AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050699


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050699.t1 MTR_7g118290 91.279 172 8 3 15 185 15 180 1.41e-109 310
MS.gene050699.t1 MTR_7g118290 79.070 172 8 4 15 185 15 159 6.11e-88 255
MS.gene050699.t1 MTR_7g118290 80.435 138 15 5 15 151 15 141 5.44e-68 204
MS.gene050699.t1 MTR_8g024180 56.962 158 52 3 25 182 27 168 5.81e-50 159
MS.gene050699.t1 MTR_4g013200 35.172 145 86 1 38 182 9 145 3.59e-25 95.5
MS.gene050699.t1 MTR_7g116795 31.410 156 89 3 29 184 24 161 4.83e-21 85.1
MS.gene050699.t1 MTR_5g032440 28.696 115 81 1 69 182 67 181 7.78e-15 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050699.t1 AT2G46820 63.265 147 45 2 36 182 35 172 1.56e-56 176
MS.gene050699.t1 AT2G46820 63.265 147 45 2 36 182 35 172 1.56e-56 176
MS.gene050699.t1 AT1G52220 47.525 101 52 1 82 182 56 155 1.78e-26 99.0
MS.gene050699.t1 AT1G52220 47.525 101 51 2 82 182 56 154 1.04e-24 94.4
MS.gene050699.t1 AT4G01150 32.919 161 87 4 25 182 20 162 4.00e-23 90.5
MS.gene050699.t1 AT4G38100 35.789 95 58 1 91 185 101 192 1.14e-14 69.3
MS.gene050699.t1 AT4G38100 35.789 95 58 1 91 185 61 152 1.84e-14 67.8
MS.gene050699.t1 AT1G52220 46.479 71 37 1 82 152 56 125 2.63e-13 64.3
MS.gene050699.t1 AT1G52220 52.000 50 24 0 133 182 77 126 1.96e-12 61.6

Find 55 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTATAGTCTTTAGAAATTC+TGG 0.176189 7.4:+408050 None:intergenic
GATAGGCTTCCTTTAATTCC+TGG 0.266011 7.4:-407729 MS.gene050699:CDS
TCTTCATTCACTCTTATTGA+TGG 0.283095 7.4:-408379 MS.gene050699:CDS
ACAGAAAGCGGTGGTCTTCC+AGG 0.290167 7.4:+408270 None:intergenic
GTTGCATTATGGGGCTCAGC+TGG 0.318460 7.4:-407864 MS.gene050699:CDS
TCAAGTACCCCAGGAATTAA+AGG 0.320013 7.4:+407720 None:intergenic
TAGCAGGTACGGTTGCATTA+TGG 0.322048 7.4:-407875 MS.gene050699:CDS
AGCAGGTACGGTTGCATTAT+GGG 0.357874 7.4:-407874 MS.gene050699:CDS
AAGAGTGAATGAAGAGAAAG+TGG 0.378344 7.4:+408387 None:intergenic
TGGTCTTCCAGGGACGAGTA+TGG 0.381671 7.4:+408281 None:intergenic
GCTTTGATACGCAAAATAAA+AGG 0.394589 7.4:-407462 MS.gene050699:CDS
TTGCATTATGGGGCTCAGCT+GGG 0.412672 7.4:-407863 MS.gene050699:CDS
ATAGGCTTCCTTTAATTCCT+GGG 0.419400 7.4:-407728 MS.gene050699:CDS
GAAAGTGGAAGATGAGGCTG+AGG 0.422883 7.4:+408402 None:intergenic
CTCGTAGGCATTGGCTACAC+TGG 0.433498 7.4:-407696 MS.gene050699:CDS
TGATGAAACAGGCTATTGAT+AGG 0.459015 7.4:-407746 MS.gene050699:intron
ACCGATCTGGCTTGAAAACT+AGG 0.468356 7.4:+407563 None:intergenic
TGGAGAAGCAGAGTGTCTGC+AGG 0.469794 7.4:+408348 None:intergenic
TGCTCTAGCTGTAGCAGGTA+CGG 0.487789 7.4:-407886 MS.gene050699:CDS
