AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene21424

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21424.t1 MTR_1g090783 95.513 156 7 0 1 156 1 156 1.95e-107 303
MS.gene21424.t1 MTR_5g047580 66.667 153 51 0 2 154 3 155 6.19e-70 208
MS.gene21424.t1 MTR_1g090697 61.039 154 60 0 2 155 3 156 4.18e-61 186
MS.gene21424.t1 MTR_1g090710 60.645 155 60 1 2 155 3 157 4.51e-61 186
MS.gene21424.t1 MTR_1g077390 57.792 154 65 0 1 154 2 155 4.27e-59 181
MS.gene21424.t1 MTR_1g084950 64.052 153 55 0 2 154 3 155 2.51e-58 179
MS.gene21424.t1 MTR_1g077320 57.516 153 65 0 2 154 3 155 1.87e-52 164
MS.gene21424.t1 MTR_7g011950 56.863 153 66 0 2 154 3 155 7.25e-52 162
MS.gene21424.t1 MTR_4g028720 57.516 153 65 0 2 154 3 155 2.94e-51 161
MS.gene21424.t1 MTR_1g077300 58.442 154 62 1 1 154 2 153 1.42e-49 156
MS.gene21424.t1 MTR_5g047560 54.902 153 53 1 2 154 3 139 1.16e-48 154
MS.gene21424.t1 MTR_3g466830 43.949 157 87 1 1 156 1 157 6.16e-39 130
MS.gene21424.t1 MTR_3g466890 42.038 157 90 1 1 156 1 157 4.20e-37 125
MS.gene21424.t1 MTR_4g032620 40.136 147 86 2 2 146 3 149 1.46e-34 120
MS.gene21424.t1 MTR_3g466980 38.158 152 93 1 2 152 3 154 7.43e-34 119
MS.gene21424.t1 MTR_8g036130 37.975 158 94 2 2 155 3 160 2.20e-33 118
MS.gene21424.t1 MTR_3g065100 41.722 151 87 1 2 151 3 153 1.56e-30 110
MS.gene21424.t1 MTR_4g063790 41.290 155 83 4 2 151 3 154 1.52e-29 106
MS.gene21424.t1 MTR_4g031910 40.260 154 90 2 2 153 3 156 2.62e-29 107
MS.gene21424.t1 MTR_5g075380 33.117 154 102 1 3 155 4 157 7.92e-27 99.0
MS.gene21424.t1 MTR_2g016210 37.419 155 95 2 3 155 4 158 8.58e-27 101
MS.gene21424.t1 MTR_2g035610 41.176 119 69 1 2 119 3 121 1.02e-26 97.8
MS.gene21424.t1 MTR_3g031240 37.342 158 93 4 2 155 3 158 2.10e-26 98.6
MS.gene21424.t1 MTR_3g466900 38.583 127 77 1 31 156 2 128 3.75e-26 96.7
MS.gene21424.t1 MTR_3g031100 37.342 158 95 3 2 156 3 159 4.07e-25 96.7
MS.gene21424.t1 MTR_4g028800 58.571 70 27 1 3 72 4 71 1.08e-24 90.9
MS.gene21424.t1 MTR_3g466930 36.220 127 80 1 31 156 2 128 1.36e-23 90.1
MS.gene21424.t1 MTR_4g032260 40.541 148 86 2 1 146 2 149 1.54e-23 90.5
MS.gene21424.t1 MTR_3g467080 31.613 155 104 2 2 154 3 157 8.35e-23 88.6
MS.gene21424.t1 MTR_2g035580 34.839 155 100 1 3 156 4 158 5.37e-22 86.7
MS.gene21424.t1 MTR_4g032290 39.610 154 91 2 2 153 3 156 6.03e-22 88.2
MS.gene21424.t1 MTR_3g465410 33.884 121 78 2 28 146 1 121 1.25e-16 72.4
