AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene041385

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene041385.t1 MTR_4g116300 97.674 129 3 0 1 129 2 130 6.08e-93 268
MS.gene041385.t1 MTR_4g094680 62.687 134 44 1 2 129 19 152 4.14e-58 180
MS.gene041385.t1 MTR_2g036170 57.143 126 48 1 4 129 36 155 3.84e-46 150
MS.gene041385.t1 MTR_2g055210 52.344 128 60 1 2 129 99 225 6.75e-45 149
MS.gene041385.t1 MTR_5g007230 48.413 126 64 1 5 129 21 146 5.32e-40 133
MS.gene041385.t1 MTR_4g078170 49.206 126 63 1 5 129 15 140 2.55e-39 131
MS.gene041385.t1 MTR_8g066820 48.837 129 65 1 2 129 30 158 5.13e-39 131
MS.gene041385.t1 MTR_5g030130 48.062 129 66 1 2 129 32 160 2.37e-37 125
MS.gene041385.t1 MTR_5g030130 48.062 129 66 1 2 129 32 160 4.13e-37 126
MS.gene041385.t1 MTR_7g102790 44.186 129 68 1 5 129 7 135 1.92e-33 116
MS.gene041385.t1 MTR_1g062160 42.520 127 71 2 5 129 7 133 2.83e-30 108
MS.gene041385.t1 MTR_2g084525 39.259 135 72 4 5 129 5 139 5.45e-24 92.8
MS.gene041385.t1 MTR_2g084495 38.806 134 71 4 7 129 6 139 1.64e-21 86.3
MS.gene041385.t1 MTR_8g105930 34.028 144 73 3 7 129 15 157 3.44e-21 85.5
MS.gene041385.t1 MTR_2g084510 34.815 135 78 4 5 129 4 138 7.54e-20 82.0
MS.gene041385.t1 MTR_2g060500 37.313 134 73 5 7 129 12 145 2.56e-19 78.6
MS.gene041385.t1 MTR_2g060540 36.567 134 74 5 7 129 12 145 7.53e-19 77.4
MS.gene041385.t1 MTR_8g097310 34.343 99 57 2 33 129 2 94 3.33e-13 62.8
MS.gene041385.t1 MTR_5g077740 31.868 91 59 2 4 92 22 111 1.61e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene041385.t1 AT2G12646 87.597 129 16 0 1 129 2 130 1.54e-84 248
MS.gene041385.t1 AT2G12646 87.597 129 16 0 1 129 2 130 1.54e-84 248
MS.gene041385.t1 AT2G12646 88.095 126 15 0 4 129 2 127 4.02e-83 244
MS.gene041385.t1 AT3G60670 63.200 125 46 0 5 129 7 131 6.41e-58 179
MS.gene041385.t1 AT1G31040 66.667 126 41 1 4 129 18 142 4.62e-56 175
MS.gene041385.t1 AT1G32700 50.000 126 62 1 5 129 12 137 6.16e-37 125
MS.gene041385.t1 AT4G17900 46.923 130 67 2 2 129 17 146 2.09e-36 124
MS.gene041385.t1 AT4G17900 46.923 130 67 2 2 129 31 160 2.45e-36 124
MS.gene041385.t1 AT1G21000 47.619 126 65 1 5 129 13 138 9.31e-35 120
MS.gene041385.t1 AT1G21000 47.619 126 65 1 5 129 16 141 1.02e-34 120
MS.gene041385.t1 AT1G76590 46.825 126 66 1 5 129 18 143 2.47e-34 119
MS.gene041385.t1 AT1G43000 43.651 126 70 1 5 129 16 141 9.09e-33 115
MS.gene041385.t1 AT1G43000 43.651 126 70 1 5 129 9 134 9.48e-33 114
MS.gene041385.t1 AT5G46710 41.538 130 74 2 2 129 25 154 1.63e-30 107
MS.gene041385.t1 AT5G46710 41.538 130 74 2 2 129 9 138 3.52e-30 108
MS.gene041385.t1 AT5G46710 41.538 130 74 2 2 129 25 154 6.34e-30 107
MS.gene041385.t1 AT2G01818 41.045 134 69 3 6 129 12 145 1.18e-28 104
MS.gene041385.t1 AT2G27930 41.304 138 70 3 3 129 2 139 3.35e-28 101
MS.gene041385.t1 AT2G27930 41.304 138 70 3 3 129 2 139 3.35e-28 101
MS.gene041385.t1 AT2G27930 41.304 138 70 3 3 129 2 139 5.51e-28 102
MS.gene041385.t1 AT2G27930 41.304 138 70 3 3 129 2 139 5.51e-28 102
MS.gene041385.t1 AT1G32700 51.042 96 46 1 35 129 3 98 1.20e-26 98.2
MS.gene041385.t1 AT2G27930 44.048 84 38 1 55 129 59 142 4.04e-17 73.9
MS.gene041385.t1 AT2G27930 44.048 84 38 1 55 129 59 142 4.04e-17 73.9
MS.gene041385.t1 AT2G01818 38.158 76 41 2 60 129 6 81 2.75e-12 60.5

