AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035290

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035290.t1 MTR_4g119050 96.907 97 3 0 1 97 7 103 1.16e-66 195
MS.gene035290.t1 MTR_4g119030 96.907 97 3 0 1 97 7 103 1.16e-66 195
MS.gene035290.t1 MTR_4g119040 96.907 97 3 0 1 97 7 103 1.16e-66 195
MS.gene035290.t1 MTR_2g019900 81.443 97 17 1 1 97 7 102 2.46e-54 164
MS.gene035290.t1 MTR_2g019950 65.979 97 32 1 1 97 7 102 1.92e-41 132
MS.gene035290.t1 MTR_1g088905 59.794 97 38 1 1 97 7 102 5.66e-39 125
MS.gene035290.t1 MTR_7g108250 56.701 97 41 1 1 97 7 102 1.95e-38 124
MS.gene035290.t1 MTR_7g026770 61.458 96 37 0 1 96 28 123 3.06e-37 127
MS.gene035290.t1 MTR_7g022710 55.789 95 42 0 3 97 38 132 3.79e-36 119
MS.gene035290.t1 MTR_7g022690 54.737 95 43 0 3 97 38 132 3.56e-35 117
MS.gene035290.t1 MTR_7g022550 53.684 95 44 0 3 97 38 132 9.32e-35 115
MS.gene035290.t1 MTR_7g108220 52.083 96 46 0 1 96 7 102 1.21e-31 107
MS.gene035290.t1 MTR_1g088910 54.167 96 43 1 1 96 7 101 1.78e-31 106
MS.gene035290.t1 MTR_7g108210 51.042 96 47 0 1 96 7 102 6.24e-31 105
MS.gene035290.t1 MTR_1g088920 52.222 90 42 1 1 90 7 95 2.94e-30 103
MS.gene035290.t1 MTR_7g108200 51.111 90 43 1 1 90 7 95 3.17e-30 103
MS.gene035290.t1 MTR_1g088925 50.000 90 44 1 1 90 7 95 4.45e-30 103
MS.gene035290.t1 MTR_1g088895 49.485 97 48 1 1 97 7 102 2.55e-29 101
MS.gene035290.t1 MTR_7g108260 45.833 96 51 1 1 96 7 101 2.87e-27 96.3
MS.gene035290.t1 MTR_2g090755 43.299 97 55 0 1 97 44 140 3.64e-25 92.0
MS.gene035290.t1 MTR_4g079110 44.118 102 47 3 1 97 59 155 2.86e-24 90.1
MS.gene035290.t1 MTR_2g048970 47.000 100 50 1 1 97 34 133 1.06e-23 87.8
MS.gene035290.t1 MTR_2g014760 42.574 101 49 2 1 97 32 127 2.37e-23 87.0
MS.gene035290.t1 MTR_1g015890 42.157 102 50 2 1 97 52 149 2.32e-19 77.4
MS.gene035290.t1 MTR_7g035245 42.105 95 54 1 1 95 9 102 7.46e-18 72.4
MS.gene035290.t1 MTR_3g104510 38.144 97 53 2 1 96 27 117 4.40e-17 70.9
MS.gene035290.t1 MTR_1g069255 40.426 94 54 2 2 94 90 182 1.57e-15 68.2
