTAAAGGATGTAGAAGCTGTGTTTCAAGATAAGAGGGAGAAGTATGATGAATTCGTGAAACTCCTACAAGATTTTGGCGCCAAAAGAATTGATAGAAGAGTCGTCAAAGAAGGAGTTATGGAGTTGTTGAAAGAGCATCAAGATTTAATTTCAAGATTCAACATCTTCTTGCCACCAGGACATGAAATCCCACTTCCATTGGATGATGATTTACAACATCGTGATCAATCAGCGCTCGAAGATCGAGCAATGGCATTTTTAACAACAGTTAAGGTTACATTTGAAGATAAGATGGAAAAGTTCAATGAATTCTTGAAACTCCTAGCTGATTACCGTGCCAAAAGAATTGATGTAAGAGTTGTCAAAGAAGGAATGATGGAGTTGTTTAAAGACCATAAAAATTTACTTTTGGGATTCAACACCTTCTTGCCAGAGGGACACAAAATCTCACTTCCATTGGATGGTGATGAACAATAA

Protein sequence

>MS.gene91422.t1

MNSSRRTGPLIDDARVFVKDVEAVFQDKREKYDEFVKLLQDFGAKRIDRRVVKEGVMELLKEHQDLISRFNIFLPPGHEIPLPLDDDLQHRDQSALEDRAMAFLTTVKVTFEDKMEKFNEFLKLLADYRAKRIDVRVVKEGMMELFKDHKNLLLGFNTFLPEGHKISLPLDGDEQ