MS.gene21424.t1 MTR_4g019670 26.897 145 105 1 2 145 6 150 8.75e-16 73.6
MS.gene21424.t1 MTR_1g033930 42.056 107 55 3 55 154 8 114 7.39e-15 67.0
MS.gene21424.t1 MTR_1g033370 40.206 97 57 1 56 151 21 117 1.74e-14 66.2
MS.gene21424.t1 MTR_3g093900 25.161 155 115 1 2 155 6 160 1.88e-14 70.1
MS.gene21424.t1 MTR_7g106510 25.175 143 100 1 2 144 6 141 8.23e-14 68.2
MS.gene21424.t1 MTR_7g055800 31.897 116 52 2 2 117 3 91 3.77e-13 62.0
MS.gene21424.t1 MTR_1g033790 42.308 104 53 3 55 151 8 111 4.61e-13 62.4
MS.gene21424.t1 MTR_6g005450 31.532 111 70 3 2 106 3 113 9.93e-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.gene21424.t1 AT1G65300 44.828 145 79 1 1 144 1 145 1.69e-38 132
MS.gene21424.t1 AT1G65330 45.517 145 78 1 1 144 1 145 1.44e-37 130
MS.gene21424.t1 AT3G05860 41.096 146 85 1 2 146 3 148 1.86e-32 114
MS.gene21424.t1 AT3G05860 41.096 146 85 1 2 146 3 148 6.17e-32 114
MS.gene21424.t1 AT3G05860 41.096 146 85 1 2 146 3 148 7.58e-32 114
MS.gene21424.t1 AT5G26650 40.523 153 90 1 3 154 2 154 3.01e-31 115
MS.gene21424.t1 AT5G48670 42.384 151 86 1 2 151 3 153 1.23e-30 112
MS.gene21424.t1 AT5G26630 41.060 151 88 1 2 151 3 153 1.61e-30 110
MS.gene21424.t1 AT5G27960 39.216 153 92 1 3 154 2 154 3.70e-29 108
MS.gene21424.t1 AT1G31630 32.895 152 100 2 1 151 1 151 8.26e-27 103
MS.gene21424.t1 AT1G31640 34.014 147 95 2 1 146 1 146 2.71e-23 95.1
MS.gene21424.t1 AT1G22590 32.903 155 102 1 2 156 3 155 3.14e-21 84.7
MS.gene21424.t1 AT5G26580 34.228 149 85 1 3 151 4 139 1.38e-19 84.0
MS.gene21424.t1 AT5G27810 36.559 93 58 1 28 119 1 93 4.46e-19 78.2
MS.gene21424.t1 AT2G28700 30.822 146 98 3 2 145 3 147 1.97e-18 80.5
MS.gene21424.t1 AT5G06500 31.293 147 93 4 2 144 3 145 3.48e-13 65.1
MS.gene21424.t1 AT2G40210 32.857 140 90 3 2 139 3 140 5.62e-11 59.7

Find 25 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTCTTGGTTCAAATTCT+TGG 0.209087 1.4:-72059087 None:intergenic
ACCTCTACTTGAGAATTAAA+AGG 0.282594 1.4:-72058996 None:intergenic
ACCCTTCTTTCGTTTGTTGT+AGG 0.315510 1.4:-72058907 None:intergenic
TGCTGAAGAACTGAAAGATT+TGG 0.330899 1.4:+72059238 MS.gene21424:CDS
TGCCGCACCATTGGAGATAA+AGG 0.336190 1.4:-72058874 None:intergenic
TGCCTTCCTTGCCGCACCAT+TGG 0.403210 1.4:-72058883 None:intergenic
TTAATTCTCAAGTAGAGGTC+TGG 0.432525 1.4:+72059000 MS.gene21424:CDS
TATTGAGAAGAAGCTGAAAG+AGG 0.440765 1.4:+72059268 MS.gene21424:CDS