MS.gene035290.t1 MTR_3g077570 36.842 95 59 1 1 95 24 117 4.24e-15 65.9
MS.gene035290.t1 MTR_5g077550 39.535 86 51 1 13 97 38 123 1.50e-14 64.3
MS.gene035290.t1 MTR_3g077560 35.789 95 60 1 1 95 27 120 5.58e-14 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035290.t1 AT5G18600 86.598 97 12 1 1 97 7 102 5.70e-58 173
MS.gene035290.t1 AT4G15680 79.381 97 19 1 1 97 7 102 1.35e-55 167
MS.gene035290.t1 AT4G15690 80.412 97 18 1 1 97 7 102 1.62e-55 167
MS.gene035290.t1 AT4G15700 78.351 97 20 1 1 97 7 102 8.06e-55 166
MS.gene035290.t1 AT4G15670 78.351 97 20 1 1 97 7 102 3.11e-54 164
MS.gene035290.t1 AT4G15660 77.320 97 21 1 1 97 7 102 7.17e-53 160
MS.gene035290.t1 AT3G21460 62.887 97 35 1 1 97 7 102 1.05e-39 127
MS.gene035290.t1 AT3G62930 57.732 97 40 1 1 97 7 102 1.25e-39 127
MS.gene035290.t1 AT1G03020 57.732 97 40 1 1 97 7 102 4.76e-39 125
MS.gene035290.t1 AT1G06830 58.889 90 36 1 1 90 7 95 1.56e-34 114
MS.gene035290.t1 AT2G47870 51.546 97 47 0 1 97 7 103 2.91e-34 114
MS.gene035290.t1 AT2G30540 58.889 90 36 1 1 90 7 95 3.29e-34 113
MS.gene035290.t1 AT5G14070 52.885 104 42 1 1 97 37 140 8.07e-33 111
MS.gene035290.t1 AT3G62950 48.454 97 50 0 1 97 7 103 3.22e-32 108
MS.gene035290.t1 AT2G47880 55.556 90 39 1 1 90 7 95 1.30e-31 107
MS.gene035290.t1 AT3G62960 53.333 90 41 1 1 90 7 95 5.79e-30 102
MS.gene035290.t1 AT3G02000 53.922 102 42 1 1 97 35 136 2.29e-28 100
MS.gene035290.t1 AT1G28480 37.000 100 60 1 1 97 38 137 1.38e-21 82.8
MS.gene035290.t1 AT4G33040 44.660 103 48 3 1 97 45 144 6.18e-21 81.3
MS.gene035290.t1 AT5G11930 43.299 97 44 3 1 96 61 147 8.96e-19 75.9
MS.gene035290.t1 AT1G03850 36.082 97 57 1 1 97 59 150 3.28e-18 74.3
MS.gene035290.t1 AT5G63030 40.000 95 56 1 1 95 25 118 3.21e-17 71.2
MS.gene035290.t1 AT2G20270 35.484 93 60 0 2 94 82 174 2.39e-14 65.1
MS.gene035290.t1 AT5G40370 35.789 95 60 1 1 95 9 102 1.77e-13 61.2
MS.gene035290.t1 AT4G28730 38.298 94 56 2 2 94 77 169 8.25e-13 60.8
MS.gene035290.t1 AT1G03850 32.927 82 50 1 1 82 59 135 7.16e-11 55.8

