AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58908

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58908.t1 MTR_3g099570 72.189 169 45 1 1 169 17 183 2.54e-73 218
MS.gene58908.t1 MTR_3g099580 71.598 169 48 0 1 169 17 185 2.58e-64 196
MS.gene58908.t1 MTR_3g099680 57.282 206 44 4 1 165 17 219 8.98e-61 187
MS.gene58908.t1 MTR_3g099980 57.843 204 44 4 1 165 17 217 1.13e-60 187
MS.gene58908.t1 MTR_3g099540 64.035 114 41 0 1 114 18 131 5.43e-44 142
MS.gene58908.t1 MTR_8g007020 44.382 178 77 5 1 164 14 183 1.74e-36 125
MS.gene58908.t1 MTR_8g007035 54.545 110 47 2 1 107 14 123 7.19e-35 121
MS.gene58908.t1 MTR_5g006040 41.912 136 76 2 7 139 23 158 8.55e-30 107
MS.gene58908.t1 MTR_1g090190 35.185 162 103 2 7 168 20 179 1.01e-29 107
MS.gene58908.t1 MTR_4g114870 46.552 116 57 2 8 118 27 142 4.09e-26 102
MS.gene58908.t1 MTR_4g114870 49.000 100 46 2 10 104 191 290 2.85e-25 100
MS.gene58908.t1 MTR_6g080660 44.554 101 56 0 10 110 28 128 1.43e-24 95.1
MS.gene58908.t1 MTR_2g088990 42.593 108 61 1 6 112 21 128 8.57e-24 93.6
MS.gene58908.t1 MTR_0334s0010 44.340 106 54 3 5 106 23 127 1.16e-22 89.7
MS.gene58908.t1 MTR_1g104800 40.777 103 58 2 5 104 20 122 8.44e-22 87.4
MS.gene58908.t1 MTR_1g112700 38.318 107 64 2 7 111 30 136 8.86e-22 87.0
MS.gene58908.t1 MTR_6g023760 43.137 102 57 1 4 104 20 121 1.05e-21 87.0
MS.gene58908.t1 MTR_6g083240 34.731 167 84 5 7 165 24 173 8.51e-21 84.3
MS.gene58908.t1 MTR_4g067200 39.130 115 63 3 1 108 19 133 7.01e-19 79.3
MS.gene58908.t1 MTR_4g066110 39.130 115 63 3 1 108 19 133 7.01e-19 79.3
MS.gene58908.t1 MTR_2g043730 42.157 102 55 3 5 105 27 125 1.10e-18 77.4
MS.gene58908.t1 MTR_7g086140 40.777 103 59 2 7 107 23 125 1.40e-18 78.2
MS.gene58908.t1 MTR_7g086190 40.777 103 59 2 7 107 23 125 1.40e-18 78.2
MS.gene58908.t1 MTR_1g105130 38.144 97 58 2 10 104 25 121 1.02e-17 75.9
MS.gene58908.t1 MTR_1g105120 38.144 97 58 2 10 104 25 121 1.02e-17 75.9
MS.gene58908.t1 MTR_3g089035 44.330 97 50 3 7 102 30 123 1.15e-17 75.1
MS.gene58908.t1 MTR_8g099220 38.835 103 59 2 7 105 26 128 1.24e-17 75.1
MS.gene58908.t1 MTR_7g086160 39.806 103 60 2 7 107 24 126 2.26e-17 75.1
MS.gene58908.t1 MTR_7g086220 38.000 100 60 2 10 107 25 124 4.31e-17 74.3
MS.gene58908.t1 MTR_2g025580 28.313 166 103 4 1 164 18 169 1.02e-15 70.9
MS.gene58908.t1 MTR_2g083250 38.679 106 58 2 12 110 28 133 2.69e-15 71.6
MS.gene58908.t1 MTR_2g043790 42.308 104 54 4 5 107 2 100 5.10e-15 67.4