GAAGAACTCACAACTCTTTG+TGG 0.452870 1.4:+72058945 MS.gene21424:CDS
AACCTACAACAAACGAAAGA+AGG 0.478774 1.4:+72058905 MS.gene21424:CDS
TTTGCATGATTAAACCCTCT+TGG 0.480889 1.4:-72059100 None:intergenic
CTCCAATGGTGCGGCAAGGA+AGG 0.499386 1.4:+72058881 MS.gene21424:CDS
AAACTTGCCTTTATCTCCAA+TGG 0.509814 1.4:+72058867 MS.gene21424:CDS
ACCAAGAATTTGAACCAAGA+GGG 0.512184 1.4:+72059086 MS.gene21424:CDS
TAGAGACCGGCTAAGAAAGT+TGG 0.534113 1.4:+72059136 MS.gene21424:CDS
AAAGAAGGGTATCATAAAGA+AGG 0.534887 1.4:+72058920 MS.gene21424:CDS
GAAGGGTATCATAAAGAAGG+TGG 0.550480 1.4:+72058923 MS.gene21424:CDS
AGAGGTCTGGCCAGATCGAG+AGG 0.578371 1.4:+72059013 MS.gene21424:CDS
TGCCTTTATCTCCAATGGTG+CGG 0.586809 1.4:+72058872 MS.gene21424:CDS
ATATTGCTAAAGCTAGAGAC+CGG 0.607356 1.4:+72059123 MS.gene21424:CDS
TTATCTCCAATGGTGCGGCA+AGG 0.627345 1.4:+72058877 MS.gene21424:CDS
CTTTCAGTTCTTCAGCAGTG+AGG 0.630045 1.4:-72059232 None:intergenic
AACCAAGAATTTGAACCAAG+AGG 0.635779 1.4:+72059085 MS.gene21424:CDS
ACCTACAACAAACGAAAGAA+GGG 0.643388 1.4:+72058906 MS.gene21424:CDS
GAGGTCTGGCCAGATCGAGA+GGG 0.647218 1.4:+72059014 MS.gene21424:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCTCTACTTGAGAATTAAA+AGG - chr1.4:72058999-72059018 None:intergenic 30.0%
CATGCAAAACAAAAATTTGG+TGG + chr1.4:72059205-72059224 MS.gene21424:CDS 30.0%
GTGCATGCAAAACAAAAATT+TGG + chr1.4:72059202-72059221 MS.gene21424:CDS 30.0%
!! AAAGAAGGGTATCATAAAGA+AGG + chr1.4:72058920-72058939 MS.gene21424:CDS 30.0%
!! TCCTTTTAATTCTCAAGTAG+AGG + chr1.4:72058995-72059014 MS.gene21424:CDS 30.0%
AAACTTGCCTTTATCTCCAA+TGG + chr1.4:72058867-72058886 MS.gene21424:CDS 35.0%
AACCAAGAATTTGAACCAAG+AGG + chr1.4:72059085-72059104 MS.gene21424:CDS 35.0%
AACCTACAACAAACGAAAGA+AGG + chr1.4:72058905-72058924 MS.gene21424:CDS 35.0%
ACCAAGAATTTGAACCAAGA+GGG + chr1.4:72059086-72059105 MS.gene21424:CDS 35.0%
ACCTACAACAAACGAAAGAA+GGG + chr1.4:72058906-72058925 MS.gene21424:CDS 35.0%
ATATTGCTAAAGCTAGAGAC+CGG + chr1.4:72059123-72059142 MS.gene21424:CDS 35.0%
TATTGAGAAGAAGCTGAAAG+AGG + chr1.4:72059268-72059287 MS.gene21424:CDS 35.0%
TGCTGAAGAACTGAAAGATT+TGG + chr1.4:72059238-72059257 MS.gene21424:CDS 35.0%
TTAATTCTCAAGTAGAGGTC+TGG + chr1.4:72059000-72059019 MS.gene21424:CDS 35.0%
TTTGCATGATTAAACCCTCT+TGG - chr1.4:72059103-72059122 None:intergenic 35.0%