TGCATTATGGGGCTCAGCTG+GGG 0.492851 7.4:-407862 MS.gene050699:CDS
TGGGACTGAACAGGTGGAGG+GGG 0.502807 7.4:+408301 None:intergenic
ATCTGCCTCTGTTTCTGTTG+TGG 0.505718 7.4:+408127 None:intergenic
TTCAGTCCCATACTCGTCCC+TGG 0.506421 7.4:-408288 MS.gene050699:CDS
GGACGAGTATGGGACTGAAC+AGG 0.517757 7.4:+408292 None:intergenic
TGCTCGCAATGTTATGTCCA+TGG 0.518500 7.4:-408159 MS.gene050699:CDS
AGTGGAAGATGAGGCTGAGG+AGG 0.528576 7.4:+408405 None:intergenic
GTGAGTGCTCTAGCTGTAGC+AGG 0.528606 7.4:-407891 MS.gene050699:CDS
GGCACTGTTAAAGACATCAC+TGG 0.529095 7.4:-407441 MS.gene050699:CDS
GGTCTTCCAGGGACGAGTAT+GGG 0.539747 7.4:+408282 None:intergenic
AGAATCAGTGACAGTAGTAC+TGG 0.542464 7.4:+408073 None:intergenic
AAGAGCATAGCATACCGATC+TGG 0.544761 7.4:+407550 None:intergenic
GTACTTGAACTCGTAGGCAT+TGG 0.552106 7.4:-407705 MS.gene050699:CDS
GTATGGGACTGAACAGGTGG+AGG 0.553903 7.4:+408298 None:intergenic
TGTTGTGGTACTTGAAGCCA+TGG 0.559345 7.4:+408142 None:intergenic
TAGGCTTCCTTTAATTCCTG+GGG 0.559739 7.4:-407727 MS.gene050699:CDS
TCGTAGGCATTGGCTACACT+GGG 0.562769 7.4:-407695 MS.gene050699:CDS
AGTTGAGGCAACCTCTGTTG+TGG 0.572988 7.4:+408100 None:intergenic
TATGGGACTGAACAGGTGGA+GGG 0.576384 7.4:+408299 None:intergenic
CAGAAAGCGGTGGTCTTCCA+GGG 0.585352 7.4:+408271 None:intergenic
TGTATTTGACTTACAGAAAG+CGG 0.587004 7.4:+408258 None:intergenic
CGAGTATGGGACTGAACAGG+TGG 0.598195 7.4:+408295 None:intergenic
AGTAGTACTGGTGTCAGTTG+AGG 0.598742 7.4:+408085 None:intergenic
ATGGGACTGAACAGGTGGAG+GGG 0.599012 7.4:+408300 None:intergenic
GCAGGTACGGTTGCATTATG+GGG 0.601282 7.4:-407873 MS.gene050699:CDS
TGAAGAGAAAGTGGAAGATG+AGG 0.604075 7.4:+408396 None:intergenic
GTTGGAAGGCTCACGCATTG+TGG 0.611890 7.4:+408328 None:intergenic
CCTACGAGTTCAAGTACCCC+AGG 0.617642 7.4:+407711 None:intergenic
GGAGAAGCAGAGTGTCTGCA+GGG 0.624844 7.4:+408349 None:intergenic
GCACTGTTAAAGACATCACT+GGG 0.652022 7.4:-407440 MS.gene050699:CDS
GGCAGATGCAGCCACAACAG+AGG 0.654208 7.4:-408111 MS.gene050699:CDS
CCTGGGGTACTTGAACTCGT+AGG 0.670206 7.4:-407711 MS.gene050699:CDS
AAGTACCACAACAGAAACAG+AGG 0.689454 7.4:-408132 MS.gene050699:CDS
ATTTGACTTACAGAAAGCGG+TGG 0.698122 7.4:+408261 None:intergenic
GAAGCAGAGTGTCTGCAGGG+AGG 0.716854 7.4:+408352 None:intergenic
CGTAGGCATTGGCTACACTG+GGG 0.765097 7.4:-407694 MS.gene050699:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATATATTATATGCAAAA+AGG + chr7.4:408021-408040 None:intergenic 10.0%
!! AATTAATAATATATAATTGC+AGG - chr7.4:408349-408368 MS.gene050699:CDS 10.0%
!! ATTAATAATATATAATTGCA+GGG - chr7.4:408350-408369 MS.gene050699:CDS 10.0%
!! AATAATCTGTTTCCATAATT+TGG - chr7.4:408314-408333 MS.gene050699:CDS 20.0%
