AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene038783

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038783.t1 MTR_4g111640 93.923 181 11 0 1 181 1 181 8.22e-128 356
MS.gene038783.t1 MTR_4g077787 84.916 179 25 2 1 178 1 178 2.25e-112 317
MS.gene038783.t1 MTR_4g112310 98.473 131 2 0 51 181 1 131 1.04e-94 271
MS.gene038783.t1 MTR_6g022170 55.833 120 50 2 23 140 25 143 4.56e-43 141
MS.gene038783.t1 MTR_3g105930 41.722 151 78 5 31 173 26 174 1.36e-31 112
MS.gene038783.t1 MTR_2g101300 37.671 146 86 3 12 155 5 147 1.89e-31 112
MS.gene038783.t1 MTR_4g078410 36.095 169 84 5 31 180 24 187 3.73e-30 109
MS.gene038783.t1 MTR_2g090580 40.769 130 64 4 31 151 26 151 9.29e-30 108
MS.gene038783.t1 MTR_2g079030 37.179 156 83 3 14 158 7 158 2.34e-27 107
MS.gene038783.t1 MTR_8g463180 41.304 138 72 3 11 146 6 136 3.87e-27 104
MS.gene038783.t1 MTR_1g014120 37.838 148 79 5 7 146 3 145 5.64e-26 98.6
MS.gene038783.t1 MTR_8g095013 38.525 122 67 3 12 131 8 123 9.90e-26 100
MS.gene038783.t1 MTR_8g086360 35.811 148 85 4 8 153 3 142 1.93e-25 97.1
MS.gene038783.t1 MTR_8g094990 37.705 122 68 3 12 131 8 123 9.24e-24 94.7
MS.gene038783.t1 MTR_2g090575 35.772 123 70 3 12 132 8 123 1.03e-21 90.5
MS.gene038783.t1 MTR_7g090170 37.226 137 64 6 29 160 24 143 7.39e-21 84.3
MS.gene038783.t1 MTR_4g124280 36.735 147 68 5 32 157 25 167 1.16e-20 85.9
MS.gene038783.t1 MTR_8g095020 35.246 122 72 3 13 132 6 122 1.48e-20 87.0
MS.gene038783.t1 MTR_1g077790 37.143 105 63 2 29 131 26 129 1.61e-20 84.3
MS.gene038783.t1 MTR_4g081100 34.426 122 72 3 13 132 17 132 2.81e-20 84.3
MS.gene038783.t1 MTR_2g083250 38.095 105 61 3 31 132 25 128 2.24e-19 82.8
MS.gene038783.t1 MTR_4g114870 37.255 102 60 2 32 131 191 290 2.70e-18 81.3
MS.gene038783.t1 MTR_4g114870 30.201 149 96 4 1 146 1 144 3.89e-15 72.4
MS.gene038783.t1 MTR_5g006040 30.909 165 100 6 26 181 20 179 3.53e-18 78.2
MS.gene038783.t1 MTR_1g090420 31.944 144 92 3 11 151 7 147 1.17e-17 77.4
MS.gene038783.t1 MTR_0334s0010 31.967 122 78 3 12 131 7 125 1.77e-17 76.6
MS.gene038783.t1 MTR_4g067200 29.921 127 83 3 14 136 10 134 3.29e-16 72.8
MS.gene038783.t1 MTR_4g066110 29.921 127 83 3 14 136 10 134 3.29e-16 72.8
MS.gene038783.t1 MTR_6g083240 32.000 150 89 5 32 173 27 171 7.44e-16 71.6
MS.gene038783.t1 MTR_1g104800 34.906 106 63 2 32 135 25 126 1.18e-15 71.6
