AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073808


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073808.t1 MTR_1g067260 98.425 127 2 0 1 127 96 222 3.02e-85 253
MS.gene073808.t1 MTR_7g074170 39.823 113 58 3 55 162 286 393 4.36e-18 81.3
MS.gene073808.t1 MTR_2g097620 47.222 72 34 1 94 161 165 236 2.46e-17 78.6
MS.gene073808.t1 MTR_1g114620 49.296 71 34 1 94 162 242 312 3.41e-17 78.2
MS.gene073808.t1 MTR_6g079660 41.892 74 38 1 94 162 210 283 1.15e-15 73.9
MS.gene073808.t1 MTR_4g110100 48.000 75 34 1 94 163 335 409 1.58e-15 73.9
MS.gene073808.t1 MTR_5g041310 36.735 98 59 2 65 161 67 162 1.84e-15 72.0
MS.gene073808.t1 MTR_4g064570 48.611 72 33 1 94 161 157 228 3.99e-15 72.4
MS.gene073808.t1 MTR_5g041330 42.857 70 39 1 94 162 84 153 4.12e-15 70.9
MS.gene073808.t1 MTR_6g016350 57.143 49 21 0 114 162 311 359 8.95e-15 71.6
MS.gene073808.t1 MTR_1g114320 35.484 93 55 1 76 163 151 243 3.34e-14 69.7
MS.gene073808.t1 MTR_3g068005 44.737 76 38 1 94 165 172 247 4.31e-14 69.7
MS.gene073808.t1 MTR_1g051105 31.959 97 60 2 94 186 135 229 3.54e-13 66.2
MS.gene073808.t1 MTR_5g080350 37.500 80 46 1 84 159 159 238 3.91e-13 67.0
MS.gene073808.t1 MTR_1g014710 40.789 76 38 2 94 162 206 281 1.41e-12 65.1
MS.gene073808.t1 MTR_5g088720 34.286 70 42 1 94 159 222 291 4.66e-12 63.9
MS.gene073808.t1 MTR_5g088720 34.286 70 42 1 94 159 181 250 6.69e-12 63.2
MS.gene073808.t1 MTR_2g007340 45.588 68 33 1 99 162 182 249 6.79e-12 63.2
MS.gene073808.t1 MTR_5g088720 34.286 70 42 1 94 159 176 245 6.89e-12 63.2
MS.gene073808.t1 MTR_3g083480 40.580 69 40 1 94 162 218 285 2.40e-11 61.6
MS.gene073808.t1 MTR_3g088080 37.209 86 47 2 77 160 4 84 4.12e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073808.t1 AT5G02750 49.223 193 82 3 1 181 93 281 1.06e-57 182
MS.gene073808.t1 AT5G60820 68.750 48 15 0 114 161 372 419 8.52e-19 83.2
MS.gene073808.t1 AT3G02340 35.556 135 79 2 37 163 250 384 2.38e-18 82.0
MS.gene073808.t1 AT3G02340 35.556 135 79 2 37 163 250 384 2.38e-18 82.0
MS.gene073808.t1 AT5G08139 50.000 64 32 0 99 162 294 357 3.21e-17 78.6
MS.gene073808.t1 AT3G19950 36.957 92 53 1 76 162 173 264 5.08e-17 77.8
MS.gene073808.t1 AT3G19950 36.957 92 53 1 76 162 231 322 5.91e-17 77.8
MS.gene073808.t1 AT3G19950 36.957 92 53 1 76 162 231 322 5.91e-17 77.8
MS.gene073808.t1 AT5G15820 45.679 81 39 1 94 169 266 346 2.04e-16 76.3