!! ATATAATTGAATTTGTGTGT+TGG - chr7.4:407632-407651 MS.gene050699:intron 20.0%
!! TATATTATATGCAAAAAGGA+AGG + chr7.4:408017-408036 None:intergenic 20.0%
! AATAATATATAATTGCAGGG+AGG - chr7.4:408353-408372 MS.gene050699:CDS 25.0%
! CAATCTATTGAACCAAATTA+TGG + chr7.4:408329-408348 None:intergenic 25.0%
!! TGTATAGTCTTTAGAAATTC+TGG + chr7.4:407790-407809 None:intergenic 25.0%
ATAGTATATGTGTGTTGAGT+TGG - chr7.4:407863-407882 MS.gene050699:CDS 30.0%
GATTGGATGTAATGTATAGT+GGG - chr7.4:407900-407919 MS.gene050699:CDS 30.0%
GCTTTGATACGCAAAATAAA+AGG - chr7.4:408375-408394 MS.gene050699:CDS 30.0%
TCTTCATTCACTCTTATTGA+TGG - chr7.4:407458-407477 MS.gene050699:CDS 30.0%
! TGTATTTGACTTACAGAAAG+CGG + chr7.4:407582-407601 None:intergenic 30.0%
AAGAGTGAATGAAGAGAAAG+TGG + chr7.4:407453-407472 None:intergenic 35.0%
ATAGGCTTCCTTTAATTCCT+GGG - chr7.4:408109-408128 MS.gene050699:CDS 35.0%
ATCTGCAGAAGATACAAAGT+AGG + chr7.4:408175-408194 None:intergenic 35.0%
GGATTGGATGTAATGTATAG+TGG - chr7.4:407899-407918 MS.gene050699:CDS 35.0%
TGATGAAACAGGCTATTGAT+AGG - chr7.4:408091-408110 MS.gene050699:CDS 35.0%
!! ATATGTGTGTTGAGTTGGAT+TGG - chr7.4:407868-407887 MS.gene050699:CDS 35.0%
AAGTACCACAACAGAAACAG+AGG - chr7.4:407705-407724 MS.gene050699:CDS 40.0%
AGAATCAGTGACAGTAGTAC+TGG + chr7.4:407767-407786 None:intergenic 40.0%
GATAGGCTTCCTTTAATTCC+TGG - chr7.4:408108-408127 MS.gene050699:CDS 40.0%
GCACTGTTAAAGACATCACT+GGG - chr7.4:408397-408416 MS.gene050699:CDS 40.0%
TAGGCTTCCTTTAATTCCTG+GGG - chr7.4:408110-408129 MS.gene050699:CDS 40.0%
TCAAGTACCCCAGGAATTAA+AGG + chr7.4:408120-408139 None:intergenic 40.0%
TCGTATCTTCTTCTTTGCAG+TGG - chr7.4:408237-408256 MS.gene050699:intron 40.0%
TGAAGAGAAAGTGGAAGATG+AGG + chr7.4:407444-407463 None:intergenic 40.0%
! ATTTGACTTACAGAAAGCGG+TGG + chr7.4:407579-407598 None:intergenic 40.0%
! TGAGTTGGATTGGATTGGAT+TGG - chr7.4:407878-407897 MS.gene050699:CDS 40.0%
! TGGATTGGATTGGATTGGAT+TGG - chr7.4:407883-407902 MS.gene050699:CDS 40.0%
!! ACCTAGTTTTCAAGCCAGAT+CGG - chr7.4:408273-408292 MS.gene050699:CDS 40.0%
!! TGTGTTGAGTTGGATTGGAT+TGG - chr7.4:407873-407892 MS.gene050699:CDS 40.0%
AGCAGGTACGGTTGCATTAT+GGG - chr7.4:407963-407982 MS.gene050699:intron 45.0%
GCATCTGCATCTGATGAAAC+AGG - chr7.4:408080-408099 MS.gene050699:CDS 45.0%
GGCACTGTTAAAGACATCAC+TGG - chr7.4:408396-408415 MS.gene050699:CDS 45.0%
GTACTTGAACTCGTAGGCAT+TGG - chr7.4:408132-408151 MS.gene050699:CDS 45.0%
TAGCAGGTACGGTTGCATTA+TGG - chr7.4:407962-407981 MS.gene050699:intron 45.0%
TGCTCGCAATGTTATGTCCA+TGG - chr7.4:407678-407697 MS.gene050699:intron 45.0%
TGTTGTGGTACTTGAAGCCA+TGG + chr7.4:407698-407717 None:intergenic 45.0%