Find 12 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTCAATGTCTCTCCCTCT+TGG 0.408003 8.1:+9030136 None:intergenic
CAAGCACTTATTTCAAGACT+TGG 0.435000 8.1:-9030115 MS.gene035290:CDS
TTCATTGGTGGTGAGCTTGT+TGG 0.448261 8.1:-9030067 MS.gene035290:CDS
TCATCAAGTTCATAAACTGC+TGG 0.480601 8.1:+9030163 None:intergenic
ATTGGTGGTGAGCTTGTTGG+TGG 0.517957 8.1:-9030064 MS.gene035290:CDS
ATGAAAACAGTTGGAACAGA+TGG 0.519711 8.1:+9030085 None:intergenic
CTCTTGCTGAATATCACCAC+AGG 0.603549 8.1:+9030241 None:intergenic
TAAGCATTGGAATCAAGGAA+CGG 0.606032 8.1:+9030011 None:intergenic
TCACCACCAATGAAAACAGT+TGG 0.607302 8.1:+9030076 None:intergenic
AACTTGATGAGATACCAAGA+GGG 0.630472 8.1:-9030150 MS.gene035290:CDS
GAACTTGATGAGATACCAAG+AGG 0.671905 8.1:-9030151 MS.gene035290:CDS
AATGGTTTCAGAGAGACCTG+TGG 0.745891 8.1:-9030257 MS.gene035290:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTAAGCATTGGAATCA+AGG + chr8.1:9030238-9030257 None:intergenic 25.0%
ATTCCAATGCTTAAAAAAGC+TGG - chr8.1:9030240-9030259 MS.gene035290:CDS 30.0%
! AAGACACTATTTTGTGACTT+TGG - chr8.1:9030048-9030067 MS.gene035290:CDS 30.0%
AACTTGATGAGATACCAAGA+GGG - chr8.1:9030091-9030110 MS.gene035290:CDS 35.0%
ATGAAAACAGTTGGAACAGA+TGG + chr8.1:9030159-9030178 None:intergenic 35.0%
CAAGCACTTATTTCAAGACT+TGG - chr8.1:9030126-9030145 MS.gene035290:CDS 35.0%
TAAAAAAGCTGGTGCTCTTT+GGG - chr8.1:9030251-9030270 MS.gene035290:CDS 35.0%
TCATCAAGTTCATAAACTGC+TGG + chr8.1:9030081-9030100 None:intergenic 35.0%
TTAAAAAAGCTGGTGCTCTT+TGG - chr8.1:9030250-9030269 MS.gene035290:CDS 35.0%
! TCTGTTCCAACTGTTTTCAT+TGG - chr8.1:9030159-9030178 MS.gene035290:CDS 35.0%
!! TAAGCATTGGAATCAAGGAA+CGG + chr8.1:9030233-9030252 None:intergenic 35.0%
GAACTTGATGAGATACCAAG+AGG - chr8.1:9030090-9030109 MS.gene035290:CDS 40.0%
TCACCACCAATGAAAACAGT+TGG + chr8.1:9030168-9030187 None:intergenic 40.0%
! GTTCCAACTGTTTTCATTGG+TGG - chr8.1:9030162-9030181 MS.gene035290:CDS 40.0%
!!! GCACCAGCTTTTTTAAGCAT+TGG + chr8.1:9030246-9030265 None:intergenic 40.0%
CTCTTGCTGAATATCACCAC+AGG + chr8.1:9030003-9030022 None:intergenic 45.0%
TGTTCAATGTCTCTCCCTCT+TGG + chr8.1:9030108-9030127 None:intergenic 45.0%
!! TTCATTGGTGGTGAGCTTGT+TGG - chr8.1:9030174-9030193 MS.gene035290:CDS 45.0%
!! ATTGGTGGTGAGCTTGTTGG+TGG - chr8.1:9030177-9030196 MS.gene035290:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 9029985 9030278 9029985 ID=MS.gene035290
chr8.1 mRNA 9029985 9030278 9029985 ID=MS.gene035290.t1;Parent=MS.gene035290
chr8.1 exon 9029985 9030278 9029985 ID=MS.gene035290.t1.exon1;Parent=MS.gene035290.t1
chr8.1 CDS 9029985 9030278 9029985 ID=cds.MS.gene035290.t1;Parent=MS.gene035290.t1
Gene Sequence

>MS.gene035290

ATGGTTTCAGAGAGACCTGTGGTGATATTCAGCAAGAGTTCATGTTGCATGAGTCATACAATAAAGACACTATTTTGTGACTTTGGTGTGAATCCAGCAGTTTATGAACTTGATGAGATACCAAGAGGGAGAGACATTGAACAAGCACTTATTTCAAGACTTGGTTGTTCTCCATCTGTTCCAACTGTTTTCATTGGTGGTGAGCTTGTTGGTGGAGCTAATCAAGTCATGAGTCTTCATCTTAACCGTTCCTTGATTCCAATGCTTAAAAAAGCTGGTGCTCTTTGGGTTTAA
Protein sequence

>MS.gene035290.t1

MVSERPVVIFSKSSCCMSHTIKTLFCDFGVNPAVYELDEIPRGRDIEQALISRLGCSPSVPTVFIGGELVGGANQVMSLHLNRSLIPMLKKAGALWV