MS.gene038783.t1 MTR_3g092170 29.448 163 87 3 13 151 6 164 7.80e-15 70.9
MS.gene038783.t1 MTR_2g088990 32.174 115 70 3 29 141 22 130 1.45e-14 69.3
MS.gene038783.t1 MTR_3g099580 34.783 115 62 3 24 131 12 120 2.82e-14 67.8
MS.gene038783.t1 MTR_3g099570 30.070 143 87 6 12 151 7 139 5.30e-14 67.0
MS.gene038783.t1 MTR_6g023760 36.538 104 58 3 30 131 24 121 1.27e-13 65.9
MS.gene038783.t1 MTR_6g013420 28.859 149 93 5 4 146 8 149 2.18e-13 65.5
MS.gene038783.t1 MTR_4g130780 32.061 131 78 5 7 131 4 129 2.51e-12 62.4
MS.gene038783.t1 MTR_3g099540 32.174 115 65 4 24 131 13 121 3.20e-12 61.2
MS.gene038783.t1 MTR_2g025580 27.811 169 108 5 16 176 7 169 8.48e-12 60.8
MS.gene038783.t1 MTR_4g114830 30.534 131 84 5 21 146 17 145 1.35e-11 60.1
MS.gene038783.t1 MTR_3g099980 32.710 107 63 3 30 133 24 124 9.46e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038783.t1 AT1G48940 47.126 174 74 3 11 173 10 176 3.10e-52 165
MS.gene038783.t1 AT3G18590 60.000 120 45 1 16 132 8 127 1.72e-51 164
MS.gene038783.t1 AT5G14345 43.704 135 70 2 12 146 1 129 3.22e-36 123
MS.gene038783.t1 AT4G28365 39.583 144 76 3 12 148 9 148 1.38e-32 115
MS.gene038783.t1 AT1G79800 41.935 124 71 1 12 135 14 136 6.45e-32 114
MS.gene038783.t1 AT5G53870 37.209 172 92 5 1 164 1 164 6.43e-30 112
MS.gene038783.t1 AT5G53870 37.209 172 92 5 1 164 1 164 7.55e-30 112
MS.gene038783.t1 AT4G31840 39.860 143 78 4 12 151 10 147 2.70e-29 106
MS.gene038783.t1 AT4G32490 34.177 158 96 3 12 165 9 162 4.49e-27 102
MS.gene038783.t1 AT2G25060 36.774 155 83 5 16 167 19 161 1.61e-25 97.4
MS.gene038783.t1 AT5G57920 43.363 113 57 4 25 132 13 123 3.22e-23 91.3
MS.gene038783.t1 AT4G30590 38.889 126 71 4 11 132 6 129 7.54e-23 90.5
MS.gene038783.t1 AT5G57920 43.810 105 54 3 31 132 22 124 9.39e-23 90.1
MS.gene038783.t1 AT4G27520 32.639 144 91 2 5 146 4 143 1.35e-22 92.8
MS.gene038783.t1 AT5G57920 41.176 119 62 4 31 143 54 170 1.89e-22 90.1
MS.gene038783.t1 AT1G64640 30.935 139 91 2 12 148 13 148 3.78e-21 86.3
MS.gene038783.t1 AT5G25090 42.241 116 59 5 24 133 15 128 5.17e-21 85.5
MS.gene038783.t1 AT3G20570 32.787 122 73 3 13 132 15 129 1.35e-20 85.1
MS.gene038783.t1 AT2G31050 34.286 140 83 3 3 140 2 134 2.95e-19 81.3
MS.gene038783.t1 AT2G26720 35.484 124 72 4 12 132 8 126 2.89e-18 79.0
MS.gene038783.t1 AT2G32300 31.250 144 88 5 13 151 6 143 2.96e-18 80.1
MS.gene038783.t1 AT2G23990 33.571 140 85 5 16 151 11 146 3.91e-18 78.6