! AAGAGCATAGCATACCGATC+TGG + chr7.4:408290-408309 None:intergenic 45.0%
! ACCGATCTGGCTTGAAAACT+AGG + chr7.4:408277-408296 None:intergenic 45.0%
! GTTGGTTGATTCACTCAGGT+CGG - chr7.4:407650-407669 MS.gene050699:intron 45.0%
!! AGTAGTACTGGTGTCAGTTG+AGG + chr7.4:407755-407774 None:intergenic 45.0%
!! ATCTGCCTCTGTTTCTGTTG+TGG + chr7.4:407713-407732 None:intergenic 45.0%
!! GTGTGTTGGTTGATTCACTC+AGG - chr7.4:407646-407665 MS.gene050699:intron 45.0%
AGTTGAGGCAACCTCTGTTG+TGG + chr7.4:407740-407759 None:intergenic 50.0%
GAAAGTGGAAGATGAGGCTG+AGG + chr7.4:407438-407457 None:intergenic 50.0%
GCAGGTACGGTTGCATTATG+GGG - chr7.4:407964-407983 MS.gene050699:intron 50.0%
TATGGGACTGAACAGGTGGA+GGG + chr7.4:407541-407560 None:intergenic 50.0%
TGCTCTAGCTGTAGCAGGTA+CGG - chr7.4:407951-407970 MS.gene050699:intron 50.0%
TTGCATTATGGGGCTCAGCT+GGG - chr7.4:407974-407993 MS.gene050699:intron 50.0%
!! TCGTAGGCATTGGCTACACT+GGG - chr7.4:408142-408161 MS.gene050699:CDS 50.0%
ACAGAAAGCGGTGGTCTTCC+AGG + chr7.4:407570-407589 None:intergenic 55.0%
AGTGGAAGATGAGGCTGAGG+AGG + chr7.4:407435-407454 None:intergenic 55.0%
ATGGGACTGAACAGGTGGAG+GGG + chr7.4:407540-407559 None:intergenic 55.0%
CAGAAAGCGGTGGTCTTCCA+GGG + chr7.4:407569-407588 None:intergenic 55.0%
CCTACGAGTTCAAGTACCCC+AGG + chr7.4:408129-408148 None:intergenic 55.0%
CGAGTATGGGACTGAACAGG+TGG + chr7.4:407545-407564 None:intergenic 55.0%
GGACGAGTATGGGACTGAAC+AGG + chr7.4:407548-407567 None:intergenic 55.0%
GGTCTTCCAGGGACGAGTAT+GGG + chr7.4:407558-407577 None:intergenic 55.0%
GTATGGGACTGAACAGGTGG+AGG + chr7.4:407542-407561 None:intergenic 55.0%
GTGAGTGCTCTAGCTGTAGC+AGG - chr7.4:407946-407965 MS.gene050699:intron 55.0%
GTTGCATTATGGGGCTCAGC+TGG - chr7.4:407973-407992 MS.gene050699:intron 55.0%
GTTGGAAGGCTCACGCATTG+TGG + chr7.4:407512-407531 None:intergenic 55.0%
TGCATTATGGGGCTCAGCTG+GGG - chr7.4:407975-407994 MS.gene050699:intron 55.0%
TGGTCTTCCAGGGACGAGTA+TGG + chr7.4:407559-407578 None:intergenic 55.0%
TTCAGTCCCATACTCGTCCC+TGG - chr7.4:407549-407568 MS.gene050699:intron 55.0%
! CCTGGGGTACTTGAACTCGT+AGG - chr7.4:408126-408145 MS.gene050699:CDS 55.0%
! GGAGAAGCAGAGTGTCTGCA+GGG + chr7.4:407491-407510 None:intergenic 55.0%
! TGGAGAAGCAGAGTGTCTGC+AGG + chr7.4:407492-407511 None:intergenic 55.0%
!! CGTAGGCATTGGCTACACTG+GGG - chr7.4:408143-408162 MS.gene050699:CDS 55.0%
!! CTCGTAGGCATTGGCTACAC+TGG - chr7.4:408141-408160 MS.gene050699:CDS 55.0%
ACAGGTGGAGGGGGAAGAGT+TGG + chr7.4:407530-407549 None:intergenic 60.0%
GGCAGATGCAGCCACAACAG+AGG - chr7.4:407726-407745 MS.gene050699:CDS 60.0%