Find 25 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAGAGAGCAATGGATAAA+AGG 0.296836 8.1:-10831504 None:intergenic
CTTCCAACCATGCAGGCTTT+TGG 0.312977 8.1:-10830978 None:intergenic
TATACAGAAAAGTTCTTTGT+TGG 0.345795 8.1:+10831006 MS.gene041385:CDS
AGCAATGGATAAAAGGTTCT+TGG 0.405041 8.1:-10831497 None:intergenic
TTATCATGATGTTCTTAGAT+TGG 0.410755 8.1:+10831158 MS.gene041385:CDS
TTCCTGATCCTTTGAATTGG+CGG 0.427487 8.1:-10831446 None:intergenic
AGTTTCCTGATCCTTTGAAT+TGG 0.442272 8.1:-10831449 None:intergenic
CTTCTTGATGAACACCACTT+TGG 0.453482 8.1:-10831412 None:intergenic
TTTGGCACTATTGATAGTAT+AGG 0.459040 8.1:-10831394 None:intergenic
AACCGCCAATTCAAAGGATC+AGG 0.462617 8.1:+10831444 MS.gene041385:CDS
AAACCAAAAGCCTGCATGGT+TGG 0.480103 8.1:+10830975 MS.gene041385:CDS
CCATTGCTCTCTTGGATGCA+AGG 0.504085 8.1:+10831512 MS.gene041385:CDS
CCTCAAAACCGCCAATTCAA+AGG 0.532742 8.1:+10831438 MS.gene041385:CDS
AGGCGGTGGTAGCGATGAGA+TGG 0.543611 8.1:-10831114 None:intergenic
AATGGATAAAAGGTTCTTGG+AGG 0.548499 8.1:-10831494 None:intergenic
TAAAGAGCTTCCAACCATGC+AGG 0.552228 8.1:-10830985 None:intergenic
TATAGACTGCACCAATGTCC+AGG 0.557416 8.1:+10831197 MS.gene041385:CDS
TACTATCAATAGTGCCAAAG+TGG 0.558364 8.1:+10831398 MS.gene041385:CDS
AGGGAAACCAAAAGCCTGCA+TGG 0.579853 8.1:+10830971 None:intergenic
CATAACGACGAACTTGAAGA+AGG 0.581891 8.1:-10831134 None:intergenic
CCTTGCATCCAAGAGAGCAA+TGG 0.619111 8.1:-10831512 None:intergenic
CGATGAGATGGAAAGCAATG+AGG 0.624526 8.1:-10831102 None:intergenic
GACGAACTTGAAGAAGGCGG+TGG 0.658588 8.1:-10831128 None:intergenic
ATGTATATGTACCTGGACAT+TGG 0.663071 8.1:-10831208 None:intergenic
AACGACGAACTTGAAGAAGG+CGG 0.734968 8.1:-10831131 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGAATTACATAAGATTTAAT+TGG - chr8.1:10831316-10831335 None:intergenic 15.0%
!!! TTTTAATTTCTGATTGAAAA+AGG + chr8.1:10831348-10831367 MS.gene041385:intron 15.0%
!! AAATCTTATGTAATTCAACA+TGG + chr8.1:10831319-10831338 MS.gene041385:intron 20.0%
! TATACAGAAAAGTTCTTTGT+TGG + chr8.1:10831006-10831025 MS.gene041385:CDS 25.0%
! TTATCATGATGTTCTTAGAT+TGG + chr8.1:10831158-10831177 MS.gene041385:CDS 25.0%
!! TTTGAATTATGTTGTTTACC+AGG + chr8.1:10831371-10831390 MS.gene041385:intron 25.0%
ATTGAACATGTATATGTACC+TGG - chr8.1:10831218-10831237 None:intergenic 30.0%
! TTTGGCACTATTGATAGTAT+AGG - chr8.1:10831397-10831416 None:intergenic 30.0%
!!! CATTCTTTTTTGCATTCTCA+TGG - chr8.1:10831041-10831060 None:intergenic 30.0%
AATGGATAAAAGGTTCTTGG+AGG - chr8.1:10831497-10831516 None:intergenic 35.0%
AGCAATGGATAAAAGGTTCT+TGG - chr8.1:10831500-10831519 None:intergenic 35.0%
AGTTTCCTGATCCTTTGAAT+TGG - chr8.1:10831452-10831471 None:intergenic 35.0%
ATGTATATGTACCTGGACAT+TGG - chr8.1:10831211-10831230 None:intergenic 35.0%
TACTATCAATAGTGCCAAAG+TGG + chr8.1:10831398-10831417 MS.gene041385:CDS 35.0%
CATAACGACGAACTTGAAGA+AGG - chr8.1:10831137-10831156 None:intergenic 40.0%
CCAAGAGAGCAATGGATAAA+AGG - chr8.1:10831507-10831526 None:intergenic 40.0%
CTTCTTGATGAACACCACTT+TGG - chr8.1:10831415-10831434 None:intergenic 40.0%
TTCCTGATCCTTTGAATTGG+CGG - chr8.1:10831449-10831468 None:intergenic 40.0%
! CACTATTGATAGTATAGGCC+TGG - chr8.1:10831392-10831411 None:intergenic 40.0%
! CCTTTTATCCATTGCTCTCT+TGG + chr8.1:10831504-10831523 MS.gene041385:CDS 40.0%
AAACCAAAAGCCTGCATGGT+TGG + chr8.1:10830975-10830994 MS.gene041385:CDS 45.0%
AACCGCCAATTCAAAGGATC+AGG + chr8.1:10831444-10831463 MS.gene041385:CDS 45.0%
AACGACGAACTTGAAGAAGG+CGG - chr8.1:10831134-10831153 None:intergenic 45.0%
CATTGCTCTCTTGGATGCAA+GGG + chr8.1:10831513-10831532 MS.gene041385:CDS 45.0%
CCTCAAAACCGCCAATTCAA+AGG + chr8.1:10831438-10831457 MS.gene041385:CDS 45.0%
CGATGAGATGGAAAGCAATG+AGG - chr8.1:10831105-10831124 None:intergenic 45.0%
TAAAGAGCTTCCAACCATGC+AGG - chr8.1:10830988-10831007 None:intergenic 45.0%
TATAGACTGCACCAATGTCC+AGG + chr8.1:10831197-10831216 MS.gene041385:CDS 45.0%
! CCTTTGAATTGGCGGTTTTG+AGG - chr8.1:10831441-10831460 None:intergenic 45.0%
CCATTGCTCTCTTGGATGCA+AGG + chr8.1:10831512-10831531 MS.gene041385:CDS 50.0%
! CTTCCAACCATGCAGGCTTT+TGG - chr8.1:10830981-10831000 None:intergenic 50.0%
GACGAACTTGAAGAAGGCGG+TGG - chr8.1:10831131-10831150 None:intergenic 55.0%
! AGGCGGTGGTAGCGATGAGA+TGG - chr8.1:10831117-10831136 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 10830973 10831533 10830973 ID=MS.gene041385
chr8.1 mRNA 10830973 10831533 10830973 ID=MS.gene041385.t1;Parent=MS.gene041385
chr8.1 exon 10830973 10831218 10830973 ID=MS.gene041385.t1.exon1;Parent=MS.gene041385.t1
chr8.1 CDS 10830973 10831218 10830973 ID=cds.MS.gene041385.t1;Parent=MS.gene041385.t1
chr8.1 exon 10831393 10831533 10831393 ID=MS.gene041385.t1.exon2;Parent=MS.gene041385.t1
chr8.1 CDS 10831393 10831533 10831393 ID=cds.MS.gene041385.t1;Parent=MS.gene041385.t1
Gene Sequence