MS.gene58908.t1 MTR_7g086280 38.947 95 57 1 12 105 28 122 1.10e-14 68.6
MS.gene58908.t1 MTR_7g086230 38.947 95 57 1 12 105 28 122 1.11e-14 68.6
MS.gene58908.t1 MTR_7g086100 36.842 95 59 1 11 104 27 121 1.52e-14 68.9
MS.gene58908.t1 MTR_4g007250 38.235 102 61 2 4 104 23 123 1.60e-14 67.8
MS.gene58908.t1 MTR_2g090580 33.793 145 92 3 12 152 29 173 1.84e-14 68.2
MS.gene58908.t1 MTR_7g086090 37.500 96 59 1 11 105 27 122 3.24e-14 68.6
MS.gene58908.t1 MTR_1g090420 26.752 157 105 3 7 153 25 181 3.39e-14 67.8
MS.gene58908.t1 MTR_8g089110 38.776 98 56 3 7 103 25 119 3.89e-14 65.5
MS.gene58908.t1 MTR_4g081100 38.776 98 55 2 12 104 34 131 6.87e-14 67.0
MS.gene58908.t1 MTR_8g088830 38.776 98 55 4 7 102 25 119 1.28e-13 64.3
MS.gene58908.t1 MTR_3g089005 37.963 108 61 4 1 107 24 126 1.57e-13 64.3
MS.gene58908.t1 MTR_6g022170 36.893 103 59 3 7 104 31 132 4.23e-13 63.9
MS.gene58908.t1 MTR_2g090575 37.113 97 58 2 11 104 26 122 4.79e-13 66.2
MS.gene58908.t1 MTR_8g086360 35.780 109 67 2 12 117 26 134 5.24e-13 64.3
MS.gene58908.t1 MTR_4g114830 37.234 94 52 3 13 99 32 125 6.40e-13 63.5
MS.gene58908.t1 MTR_2g101300 33.333 135 78 4 1 124 13 146 7.81e-13 63.9
MS.gene58908.t1 MTR_4g111640 30.435 138 86 4 8 136 30 166 8.20e-13 63.5
MS.gene58908.t1 MTR_4g124280 33.654 104 64 2 6 104 21 124 1.67e-12 63.5
MS.gene58908.t1 MTR_4g130800 38.272 81 49 1 25 104 49 129 2.35e-12 63.5
MS.gene58908.t1 MTR_4g130800 38.272 81 49 1 25 104 48 128 2.36e-12 63.5
MS.gene58908.t1 MTR_6g013200 36.458 96 57 3 12 104 37 131 3.36e-12 61.6
MS.gene58908.t1 MTR_3g105930 29.323 133 86 3 13 137 31 163 4.19e-12 61.6
MS.gene58908.t1 MTR_4g077787 30.822 146 77 5 8 137 30 167 4.28e-12 61.6
MS.gene58908.t1 MTR_1g014120 33.962 106 65 2 13 113 29 134 6.03e-12 61.2
MS.gene58908.t1 MTR_4g112310 30.172 116 77 2 24 136 2 116 1.24e-11 59.3
MS.gene58908.t1 MTR_8g094990 33.929 112 70 2 11 118 26 137 1.24e-11 61.6
MS.gene58908.t1 MTR_5g088170 33.636 110 68 4 13 119 20 127 3.35e-11 58.5
MS.gene58908.t1 MTR_5g088180 33.636 110 68 4 13 119 33 140 4.30e-11 58.5
MS.gene58908.t1 MTR_8g463180 31.875 160 88 5 12 153 26 182 8.82e-11 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.gene58908.t1 AT1G72230 48.052 154 65 3 18 165 31 175 7.17e-40 133
MS.gene58908.t1 AT1G22480 55.208 96 43 0 15 110 24 119 1.80e-31 112
MS.gene58908.t1 AT5G07475 39.716 141 80 1 7 147 27 162 9.25e-29 105