MS.gene038783.t1 AT2G32300 31.250 144 88 5 13 151 36 173 6.58e-18 79.3
MS.gene038783.t1 AT3G60270 33.333 102 61 3 32 132 26 121 1.63e-14 68.6
MS.gene038783.t1 AT5G26330 29.851 134 80 4 1 132 1 122 2.55e-14 68.2
MS.gene038783.t1 AT2G23990 29.560 159 85 6 16 151 11 165 7.95e-14 67.4
MS.gene038783.t1 AT5G07475 29.496 139 90 3 12 148 10 142 2.14e-13 65.9
MS.gene038783.t1 AT1G45063 29.839 124 79 2 12 132 9 127 3.45e-12 63.5
MS.gene038783.t1 AT1G45063 29.839 124 79 2 12 132 9 127 7.49e-12 63.2
MS.gene038783.t1 AT2G27035 30.631 111 66 5 35 142 32 134 1.73e-11 60.1
MS.gene038783.t1 AT3G27200 33.607 122 70 5 16 132 7 122 3.75e-11 59.3

Find 36 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGAAGTTGGTGGTAAAAT+TGG 0.248593 8.3:+14544082 MS.gene038783:CDS
TCATCACCATCCTTTGAGTT+AGG 0.279895 8.3:-14544115 None:intergenic
GGTGAGGGTGCTGTTGGTTC+AGG 0.348949 8.3:-14544798 None:intergenic
CTATTTGCTTTGTCATTCCT+TGG 0.356691 8.3:+14544900 MS.gene038783:CDS
TACTTCATTAGTGGTGTTAG+TGG 0.359912 8.3:+14544726 MS.gene038783:CDS
GTGAATGCTGTGATAGTAAT+AGG 0.400127 8.3:-14544876 None:intergenic
CATCACCATCCTTTGAGTTA+GGG 0.425498 8.3:-14544114 None:intergenic
GGATTGTTCTACTTCATTAG+TGG 0.430222 8.3:+14544717 MS.gene038783:CDS
GTGATGAAATGTACAACAAA+TGG 0.453312 8.3:+14544131 MS.gene038783:CDS
GCAGCTTTAGAATGTGCTAT+TGG 0.459227 8.3:-14544843 None:intergenic
TCGACTCGTCCACTCTTCTT+CGG 0.480946 8.3:+14544657 MS.gene038783:CDS
GCAAAGGAAAAGTGGGTATG+AGG 0.483957 8.3:-14544011 None:intergenic
AGTTGGTGGTAAAATTGGTT+GGG 0.488516 8.3:+14544087 MS.gene038783:CDS
GCATTCTCATTTGCAGATTG+TGG 0.492826 8.3:-14544819 None:intergenic
GATTGTGGTGAGGGTGCTGT+TGG 0.512152 8.3:-14544804 None:intergenic
AATTGTACTGAATTTGAAGT+TGG 0.513642 8.3:+14544070 MS.gene038783:CDS
TCATTTGCAGATTGTGGTGA+GGG 0.517209 8.3:-14544813 None:intergenic
CCATTGTTTCCGAAGAAGAG+TGG 0.518696 8.3:-14544666 None:intergenic
ATAATCAAGCAAAGGAAAAG+TGG 0.519598 8.3:-14544019 None:intergenic
CTCATTTGCAGATTGTGGTG+AGG 0.521847 8.3:-14544814 None:intergenic
TGTACTGAATTTGAAGTTGG+TGG 0.533474 8.3:+14544073 MS.gene038783:CDS
CTAATGAAGTAGAACAATCC+TGG 0.545709 8.3:-14544714 None:intergenic
AAGTTGGTGGTAAAATTGGT+TGG 0.549766 8.3:+14544086 MS.gene038783:CDS
TGATGAAATGTACAACAAAT+GGG 0.552171 8.3:+14544132 MS.gene038783:CDS
TAATCAAGCAAAGGAAAAGT+GGG 0.571116 8.3:-14544018 None:intergenic