>MS.gene041385

GGAAACCAAAAGCCTGCATGGTTGGAAGCTCTTTATACAGAAAAGTTCTTTGTTGGTTGTTCTTACCATGAGAATGCAAAAAAGAATGAGAAGAATGTTTGTTGCTTAGATTGTTGCACAAGTATTTGTCCTCATTGCTTTCCATCTCATCGCTACCACCGCCTTCTTCAAGTTCGTCGTTATGTTTATCATGATGTTCTTAGATTGGAAGAACTTGAGAAACTTATAGACTGCACCAATGTCCAGGTACATATACATGTTCAATAAAGTAGAATTCTTGTTCACTAGTTATATGTTGCATATTGATTCATAATTGCATACAAGAAAACTTTATTGAATTCCAATTAAATCTTATGTAATTCAACATGGATGTACTTTTAATTTCTGATTGAAAAAGGTTTGAATTATGTTGTTTACCAGGCCTATACTATCAATAGTGCCAAAGTGGTGTTCATCAAGAAGAGACCTCAAAACCGCCAATTCAAAGGATCAGGAAACTACTGCACTTCATGTGATAGAATCCTCCAAGAACCTTTTATCCATTGCTCTCTTGGATGCAAG
Protein sequence

>MS.gene041385.t1

GNQKPAWLEALYTEKFFVGCSYHENAKKNEKNVCCLDCCTSICPHCFPSHRYHRLLQVRRYVYHDVLRLEELEKLIDCTNVQAYTINSAKVVFIKKRPQNRQFKGSGNYCTSCDRILQEPFIHCSLGCK