MS.gene58908.t1 AT2G32300 41.739 115 66 1 5 118 21 135 2.78e-26 100
MS.gene58908.t1 AT3G60270 46.078 102 55 0 6 107 22 123 4.77e-26 98.2
MS.gene58908.t1 AT2G32300 41.739 115 66 1 5 118 51 165 8.61e-26 100
MS.gene58908.t1 AT2G31050 44.444 117 61 3 7 119 26 142 2.00e-24 94.4
MS.gene58908.t1 AT2G26720 41.880 117 64 3 7 119 26 142 5.91e-24 93.6
MS.gene58908.t1 AT2G44790 50.538 93 44 1 18 108 36 128 4.46e-23 90.9
MS.gene58908.t1 AT3G27200 43.000 100 56 1 6 104 22 121 9.48e-23 89.4
MS.gene58908.t1 AT5G26330 43.564 101 54 2 7 104 21 121 2.01e-22 89.0
MS.gene58908.t1 AT3G60280 42.157 102 59 0 6 107 20 121 2.29e-21 87.0
MS.gene58908.t1 AT3G17675 37.143 105 65 1 1 104 23 127 1.20e-19 80.1
MS.gene58908.t1 AT5G20230 38.281 128 70 4 10 133 25 147 5.14e-16 72.4
MS.gene58908.t1 AT5G15350 33.913 115 72 3 7 119 26 138 1.13e-14 68.2
MS.gene58908.t1 AT2G25060 39.167 120 66 5 11 123 32 151 3.39e-14 67.4
MS.gene58908.t1 AT1G64640 35.000 120 73 3 7 122 30 148 3.89e-14 67.4
MS.gene58908.t1 AT1G45063 33.898 118 68 4 9 120 148 261 1.64e-13 67.0
MS.gene58908.t1 AT5G53870 33.333 111 70 3 11 117 31 141 2.41e-13 67.0
MS.gene58908.t1 AT5G53870 33.333 111 70 3 11 117 31 141 2.59e-13 67.0
MS.gene58908.t1 AT1G45063 33.898 118 68 4 9 120 148 261 3.13e-13 66.6
MS.gene58908.t1 AT4G28365 36.458 96 58 2 12 104 31 126 1.34e-12 63.5
MS.gene58908.t1 AT2G02850 38.144 97 56 3 7 102 33 126 5.20e-12 60.5
MS.gene58908.t1 AT3G53330 31.148 122 79 4 3 120 182 302 5.58e-12 62.8
MS.gene58908.t1 AT3G18590 35.577 104 60 2 7 104 24 126 6.65e-12 61.2
MS.gene58908.t1 AT4G31840 32.716 162 83 7 11 158 28 177 8.70e-12 60.8
MS.gene58908.t1 AT4G27520 32.673 101 65 2 7 104 28 128 1.57e-11 61.6
MS.gene58908.t1 AT4G30590 33.333 99 58 2 27 117 50 148 1.66e-11 60.1
MS.gene58908.t1 AT5G14345 32.479 117 70 3 7 115 13 128 6.08e-11 57.8

Find 40 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTATGACAGTGTTCAACTA+TGG 0.324971 6.1:-71358796 MS.gene58908:intron
GTGCCATCACCTTTCCTTGA+TGG 0.344850 6.1:+71358556 None:intergenic
ACAGTGTTCAACTATGGAAT+TGG 0.345697 6.1:-71358790 MS.gene58908:intron
TACTTCATATGTGCTGTTCC+TGG 0.349993 6.1:-71358652 MS.gene58908:CDS
GATCTTGATAGGTCATATAT+TGG 0.384007 6.1:-71358419 MS.gene58908:CDS
ACAGTTTCATGGATCTTGAT+AGG 0.419018 6.1:-71358430 MS.gene58908:CDS
TGGCATGAAATTCTCTGTTA+AGG 0.438238 6.1:-71358617 MS.gene58908:CDS
CACACCGTTGGAGATACTTC+AGG 0.449866 6.1:-71359020 MS.gene58908:CDS