CCACTCTTCTTCGGAAACAA+TGG 0.572032 8.3:+14544666 MS.gene038783:CDS
CGAGAAAGATTCAGTGATGG+TGG 0.591369 8.3:+14544605 MS.gene038783:CDS
CTTCGGAAACAATGGCAACA+CGG 0.597439 8.3:+14544674 MS.gene038783:CDS
TGGTGGTAAAATTGGTTGGG+TGG 0.599284 8.3:+14544090 MS.gene038783:CDS
GTTAGTGGTCATTGTACAAG+AGG 0.601760 8.3:+14544741 MS.gene038783:CDS
TTGGGTGGTCCCTAACTCAA+AGG 0.612930 8.3:+14544105 MS.gene038783:CDS
GTATGAGGAAGCTTTGAAGA+TGG 0.616797 8.3:-14543996 None:intergenic
CAAACAAAATAATCAAGCAA+AGG 0.622930 8.3:-14544027 None:intergenic
TTCAAGCATAAATCATGCCA+AGG 0.629433 8.3:-14544917 None:intergenic
GTGGTCCCTAACTCAAAGGA+TGG 0.629713 8.3:+14544109 MS.gene038783:CDS
GTACGAGAAAGATTCAGTGA+TGG 0.658831 8.3:+14544602 MS.gene038783:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATGTATCTTAAAATTAAAT+CGG - chr8.3:14544211-14544230 None:intergenic 10.0%
!! ACAAAAGTTATATAACAAAA+AGG - chr8.3:14544558-14544577 None:intergenic 15.0%
!! TTTAAAAATGGTAACATAAA+TGG - chr8.3:14544363-14544382 None:intergenic 15.0%
!!! ATCACAAATTTTTTAGAAAA+TGG - chr8.3:14544440-14544459 None:intergenic 15.0%
!!! TTTCTAAAAAGAAATGAATA+AGG + chr8.3:14544265-14544284 MS.gene038783:intron 15.0%
!! AAAAAAATTAATCTTTGTCG+TGG + chr8.3:14544531-14544550 MS.gene038783:intron 20.0%
!! AATGCACACATATTTAAAAA+TGG - chr8.3:14544375-14544394 None:intergenic 20.0%
!!! ATCAATTTTGAATCTGTTTT+GGG - chr8.3:14544161-14544180 None:intergenic 20.0%
!!! TAACTTTTGTTTTGAACTTT+TGG + chr8.3:14544568-14544587 MS.gene038783:intron 20.0%
! AAAATTAAATCGGTAAGAAG+TGG - chr8.3:14544201-14544220 None:intergenic 25.0%
! CAAACAAAATAATCAAGCAA+AGG - chr8.3:14544030-14544049 None:intergenic 25.0%
! TGATGAAATGTACAACAAAT+GGG + chr8.3:14544132-14544151 MS.gene038783:CDS 25.0%
!! AAAAATGATCATCAAGGTTT+TGG + chr8.3:14544767-14544786 MS.gene038783:CDS 25.0%
!! AATTGTACTGAATTTGAAGT+TGG + chr8.3:14544070-14544089 MS.gene038783:CDS 25.0%
!! ACAATTGATGACCAAAAATT+GGG - chr8.3:14544056-14544075 None:intergenic 25.0%
!! ATATCAATTACCAAAGCATT+GGG - chr8.3:14544403-14544422 None:intergenic 25.0%
!! CATCAATTTTGAATCTGTTT+TGG - chr8.3:14544162-14544181 None:intergenic 25.0%
!! TACAATTGATGACCAAAAAT+TGG - chr8.3:14544057-14544076 None:intergenic 25.0%
AGGACAAAAAATGATCATCA+AGG + chr8.3:14544761-14544780 MS.gene038783:CDS 30.0%
ATAATCAAGCAAAGGAAAAG+TGG - chr8.3:14544022-14544041 None:intergenic 30.0%