MS.gene073808.t1 AT3G46620 45.946 74 36 1 94 163 191 264 1.02e-15 74.3
MS.gene073808.t1 AT1G26800 29.570 186 106 5 1 183 21 184 2.34e-15 71.2
MS.gene073808.t1 AT5G59550 47.222 72 34 2 94 161 280 351 6.20e-15 72.4
MS.gene073808.t1 AT5G59550 47.222 72 34 2 94 161 175 246 9.76e-15 71.6
MS.gene073808.t1 AT5G64920 42.500 80 42 1 94 169 233 312 1.11e-14 71.2
MS.gene073808.t1 AT3G10815 36.905 84 49 1 94 173 97 180 1.54e-14 68.9
MS.gene073808.t1 AT5G01980 45.205 73 36 1 94 162 326 398 1.61e-14 71.2
MS.gene073808.t1 AT1G60360 45.070 71 34 1 94 159 199 269 7.08e-14 68.9
MS.gene073808.t1 AT5G20910 54.000 50 23 0 113 162 229 278 8.59e-14 68.6
MS.gene073808.t1 AT2G39720 39.474 76 40 1 94 163 175 250 5.02e-13 66.6
MS.gene073808.t1 AT2G39720 39.474 76 40 1 94 163 175 250 5.02e-13 66.6
MS.gene073808.t1 AT4G26400 42.029 69 39 1 94 162 222 289 8.02e-13 65.9
MS.gene073808.t1 AT4G26400 42.029 69 39 1 94 162 222 289 8.02e-13 65.9
MS.gene073808.t1 AT3G60080 40.000 65 39 0 114 178 169 233 5.17e-12 63.5
MS.gene073808.t1 AT3G13430 36.232 69 44 0 94 162 205 273 5.41e-12 63.5
MS.gene073808.t1 AT3G13430 36.232 69 44 0 94 162 205 273 5.41e-12 63.5
MS.gene073808.t1 AT3G13430 36.232 69 44 0 94 162 205 273 5.41e-12 63.5
MS.gene073808.t1 AT3G13430 36.232 69 44 0 94 162 205 273 5.41e-12 63.5
MS.gene073808.t1 AT2G40830 34.722 72 42 1 94 160 165 236 5.62e-12 63.5
MS.gene073808.t1 AT2G40830 34.722 72 42 1 94 160 165 236 5.62e-12 63.5
MS.gene073808.t1 AT2G40830 34.722 72 42 1 94 160 165 236 5.62e-12 63.5
MS.gene073808.t1 AT2G40830 34.722 72 42 1 94 160 165 236 5.62e-12 63.5
MS.gene073808.t1 AT2G44330 52.174 46 22 0 114 159 96 141 1.94e-11 60.5
MS.gene073808.t1 AT5G56340 40.299 67 39 1 94 160 240 305 1.99e-11 62.0
MS.gene073808.t1 AT3G56580 32.394 71 43 1 94 159 161 231 8.14e-11 60.1
MS.gene073808.t1 AT3G56580 32.394 71 43 1 94 159 161 231 8.14e-11 60.1
MS.gene073808.t1 AT3G56580 32.394 71 43 1 94 159 161 231 8.14e-11 60.1
MS.gene073808.t1 AT1G18770 47.170 53 28 0 107 159 52 104 9.12e-11 57.0

Find 51 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGAGATTGGTGGGTGTTT+TGG 0.137532 1.3:-47108812 MS.gene073808:CDS
AACGGTGCGGTTAATGCTTC+TGG 0.240119 1.3:+47108967 None:intergenic
CCACCGCTTGGTGCATGTTT+TGG 0.252463 1.3:-47108874 MS.gene073808:CDS
CCAACGGTTGTGGGAAGTTT+TGG 0.260265 1.3:-47108533 MS.gene073808:CDS