GGAGTGGTGGTGGTCGTGGA+AGG 0.458928 6.1:+71358511 None:intergenic
GGTAGGAGTGGTGGTGGTCG+TGG 0.462242 6.1:+71358507 None:intergenic
AGTGACAAAACCTTTGTAGT+TGG 0.470839 6.1:-71358963 MS.gene58908:CDS
CAGTGTTCAACTATGGAATT+GGG 0.499419 6.1:-71358789 MS.gene58908:CDS
TTCCTTGATGGTGTTGCAGA+AGG 0.500016 6.1:+71358568 None:intergenic
TTTGCAACTGTCCACACCGT+TGG 0.509170 6.1:-71359032 MS.gene58908:CDS
TTTGTAGTTGGAGACAGTCT+TGG 0.511925 6.1:-71358951 MS.gene58908:intron
CTCCTTCTGCAACACCATCA+AGG 0.518289 6.1:-71358570 MS.gene58908:CDS
GAAGTTGCACTTTGCGTGGT+AGG 0.529660 6.1:+71358490 None:intergenic
ATGCCACCTACGCAATGTCC+AGG 0.545019 6.1:+71358634 None:intergenic
GTGTGGTAGTTGTTGCGGCA+AGG 0.547471 6.1:+71358533 None:intergenic
GTGTGGACAGTTGCAAAAGT+TGG 0.551081 6.1:+71359038 None:intergenic
AGCTGAAGTTGCACTTTGCG+TGG 0.552340 6.1:+71358486 None:intergenic
TGTGGTAGTTGTTGCGGCAA+GGG 0.558068 6.1:+71358534 None:intergenic
GGTGGTGGTCGTGGAAGGTG+TGG 0.565112 6.1:+71358516 None:intergenic
CAACTATGGAATTGGGCACA+CGG 0.599601 6.1:-71358782 MS.gene58908:CDS
TCAGTTCTGATTATAGCACA+TGG 0.600571 6.1:-71358989 MS.gene58908:CDS
GTTCCTGGACATTGCGTAGG+TGG 0.601390 6.1:-71358637 MS.gene58908:CDS
TGCACTTTGCGTGGTAGGAG+TGG 0.601900 6.1:+71358495 None:intergenic
GGAAGGTGTGGTAGTTGTTG+CGG 0.620159 6.1:+71358528 None:intergenic
TTGCGTGGTAGGAGTGGTGG+TGG 0.624187 6.1:+71358501 None:intergenic
AAGACTGTCTCCAACTACAA+AGG 0.647672 6.1:+71358953 None:intergenic
TCTGCAACACCATCAAGGAA+AGG 0.653648 6.1:-71358565 MS.gene58908:CDS
GCTGTTCCTGGACATTGCGT+AGG 0.654856 6.1:-71358640 MS.gene58908:CDS
CCAACCTGAAGTATCTCCAA+CGG 0.658901 6.1:+71359016 None:intergenic
ACACCATCAAGGAAAGGTGA+TGG 0.660442 6.1:-71358559 MS.gene58908:CDS
CCGTTGGAGATACTTCAGGT+TGG 0.662766 6.1:-71359016 MS.gene58908:CDS
ACTTTGCGTGGTAGGAGTGG+TGG 0.668649 6.1:+71358498 None:intergenic
CAGTTCTGATTATAGCACAT+GGG 0.670136 6.1:-71358988 MS.gene58908:CDS
CTGAAGTATCTCCAACGGTG+TGG 0.674320 6.1:+71359021 None:intergenic
TCAATTAGTACAGACAGTAG+CGG 0.713968 6.1:-71358712 MS.gene58908:CDS
CTATGGAATTGGGCACACGG+TGG 0.733563 6.1:-71358779 MS.gene58908:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TACATTAGTTTTTTAAACTA+TGG + chr6.1:71358636-71358655 None:intergenic 15.0%
! GTGAAAAAGAAAGCAAAAAT+TGG + chr6.1:71359013-71359032 None:intergenic 25.0%
ATTATGACAGTGTTCAACTA+TGG - chr6.1:71358665-71358684 MS.gene58908:CDS 30.0%
GATCTTGATAGGTCATATAT+TGG - chr6.1:71359042-71359061 MS.gene58908:CDS 30.0%