GATATCAATTACCAAAGCAT+TGG - chr8.3:14544404-14544423 None:intergenic 30.0%
GTGATGAAATGTACAACAAA+TGG + chr8.3:14544131-14544150 MS.gene038783:CDS 30.0%
TAATCAAGCAAAGGAAAAGT+GGG - chr8.3:14544021-14544040 None:intergenic 30.0%
!! TTTGAAGTTGGTGGTAAAAT+TGG + chr8.3:14544082-14544101 MS.gene038783:CDS 30.0%
CTAATGAAGTAGAACAATCC+TGG - chr8.3:14544717-14544736 None:intergenic 35.0%
CTATTTGCTTTGTCATTCCT+TGG + chr8.3:14544900-14544919 MS.gene038783:CDS 35.0%
GCATTTATATCCCAATGCTT+TGG + chr8.3:14544390-14544409 MS.gene038783:intron 35.0%
GGATTGTTCTACTTCATTAG+TGG + chr8.3:14544717-14544736 MS.gene038783:CDS 35.0%
GTGAATGCTGTGATAGTAAT+AGG - chr8.3:14544879-14544898 None:intergenic 35.0%
TAAGGTCACTACAAAAGTGA+AGG + chr8.3:14544283-14544302 MS.gene038783:intron 35.0%
! ATTGATGACCAAAAATTGGG+AGG - chr8.3:14544053-14544072 None:intergenic 35.0%
! GTTTTCAAATTTGAACGACC+AGG + chr8.3:14544696-14544715 MS.gene038783:CDS 35.0%
! TACTTCATTAGTGGTGTTAG+TGG + chr8.3:14544726-14544745 MS.gene038783:CDS 35.0%
! TGTACTGAATTTGAAGTTGG+TGG + chr8.3:14544073-14544092 MS.gene038783:CDS 35.0%
! TTTGTTTGCCTCCCAATTTT+TGG + chr8.3:14544042-14544061 MS.gene038783:CDS 35.0%
!! AAGTTGGTGGTAAAATTGGT+TGG + chr8.3:14544086-14544105 MS.gene038783:CDS 35.0%
!! AGTTGGTGGTAAAATTGGTT+GGG + chr8.3:14544087-14544106 MS.gene038783:CDS 35.0%
GCATTCTCATTTGCAGATTG+TGG - chr8.3:14544822-14544841 None:intergenic 40.0%
GTACGAGAAAGATTCAGTGA+TGG + chr8.3:14544602-14544621 MS.gene038783:CDS 40.0%
GTTAGTGGTCATTGTACAAG+AGG + chr8.3:14544741-14544760 MS.gene038783:CDS 40.0%
TCATTTGCAGATTGTGGTGA+GGG - chr8.3:14544816-14544835 None:intergenic 40.0%
! CATCACCATCCTTTGAGTTA+GGG - chr8.3:14544117-14544136 None:intergenic 40.0%
! TCATCACCATCCTTTGAGTT+AGG - chr8.3:14544118-14544137 None:intergenic 40.0%
!! GCAGCTTTAGAATGTGCTAT+TGG - chr8.3:14544846-14544865 None:intergenic 40.0%
!! GTATGAGGAAGCTTTGAAGA+TGG - chr8.3:14543999-14544018 None:intergenic 40.0%
CCACTCTTCTTCGGAAACAA+TGG + chr8.3:14544666-14544685 MS.gene038783:CDS 45.0%
CCATTGTTTCCGAAGAAGAG+TGG - chr8.3:14544669-14544688 None:intergenic 45.0%
CGAGAAAGATTCAGTGATGG+TGG + chr8.3:14544605-14544624 MS.gene038783:CDS 45.0%
CTCATTTGCAGATTGTGGTG+AGG - chr8.3:14544817-14544836 None:intergenic 45.0%
CTTCGGAAACAATGGCAACA+CGG + chr8.3:14544674-14544693 MS.gene038783:CDS 45.0%
GCAAAGGAAAAGTGGGTATG+AGG - chr8.3:14544014-14544033 None:intergenic 45.0%