! AGCAGATCTATCTTTTTCTC+AGG - chr1.4:72059173-72059192 None:intergenic 35.0%
! TGTTTTCCAACTTTCTTAGC+CGG - chr1.4:72059145-72059164 None:intergenic 35.0%
ACCCTCTTGGTTCAAATTCT+TGG - chr1.4:72059090-72059109 None:intergenic 40.0%
GAAGAACTCACAACTCTTTG+TGG + chr1.4:72058945-72058964 MS.gene21424:CDS 40.0%
GAGCAAAAAAGGTGATTGAG+AGG + chr1.4:72059036-72059055 MS.gene21424:CDS 40.0%
!! ACCCTTCTTTCGTTTGTTGT+AGG - chr1.4:72058910-72058929 None:intergenic 40.0%
!! GAAGGGTATCATAAAGAAGG+TGG + chr1.4:72058923-72058942 MS.gene21424:CDS 40.0%
AGATCGAGAGGGAGCAAAAA+AGG + chr1.4:72059025-72059044 MS.gene21424:CDS 45.0%
CTTTCAGTTCTTCAGCAGTG+AGG - chr1.4:72059235-72059254 None:intergenic 45.0%
TAGAGACCGGCTAAGAAAGT+TGG + chr1.4:72059136-72059155 MS.gene21424:CDS 45.0%
TGCCTTTATCTCCAATGGTG+CGG + chr1.4:72058872-72058891 MS.gene21424:CDS 45.0%
!!! TTTTTTGCTCCCTCTCGATC+TGG - chr1.4:72059026-72059045 None:intergenic 45.0%
TGCCGCACCATTGGAGATAA+AGG - chr1.4:72058877-72058896 None:intergenic 50.0%
TTATCTCCAATGGTGCGGCA+AGG + chr1.4:72058877-72058896 MS.gene21424:CDS 50.0%
AGAGGTCTGGCCAGATCGAG+AGG + chr1.4:72059013-72059032 MS.gene21424:CDS 60.0%
CTCCAATGGTGCGGCAAGGA+AGG + chr1.4:72058881-72058900 MS.gene21424:CDS 60.0%
GAGGTCTGGCCAGATCGAGA+GGG + chr1.4:72059014-72059033 MS.gene21424:CDS 60.0%
TGCCTTCCTTGCCGCACCAT+TGG - chr1.4:72058886-72058905 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 72058852 72059322 72058852 ID=MS.gene21424
chr1.4 mRNA 72058852 72059322 72058852 ID=MS.gene21424.t1;Parent=MS.gene21424
chr1.4 exon 72058852 72059322 72058852 ID=MS.gene21424.t1.exon1;Parent=MS.gene21424.t1
chr1.4 CDS 72058852 72059322 72058852 ID=cds.MS.gene21424.t1;Parent=MS.gene21424.t1
Gene Sequence

>MS.gene21424

ATGAGAAAAAAGGTGAAACTTGCCTTTATCTCCAATGGTGCGGCAAGGAAGGCAACCTACAACAAACGAAAGAAGGGTATCATAAAGAAGGTGGAAGAACTCACAACTCTTTGTGGTGTTTCTGCTTGTGCTATTATTTCAAATCCTTTTAATTCTCAAGTAGAGGTCTGGCCAGATCGAGAGGGAGCAAAAAAGGTGATTGAGAGGTATCAGAATTCATCTGTTAAAGATGAAACCAAGAATTTGAACCAAGAGGGTTTAATCATGCAAAATATTGCTAAAGCTAGAGACCGGCTAAGAAAGTTGGAAAACAAGAAACCTGAGAAAAAGATAGATCTGCTTATGTATGAGTGCATGCAAAACAAAAATTTGGTGGACAACCTCACTGCTGAAGAACTGAAAGATTTGGATGAGTTTATTGAGAAGAAGCTGAAAGAGGAAGATGATAAGATTAATGCAATTGAAACATGA
Protein sequence

>MS.gene21424.t1

MRKKVKLAFISNGAARKATYNKRKKGIIKKVEELTTLCGVSACAIISNPFNSQVEVWPDREGAKKVIERYQNSSVKDETKNLNQEGLIMQNIAKARDRLRKLENKKPEKKIDLLMYECMQNKNLVDNLTAEELKDLDEFIEKKLKEEDDKINAIET