CATGTCAGCATTTGTTTCAT+TGG 0.329624 1.3:-47108642 MS.gene073808:CDS
AGTGAAGGAGGTGGCGGCTT+CGG 0.342382 1.3:-47108770 MS.gene073808:CDS
GGAACACGTGTCCTTGTTGC+AGG 0.342454 1.3:-47108591 MS.gene073808:CDS
CGTGTCCTTGTTGCAGGTTT+CGG 0.355293 1.3:-47108585 MS.gene073808:CDS
GGCGACGGTGGTTTCTTTGC+CGG 0.368886 1.3:-47108746 MS.gene073808:CDS
CGGCTCACCGTCTCGATAAA+CGG 0.399480 1.3:+47108838 None:intergenic
TCTTCTCCAACACATTGTTA+AGG 0.406100 1.3:-47108915 MS.gene073808:CDS
GTAAAGAAGAGATGCAAGTA+GGG 0.417369 1.3:-47108684 MS.gene073808:CDS
GGTTTCTTTGCCGGCGGTGG+AGG 0.424492 1.3:-47108737 MS.gene073808:CDS
GGTGGTTTCTTTGCCGGCGG+TGG 0.426920 1.3:-47108740 MS.gene073808:CDS
TTGGAGAGATCCAACGGTTG+TGG 0.429327 1.3:-47108543 MS.gene073808:CDS
GCGGTGGAGGTGAGTGTTGG+TGG 0.436431 1.3:-47108724 MS.gene073808:CDS
AAATTAGTGCTAAACATAAC+AGG 0.443732 1.3:-47108507 MS.gene073808:CDS
TATTCTTCTGCACCACCGCT+TGG 0.446476 1.3:-47108886 MS.gene073808:CDS
GGTGGCGGCTTCGGCGGCGA+CGG 0.468504 1.3:-47108761 MS.gene073808:CDS
AGAGGGGAAGGAAGTGAAGG+AGG 0.486989 1.3:-47108782 MS.gene073808:CDS
TGTAAAGAAGAGATGCAAGT+AGG 0.495873 1.3:-47108685 MS.gene073808:CDS
TGGAGAGATCCAACGGTTGT+GGG 0.497245 1.3:-47108542 MS.gene073808:CDS
TTTAGCCTCCAGTGTGAAAA+CGG 0.505498 1.3:+47108949 None:intergenic
TGAAGAGGGGAAGGAAGTGA+AGG 0.505805 1.3:-47108785 MS.gene073808:CDS
CCGGCGGTGGAGGTGAGTGT+TGG 0.507563 1.3:-47108727 MS.gene073808:CDS
GAGCCGGTGTTGGAGATTGG+TGG 0.508330 1.3:-47108821 MS.gene073808:CDS
AGCCGGTGTTGGAGATTGGT+GGG 0.508824 1.3:-47108820 MS.gene073808:CDS
CAATGAAACAAATGCTGACA+TGG 0.516627 1.3:+47108643 None:intergenic
GGTGAGCCGGTGTTGGAGAT+TGG 0.519084 1.3:-47108824 MS.gene073808:CDS
GGCGGCTTCGGCGGCGACGG+TGG 0.523068 1.3:-47108758 MS.gene073808:CDS
GAAGGAAGTGAAGGAGGTGG+CGG 0.525705 1.3:-47108776 MS.gene073808:CDS
GGGGAAGGAAGTGAAGGAGG+TGG 0.525875 1.3:-47108779 MS.gene073808:CDS
GTCGGTGTCACGTTCTCTCA+TGG 0.527329 1.3:+47109035 None:intergenic
CCAACACTCACCTCCACCGC+CGG 0.535946 1.3:+47108727 None:intergenic
CGGTGGAGGTGAGTGTTGGT+GGG 0.538337 1.3:-47108723 MS.gene073808:CDS
TCGAGACGGTGAGCCGGTGT+TGG 0.538693 1.3:-47108831 MS.gene073808:CDS
CCAAAACTTCCCACAACCGT+TGG 0.540607 1.3:+47108533 None:intergenic
TTTGGGTTGTGAAGAGGGGA+AGG 0.541948 1.3:-47108794 MS.gene073808:CDS
AGAAAGCCTTAACAATGTGT+TGG 0.545710 1.3:+47108909 None:intergenic