!! CTTTCTTTTTCACAGTTTCA+TGG - chr6.1:71359020-71359039 MS.gene58908:CDS 30.0%
ACAGTGTTCAACTATGGAAT+TGG - chr6.1:71358671-71358690 MS.gene58908:CDS 35.0%
ACAGTTTCATGGATCTTGAT+AGG - chr6.1:71359031-71359050 MS.gene58908:CDS 35.0%
AGTGACAAAACCTTTGTAGT+TGG - chr6.1:71358498-71358517 MS.gene58908:CDS 35.0%
CAGTGTTCAACTATGGAATT+GGG - chr6.1:71358672-71358691 MS.gene58908:CDS 35.0%
TCAATTAGTACAGACAGTAG+CGG - chr6.1:71358749-71358768 MS.gene58908:CDS 35.0%
TGGCATGAAATTCTCTGTTA+AGG - chr6.1:71358844-71358863 MS.gene58908:intron 35.0%
! CAGTTCTGATTATAGCACAT+GGG - chr6.1:71358473-71358492 MS.gene58908:CDS 35.0%
! TCAGTTCTGATTATAGCACA+TGG - chr6.1:71358472-71358491 MS.gene58908:CDS 35.0%
!!! ATGTGTTCCTGCTTTTTTGA+AGG + chr6.1:71358789-71358808 None:intergenic 35.0%
!!! TGTGTTCCTGCTTTTTTGAA+GGG + chr6.1:71358788-71358807 None:intergenic 35.0%
!!! TTTTTTGAAGGGAATGGTTG+TGG + chr6.1:71358777-71358796 None:intergenic 35.0%
AAGACTGTCTCCAACTACAA+AGG + chr6.1:71358511-71358530 None:intergenic 40.0%
ACCATTCCCTTCAAAAAAGC+AGG - chr6.1:71358779-71358798 MS.gene58908:CDS 40.0%
TTTGTAGTTGGAGACAGTCT+TGG - chr6.1:71358510-71358529 MS.gene58908:CDS 40.0%
! TACTTCATATGTGCTGTTCC+TGG - chr6.1:71358809-71358828 MS.gene58908:intron 40.0%
!!! TCCTGCTTTTTTGAAGGGAA+TGG + chr6.1:71358783-71358802 None:intergenic 40.0%
ACACCATCAAGGAAAGGTGA+TGG - chr6.1:71358902-71358921 MS.gene58908:intron 45.0%
CAACTATGGAATTGGGCACA+CGG - chr6.1:71358679-71358698 MS.gene58908:CDS 45.0%
GTGTGGACAGTTGCAAAAGT+TGG + chr6.1:71358426-71358445 None:intergenic 45.0%
TCTGCAACACCATCAAGGAA+AGG - chr6.1:71358896-71358915 MS.gene58908:intron 45.0%
! CCAACCTGAAGTATCTCCAA+CGG + chr6.1:71358448-71358467 None:intergenic 45.0%
!! TTCCTTGATGGTGTTGCAGA+AGG + chr6.1:71358896-71358915 None:intergenic 45.0%
AGCTGAAGTTGCACTTTGCG+TGG + chr6.1:71358978-71358997 None:intergenic 50.0%
CACACCGTTGGAGATACTTC+AGG - chr6.1:71358441-71358460 MS.gene58908:CDS 50.0%
CCGTTGGAGATACTTCAGGT+TGG - chr6.1:71358445-71358464 MS.gene58908:CDS 50.0%
CTCCTTCTGCAACACCATCA+AGG - chr6.1:71358891-71358910 MS.gene58908:intron 50.0%
GAAGTTGCACTTTGCGTGGT+AGG + chr6.1:71358974-71358993 None:intergenic 50.0%
GTGCCATCACCTTTCCTTGA+TGG + chr6.1:71358908-71358927 None:intergenic 50.0%
TGTGGTAGTTGTTGCGGCAA+GGG + chr6.1:71358930-71358949 None:intergenic 50.0%
TTTGCAACTGTCCACACCGT+TGG - chr6.1:71358429-71358448 MS.gene58908:CDS 50.0%