GTGGAGGGGGAAGAGTTGGA+AGG + chr7.4:407526-407545 None:intergenic 60.0%
TGGGACTGAACAGGTGGAGG+GGG + chr7.4:407539-407558 None:intergenic 60.0%
! GAAGCAGAGTGTCTGCAGGG+AGG + chr7.4:407488-407507 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 407428 408431 407428 ID=MS.gene050699
chr7.4 mRNA 407428 408431 407428 ID=MS.gene050699.t1;Parent=MS.gene050699
chr7.4 exon 408272 408431 408272 ID=MS.gene050699.t1.exon1;Parent=MS.gene050699.t1
chr7.4 CDS 408272 408431 408272 ID=cds.MS.gene050699.t1;Parent=MS.gene050699.t1
chr7.4 exon 408043 408191 408043 ID=MS.gene050699.t1.exon2;Parent=MS.gene050699.t1
chr7.4 CDS 408043 408191 408043 ID=cds.MS.gene050699.t1;Parent=MS.gene050699.t1
chr7.4 exon 407854 407940 407854 ID=MS.gene050699.t1.exon3;Parent=MS.gene050699.t1
chr7.4 CDS 407854 407940 407854 ID=cds.MS.gene050699.t1;Parent=MS.gene050699.t1
chr7.4 exon 407695 407757 407695 ID=MS.gene050699.t1.exon4;Parent=MS.gene050699.t1
chr7.4 CDS 407695 407757 407695 ID=cds.MS.gene050699.t1;Parent=MS.gene050699.t1
chr7.4 exon 407565 407602 407565 ID=MS.gene050699.t1.exon5;Parent=MS.gene050699.t1
chr7.4 CDS 407565 407602 407565 ID=cds.MS.gene050699.t1;Parent=MS.gene050699.t1
chr7.4 exon 407428 407488 407428 ID=MS.gene050699.t1.exon6;Parent=MS.gene050699.t1
chr7.4 CDS 407428 407488 407428 ID=cds.MS.gene050699.t1;Parent=MS.gene050699.t1
Gene Sequence

>MS.gene050699

ATGGCCTCCTCAGCCTCATCTTCCACTTTCTCTTCATTCACTCTTATTGATGGAAAGCCTCCCTGCAGACACTCTGCTTCTCCACAATGCGTGAGCCTTCCAACTCTTCCCCCTCCACCTGTTCAGTCCCATACTCGTCCCTGGAAGACCACCGCTTTCTGTAAGTCAAATACAAAATCAAAGCTTGTTTATAATATAATATATATATAATTGAATTTGTGTGTTGGTTGATTCACTCAGGTCGGAAGATTGCTCGCAATGTTATGTCCATGGCTTCAAGTACCACAACAGAAACAGAGGCAGATGCAGCCACAACAGAGGTTGCCTCAACTGACACCAGTACTACTGTCACTGATTCTCCAGAATTTCTAAAGACTATACAACAAACTGTAAGAACAAACTTTAAATTTGTACGTTTTTGTAAAGTGATTATATATAGTATATGTGTGTTGAGTTGGATTGGATTGGATTGGATTGGATGTAATGTATAGTGGGATAAAGTTGAAGACAAGTATGCAGTGAGTGCTCTAGCTGTAGCAGGTACGGTTGCATTATGGGGCTCAGCTGGGGTGATCTCAGTAAGTCTCCTTCCTTTTTGCATATAATATATATTATTAATTATGACTCACTCACTCACTCACTCACTGCATCTGCATCTGCATCTGATGAAACAGGCTATTGATAGGCTTCCTTTAATTCCTGGGGTACTTGAACTCGTAGGCATTGGCTACACTGGGGTAAGAACCTACTTTGTATCTTCTGCAGATTAATTAATTAATTAGACAAGAGATAAACTAACATGTATCGTATCGTATCTTCTTCTTTGCAGTGGTTTGCATACAAGAACCTAGTTTTCAAGCCAGATCGGTATGCTATGCTCTTCTTCAATAATCTGTTTCCATAATTTGGTTCAATAGATTGAATTAATAATATATAATTGCAGGGAGGCTTTGATACGCAAAATAAAAGGCACTGTTAAAGACATCACTGGGATCGACAGCTAA

Protein sequence

>MS.gene050699.t1

MASSASSSTFSSFTLIDGKPPCRHSASPQCVSLPTLPPPPVQSHTRPWKTTAFCRKIARNVMSMASSTTTETEADAATTEVASTDTSTTVTDSPEFLKTIQQTWDKVEDKYAVSALAVAGTVALWGSAGVISAIDRLPLIPGVLELVGIGYTGWFAYKNLVFKPDREALIRKIKGTVKDITGIDS