GAAGGAGGTGGCGGCTTCGG+CGG 0.550251 1.3:-47108767 MS.gene073808:CDS
CACCCACCAATCTCCAACAC+CGG 0.558850 1.3:+47108818 None:intergenic
TTTGATTCCGTTTATCGAGA+CGG 0.586178 1.3:-47108845 MS.gene073808:CDS
CGTTTATCGAGACGGTGAGC+CGG 0.603190 1.3:-47108837 MS.gene073808:CDS
GACGGTGGTTTCTTTGCCGG+CGG 0.603871 1.3:-47108743 MS.gene073808:CDS
GAGAAGGAGTAGCACAGCGT+CGG 0.614727 1.3:+47109017 None:intergenic
GTGTTCCTCTTTCCCAACCA+TGG 0.628021 1.3:+47108607 None:intergenic
GTGTTTCACAGAACAAGAGA+AGG 0.630662 1.3:+47109001 None:intergenic
CCAAAACATGCACCAAGCGG+TGG 0.645373 1.3:+47108874 None:intergenic
GGTAACCGAAACCTGCAACA+AGG 0.660646 1.3:+47108580 None:intergenic
GATCCAAAACATGCACCAAG+CGG 0.721251 1.3:+47108871 None:intergenic
CCTCCAGTGTGAAAACGGTG+CGG 0.730782 1.3:+47108954 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAATTAGTGCTAAACATAAC+AGG - chr1.3:47109021-47109040 MS.gene073808:CDS 25.0%
! ATGTGTATTTTACCATGGTT+GGG - chr1.3:47108909-47108928 MS.gene073808:CDS 30.0%
! ATTGGATGTGTATTTTACCA+TGG - chr1.3:47108904-47108923 MS.gene073808:CDS 30.0%
AGAAAGCCTTAACAATGTGT+TGG + chr1.3:47108622-47108641 None:intergenic 35.0%
CAATGAAACAAATGCTGACA+TGG + chr1.3:47108888-47108907 None:intergenic 35.0%
CATGTCAGCATTTGTTTCAT+TGG - chr1.3:47108886-47108905 MS.gene073808:CDS 35.0%
GATCTCTCCAAAAACATCAT+CGG + chr1.3:47108976-47108995 None:intergenic 35.0%
GTAAAGAAGAGATGCAAGTA+GGG - chr1.3:47108844-47108863 MS.gene073808:CDS 35.0%
TCTTCTCCAACACATTGTTA+AGG - chr1.3:47108613-47108632 MS.gene073808:CDS 35.0%
TGTAAAGAAGAGATGCAAGT+AGG - chr1.3:47108843-47108862 MS.gene073808:CDS 35.0%
TTTGATTCCGTTTATCGAGA+CGG - chr1.3:47108683-47108702 MS.gene073808:CDS 35.0%
! GATGTGTATTTTACCATGGT+TGG - chr1.3:47108908-47108927 MS.gene073808:CDS 35.0%
!!! ATGTTTTTGGAGAGATCCAA+CGG - chr1.3:47108979-47108998 MS.gene073808:CDS 35.0%
GTGTTTCACAGAACAAGAGA+AGG + chr1.3:47108530-47108549 None:intergenic 40.0%
TCTCCAAAAACATCATCGGA+CGG + chr1.3:47108972-47108991 None:intergenic 40.0%
TTTAGCCTCCAGTGTGAAAA+CGG + chr1.3:47108582-47108601 None:intergenic 40.0%
! TTACCGTCCGATGATGTTTT+TGG - chr1.3:47108966-47108985 MS.gene073808:CDS 40.0%
! TTTTACCATGGTTGGGAAAG+AGG - chr1.3:47108916-47108935 MS.gene073808:CDS 40.0%
GATCCAAAACATGCACCAAG+CGG + chr1.3:47108660-47108679 None:intergenic 45.0%
!! TGGAGATTGGTGGGTGTTTT+GGG - chr1.3:47108717-47108736 MS.gene073808:CDS 45.0%