! CTGAAGTATCTCCAACGGTG+TGG + chr6.1:71358443-71358462 None:intergenic 50.0%
! GGAAGGTGTGGTAGTTGTTG+CGG + chr6.1:71358936-71358955 None:intergenic 50.0%
ACTTTGCGTGGTAGGAGTGG+TGG + chr6.1:71358966-71358985 None:intergenic 55.0%
ATGCCACCTACGCAATGTCC+AGG + chr6.1:71358830-71358849 None:intergenic 55.0%
CTATGGAATTGGGCACACGG+TGG - chr6.1:71358682-71358701 MS.gene58908:CDS 55.0%
GCTGTTCCTGGACATTGCGT+AGG - chr6.1:71358821-71358840 MS.gene58908:intron 55.0%
GTGTGGTAGTTGTTGCGGCA+AGG + chr6.1:71358931-71358950 None:intergenic 55.0%
GTTCCTGGACATTGCGTAGG+TGG - chr6.1:71358824-71358843 MS.gene58908:intron 55.0%
TGCACTTTGCGTGGTAGGAG+TGG + chr6.1:71358969-71358988 None:intergenic 55.0%
TTGCGTGGTAGGAGTGGTGG+TGG + chr6.1:71358963-71358982 None:intergenic 60.0%
! GGTGGTGGTCGTGGAAGGTG+TGG + chr6.1:71358948-71358967 None:intergenic 65.0%
!! GGAGTGGTGGTGGTCGTGGA+AGG + chr6.1:71358953-71358972 None:intergenic 65.0%
!! GGTAGGAGTGGTGGTGGTCG+TGG + chr6.1:71358957-71358976 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 71358414 71359069 71358414 ID=MS.gene58908
chr6.1 mRNA 71358414 71359069 71358414 ID=MS.gene58908.t1;Parent=MS.gene58908
chr6.1 exon 71358952 71359069 71358952 ID=MS.gene58908.t1.exon1;Parent=MS.gene58908.t1
chr6.1 CDS 71358952 71359069 71358952 ID=cds.MS.gene58908.t1;Parent=MS.gene58908.t1
chr6.1 exon 71358414 71358808 71358414 ID=MS.gene58908.t1.exon2;Parent=MS.gene58908.t1
chr6.1 CDS 71358414 71358808 71358414 ID=cds.MS.gene58908.t1;Parent=MS.gene58908.t1
Gene Sequence

>MS.gene58908

ATGGCACTGCCAACTTTTGCAACTGTCCACACCGTTGGAGATACTTCAGGTTGGACAATCAGTTCTGATTATAGCACATGGGCTAGTGACAAAACCTTTGTAGTTGGAGACAGTCTTGGTAAGTATGAACTATAAACTTTCTTTATTAAACACAACTCAATAATGAGAAGAAAATTGAATTGTTCTCAATTTGATTATTTGTATAGTTTTAAATTGCAACCATAGTTTAAAAAACTAATGTATGTGACTTTATTATGACAGTGTTCAACTATGGAATTGGGCACACGGTGGATGAAGTTCAAGAAAGTGACTATAAATCATGCATAACTAGAAATTCAATTAGTACAGACAGTAGCGGTGCCACAACCATTCCCTTCAAAAAAGCAGGAACACATTACTTCATATGTGCTGTTCCTGGACATTGCGTAGGTGGCATGAAATTCTCTGTTAAGGTTAACGCTTCTTCTACTTCTGCTGCTCCTTCTGCAACACCATCAAGGAAAGGTGATGGCACCCTTGCCGCAACAACTACCACACCTTCCACGACCACCACCACTCCTACCACGCAAAGTGCAACTTCAGCTACTAGTATCTCACCAATTTTTGCTTTCTTTTTCACAGTTTCATGGATCTTGATAGGTCATATATTGGAGTGA
Protein sequence

>MS.gene58908.t1

MALPTFATVHTVGDTSGWTISSDYSTWASDKTFVVGDSLVFNYGIGHTVDEVQESDYKSCITRNSISTDSSGATTIPFKKAGTHYFICAVPGHCVGGMKFSVKVNASSTSAAPSATPSRKGDGTLAATTTTPSTTTTTPTTQSATSATSISPIFAFFFTVSWILIGHILE