TGGTGGTAAAATTGGTTGGG+TGG + chr8.3:14544090-14544109 MS.gene038783:CDS 45.0%
!!! ATGATATATTTTATTTTTAA+AGG + chr8.3:14544315-14544334 MS.gene038783:intron 5.0%
!!! TGATATATTTTATTTTTAAA+GGG + chr8.3:14544316-14544335 MS.gene038783:intron 5.0%
GTGGTCCCTAACTCAAAGGA+TGG + chr8.3:14544109-14544128 MS.gene038783:CDS 50.0%
TTGGGTGGTCCCTAACTCAA+AGG + chr8.3:14544105-14544124 MS.gene038783:CDS 50.0%
! TCGACTCGTCCACTCTTCTT+CGG + chr8.3:14544657-14544676 MS.gene038783:CDS 50.0%
!! GATTGTGGTGAGGGTGCTGT+TGG - chr8.3:14544807-14544826 None:intergenic 55.0%
!! GGTGAGGGTGCTGTTGGTTC+AGG - chr8.3:14544801-14544820 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 14543989 14544938 14543989 ID=MS.gene038783
chr8.3 mRNA 14543989 14544938 14543989 ID=MS.gene038783.t1;Parent=MS.gene038783
chr8.3 exon 14543989 14544190 14543989 ID=MS.gene038783.t1.exon1;Parent=MS.gene038783.t1
chr8.3 CDS 14543989 14544190 14543989 ID=cds.MS.gene038783.t1;Parent=MS.gene038783.t1
chr8.3 exon 14544595 14544938 14544595 ID=MS.gene038783.t1.exon2;Parent=MS.gene038783.t1
chr8.3 CDS 14544595 14544938 14544595 ID=cds.MS.gene038783.t1;Parent=MS.gene038783.t1
Gene Sequence

>MS.gene038783

ATGGCTGCCATCTTCAAAGCTTCCTCATACCCACTTTTCCTTTGCTTGATTATTTTGTTTGCCTCCCAATTTTTGGTCATCAATTGTACTGAATTTGAAGTTGGTGGTAAAATTGGTTGGGTGGTCCCTAACTCAAAGGATGGTGATGAAATGTACAACAAATGGGCTTCCCAAAACAGATTCAAAATTGATGATATTATTCGTAAGTACCACTTCTTACCGATTTAATTTTAAGATACATATATGTATGTTTTGTTTGAGTTGAGATCATCTTCATTTCTAAAAAGAAATGAATAAGGTCACTACAAAAGTGAAGGTATAAATGCATGATATATTTTATTTTTAAAGGGAAATGCATGATATATATGTCACCATTTATGTTACCATTTTTAAATATGTGTGCATTTATATCCCAATGCTTTGGTAATTGATATCTTTATTGTTCGATCCATTTTCTAAAAAATTTGTGATCACAATTCTCGACAATTTTTCATACTATAGAGAATTACAATCACAAAAGACATAAATTTGATGTGTATACAAAAAAAATTAATCTTTGTCGTGGACCTTTTTGTTATATAACTTTTGTTTTGAACTTTTGGTTAGATTTCAAGTACGAGAAAGATTCAGTGATGGTGGTTAGTGAAGAAGAATATGAGAATTGCAAATCGACTCGTCCACTCTTCTTCGGAAACAATGGCAACACGGTTTTCAAATTTGAACGACCAGGATTGTTCTACTTCATTAGTGGTGTTAGTGGTCATTGTACAAGAGGACAAAAAATGATCATCAAGGTTTTGGATGTTGAACCTGAACCAACAGCACCCTCACCACAATCTGCAAATGAGAATGCACCAATAGCACATTCTAAAGCTGCTCAAATAACTCCTATTACTATCACAGCATTCACACTATTTGCTTTGTCATTCCTTGGCATGATTTATGCTTGA
Protein sequence

>MS.gene038783.t1

MAAIFKASSYPLFLCLIILFASQFLVINCTEFEVGGKIGWVVPNSKDGDEMYNKWASQNRFKIDDIIHFKYEKDSVMVVSEEEYENCKSTRPLFFGNNGNTVFKFERPGLFYFISGVSGHCTRGQKMIIKVLDVEPEPTAPSPQSANENAPIAHSKAAQITPITITAFTLFALSFLGMIYA