!! TTGGAGATTGGTGGGTGTTT+TGG - chr1.3:47108716-47108735 MS.gene073808:CDS 45.0%
!!! GCTTGGTGCATGTTTTGGAT+CGG - chr1.3:47108659-47108678 MS.gene073808:CDS 45.0%
!!! GGTGTTTTGGGTTGTGAAGA+GGG - chr1.3:47108729-47108748 MS.gene073808:CDS 45.0%
!!! GTGTTTTGGGTTGTGAAGAG+GGG - chr1.3:47108730-47108749 MS.gene073808:CDS 45.0%
AACGGTGCGGTTAATGCTTC+TGG + chr1.3:47108564-47108583 None:intergenic 50.0%
CCAAAACTTCCCACAACCGT+TGG + chr1.3:47108998-47109017 None:intergenic 50.0%
CGTGTCCTTGTTGCAGGTTT+CGG - chr1.3:47108943-47108962 MS.gene073808:CDS 50.0%
GGTAACCGAAACCTGCAACA+AGG + chr1.3:47108951-47108970 None:intergenic 50.0%
GTGTTCCTCTTTCCCAACCA+TGG + chr1.3:47108924-47108943 None:intergenic 50.0%
TATTCTTCTGCACCACCGCT+TGG - chr1.3:47108642-47108661 MS.gene073808:CDS 50.0%
TGAAGAGGGGAAGGAAGTGA+AGG - chr1.3:47108743-47108762 MS.gene073808:CDS 50.0%
TGGAGAGATCCAACGGTTGT+GGG - chr1.3:47108986-47109005 MS.gene073808:CDS 50.0%
TTGGAGAGATCCAACGGTTG+TGG - chr1.3:47108985-47109004 MS.gene073808:CDS 50.0%
! CCAACGGTTGTGGGAAGTTT+TGG - chr1.3:47108995-47109014 MS.gene073808:CDS 50.0%
! TAACCGCACCGTTTTCACAC+TGG - chr1.3:47108571-47108590 MS.gene073808:CDS 50.0%
!! TTTGGGTTGTGAAGAGGGGA+AGG - chr1.3:47108734-47108753 MS.gene073808:CDS 50.0%
!!! GGGTGTTTTGGGTTGTGAAG+AGG - chr1.3:47108728-47108747 MS.gene073808:CDS 50.0%
AGAGGGGAAGGAAGTGAAGG+AGG - chr1.3:47108746-47108765 MS.gene073808:CDS 55.0%
CACCCACCAATCTCCAACAC+CGG + chr1.3:47108713-47108732 None:intergenic 55.0%
CCAAAACATGCACCAAGCGG+TGG + chr1.3:47108657-47108676 None:intergenic 55.0%
CCTCCAGTGTGAAAACGGTG+CGG + chr1.3:47108577-47108596 None:intergenic 55.0%
CGGCTCACCGTCTCGATAAA+CGG + chr1.3:47108693-47108712 None:intergenic 55.0%
CGTTTATCGAGACGGTGAGC+CGG - chr1.3:47108691-47108710 MS.gene073808:CDS 55.0%
GAAGGAAGTGAAGGAGGTGG+CGG - chr1.3:47108752-47108771 MS.gene073808:CDS 55.0%
GAGAAGGAGTAGCACAGCGT+CGG + chr1.3:47108514-47108533 None:intergenic 55.0%
GGAACACGTGTCCTTGTTGC+AGG - chr1.3:47108937-47108956 MS.gene073808:CDS 55.0%
! AGCCGGTGTTGGAGATTGGT+GGG - chr1.3:47108708-47108727 MS.gene073808:CDS 55.0%
!!! CCACCGCTTGGTGCATGTTT+TGG - chr1.3:47108654-47108673 MS.gene073808:CDS 55.0%
GACGGTGGTTTCTTTGCCGG+CGG - chr1.3:47108785-47108804 MS.gene073808:CDS 60.0%
GGCGACGGTGGTTTCTTTGC+CGG - chr1.3:47108782-47108801 MS.gene073808:CDS 60.0%
GGGGAAGGAAGTGAAGGAGG+TGG - chr1.3:47108749-47108768 MS.gene073808:CDS 60.0%
! AGTGAAGGAGGTGGCGGCTT+CGG - chr1.3:47108758-47108777 MS.gene073808:CDS 60.0%
! CCGCACCGTTTTCACACTGG+AGG - chr1.3:47108574-47108593 MS.gene073808:CDS 60.0%
! GAGCCGGTGTTGGAGATTGG+TGG - chr1.3:47108707-47108726 MS.gene073808:CDS 60.0%
! GGTGAGCCGGTGTTGGAGAT+TGG - chr1.3:47108704-47108723 MS.gene073808:CDS 60.0%
!! CGGTGGAGGTGAGTGTTGGT+GGG - chr1.3:47108805-47108824 MS.gene073808:CDS 60.0%
CCAACACTCACCTCCACCGC+CGG + chr1.3:47108804-47108823 None:intergenic 65.0%
GGTGGTTTCTTTGCCGGCGG+TGG - chr1.3:47108788-47108807 MS.gene073808:CDS 65.0%
GGTTTCTTTGCCGGCGGTGG+AGG - chr1.3:47108791-47108810 MS.gene073808:CDS 65.0%
TCGAGACGGTGAGCCGGTGT+TGG - chr1.3:47108697-47108716 MS.gene073808:CDS 65.0%
!! GCGGTGGAGGTGAGTGTTGG+TGG - chr1.3:47108804-47108823 MS.gene073808:CDS 65.0%
CCGGCGGTGGAGGTGAGTGT+TGG - chr1.3:47108801-47108820 MS.gene073808:CDS 70.0%
! GAAGGAGGTGGCGGCTTCGG+CGG - chr1.3:47108761-47108780 MS.gene073808:CDS 70.0%
!! GGTGGCGGCTTCGGCGGCGA+CGG - chr1.3:47108767-47108786 MS.gene073808:CDS 80.0%
! GGCGGCTTCGGCGGCGACGG+TGG - chr1.3:47108770-47108789 MS.gene073808:CDS 85.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 47108495 47109055 47108495 ID=MS.gene073808
chr1.3 mRNA 47108495 47109055 47108495 ID=MS.gene073808.t1;Parent=MS.gene073808
chr1.3 exon 47108495 47109055 47108495 ID=MS.gene073808.t1.exon1;Parent=MS.gene073808.t1
chr1.3 CDS 47108495 47109055 47108495 ID=cds.MS.gene073808.t1;Parent=MS.gene073808.t1
Gene Sequence

>MS.gene073808

ATGAGAGAACGTGACACCGACGCTGTGCTACTCCTTCTCTTGTTCTGTGAAACACATAAACACAATCCAGAAGCATTAACCGCACCGTTTTCACACTGGAGGCTAAACTTGAACAAAATCTTCTCCAACACATTGTTAAGGCTTTCTTATTCTTCTGCACCACCGCTTGGTGCATGTTTTGGATCGGTTTTGATTCCGTTTATCGAGACGGTGAGCCGGTGTTGGAGATTGGTGGGTGTTTTGGGTTGTGAAGAGGGGAAGGAAGTGAAGGAGGTGGCGGCTTCGGCGGCGACGGTGGTTTCTTTGCCGGCGGTGGAGGTGAGTGTTGGTGGGAGAGAGTGTGTGATATGTAAAGAAGAGATGCAAGTAGGGAGAGACGTGTGTGAATTGCCATGTCAGCATTTGTTTCATTGGATGTGTATTTTACCATGGTTGGGAAAGAGGAACACGTGTCCTTGTTGCAGGTTTCGGTTACCGTCCGATGATGTTTTTGGAGAGATCCAACGGTTGTGGGAAGTTTTGGTTAAAATTAGTGCTAAACATAACAGGATGACTGATTAA

Protein sequence

>MS.gene073808.t1

MRERDTDAVLLLLLFCETHKHNPEALTAPFSHWRLNLNKIFSNTLLRLSYSSAPPLGACFGSVLIPFIETVSRCWRLVGVLGCEEGKEVKEVAASAATVVSLPAVEVSVGGRECVICKEEMQVGRDVCELPCQHLFHWMCILPWLGKRNTCPCCRFRLPSDDVFGEIQRLWEVLVKISAKHNRMTD