AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene65327


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65327.t1 MTR_5g024180 99.286 140 1 0 1 140 1 140 1.66e-95 271
MS.gene65327.t1 MTR_8g073345 68.421 133 39 2 1 132 1 131 1.97e-56 172
MS.gene65327.t1 MTR_8g073345 67.969 128 38 2 1 127 1 126 4.25e-53 164
MS.gene65327.t1 MTR_5g024180 94.624 93 2 1 43 132 3 95 1.09e-50 157
MS.gene65327.t1 MTR_3g115580 60.952 105 33 2 6 105 13 114 2.10e-34 117
MS.gene65327.t1 MTR_7g068280 60.000 100 39 1 32 131 47 145 2.76e-30 107
MS.gene65327.t1 MTR_7g082820 53.211 109 45 3 28 131 4 111 6.07e-28 100
MS.gene65327.t1 MTR_1g115220 48.485 99 49 1 32 130 98 194 6.08e-25 95.1
MS.gene65327.t1 MTR_0405s0060 94.118 34 2 0 82 115 74 107 2.46e-14 67.8
MS.gene65327.t1 MTR_4g094622 38.272 81 50 0 25 105 53 133 3.81e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65327.t1 AT1G20693 62.903 124 40 3 18 139 23 142 5.09e-42 136
MS.gene65327.t1 AT1G20693 64.545 110 35 2 18 127 23 128 3.74e-38 126
MS.gene65327.t1 AT1G20693 64.545 110 35 2 18 127 23 128 3.85e-38 126
MS.gene65327.t1 AT2G17560 50.769 130 61 1 6 135 8 134 1.06e-37 125
MS.gene65327.t1 AT1G20696 66.327 98 32 1 30 127 29 125 5.88e-37 123
MS.gene65327.t1 AT2G17560 52.033 123 56 1 6 128 8 127 7.88e-37 123
MS.gene65327.t1 AT2G17560 52.033 123 56 1 6 128 8 127 7.88e-37 123
MS.gene65327.t1 AT3G51880 61.468 109 37 3 24 131 40 144 1.98e-35 120
MS.gene65327.t1 AT3G51880 61.468 109 37 3 24 131 40 144 1.98e-35 120
MS.gene65327.t1 AT3G51880 61.468 109 37 3 24 131 40 144 1.98e-35 120
MS.gene65327.t1 AT3G51880 61.468 109 37 3 24 131 40 144 2.38e-35 120
MS.gene65327.t1 AT1G20696 72.368 76 21 0 30 105 29 104 6.91e-34 116
MS.gene65327.t1 AT1G20696 72.368 76 21 0 30 105 29 104 8.14e-34 115
MS.gene65327.t1 AT3G51880 60.952 105 36 3 24 127 40 140 4.71e-33 114
MS.gene65327.t1 AT4G35570 47.222 108 53 1 7 114 9 112 9.20e-30 104
MS.gene65327.t1 AT4G35570 47.222 108 53 1 7 114 9 112 9.20e-30 104
MS.gene65327.t1 AT1G20696 56.842 95 38 2 44 136 1 94 1.30e-26 95.9
MS.gene65327.t1 AT1G20696 57.143 84 35 1 44 127 1 83 8.54e-24 89.0
MS.gene65327.t1 AT5G23420 46.667 75 37 2 28 101 107 179 7.66e-14 66.2
MS.gene65327.t1 AT4G23800 49.315 73 34 1 32 104 251 320 1.06e-12 64.3
MS.gene65327.t1 AT4G23800 41.892 74 42 1 32 105 369 441 8.83e-12 61.6
MS.gene65327.t1 AT4G23800 49.315 73 34 1 32 104 251 320 1.14e-12 64.3
MS.gene65327.t1 AT4G23800 41.892 74 42 1 32 105 375 447 9.29e-12 61.6
MS.gene65327.t1 AT2G34450 35.714 70 45 0 36 105 63 132 2.79e-12 60.8
MS.gene65327.t1 AT2G34450 35.714 70 45 0 36 105 63 132 2.79e-12 60.8
MS.gene65327.t1 AT2G34450 35.714 70 45 0 36 105 63 132 2.79e-12 60.8
MS.gene65327.t1 AT2G34450 36.620 71 44 1 36 105 63 133 8.07e-12 59.3
MS.gene65327.t1 AT4G11080 42.553 94 45 2 32 125 242 326 8.07e-12 61.6

Find 35 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAATGCGTGCTTACAATA+TGG 0.281097 5.2:+15070966 MS.gene65327:CDS
GGAGGCCTCTTAGGCTTGTT+AGG 0.297257 5.2:-15070375 None:intergenic
AAAGCACTTGGAGGCCTCTT+AGG 0.299005 5.2:-15070384 None:intergenic
TTGAATTAGGTTGGGAAAGC+TGG 0.350890 5.2:+15070762 MS.gene65327:intron
AAGCGCAAGGGCGCTGGTAC+TGG 0.369054 5.2:+15070324 MS.gene65327:CDS
TTATCAGCCTTAGCATTGAA+TGG 0.428927 5.2:-15070922 None:intergenic
ACAGCAACGGACTTGTTGCT+TGG 0.433440 5.2:-15070652 None:intergenic
TTAGCATCGGAAACAGCTTT+CGG 0.437399 5.2:-15070185 None:intergenic
ATGCTAAACCTGCTGATAAC+CGG 0.456641 5.2:+15070201 MS.gene65327:CDS
ACAATGCGTGCTTACAATAT+GGG 0.459061 5.2:+15070967 MS.gene65327:CDS
ATCATCATTCACTTCAGACT+TGG 0.478350 5.2:-15071136 None:intergenic
TGCTAAGGCTGATAAGTTGA+AGG 0.485540 5.2:+15070930 MS.gene65327:CDS
GAATCTCACCGGTTATCAGC+AGG 0.496399 5.2:-15070209 None:intergenic
GTTCAGAGAGAGGTTTAAGA+AGG 0.508587 5.2:+15070624 MS.gene65327:CDS
GGAAAGCTGGTGGAAAGGAA+TGG 0.519414 5.2:+15070775 MS.gene65327:CDS
AGGTTGAAGCGCAAGGGCGC+TGG 0.524589 5.2:+15070318 MS.gene65327:intron
GTTTGTTAGGTTGAAGCGCA+AGG 0.526395 5.2:+15070311 MS.gene65327:intron
AAGAATGCTTCTGAGGAAGA+AGG 0.530721 5.2:+15071102 MS.gene65327:CDS
AATTAGGTTGGGAAAGCTGG+TGG 0.535794 5.2:+15070765 MS.gene65327:intron
GGTTGGGAAAGCTGGTGGAA+AGG 0.549667 5.2:+15070770 MS.gene65327:intron
AGGATCCTAACAAGCCTAAG+AGG 0.555088 5.2:+15070370 MS.gene65327:CDS
AAAACGAAGAAAGCACTTGG+AGG 0.557236 5.2:-15070393 None:intergenic
TTTGTTAGGTTGAAGCGCAA+GGG 0.561375 5.2:+15070312 MS.gene65327:intron
CAAGGCTCCATTCAATGCTA+AGG 0.568815 5.2:+15070915 MS.gene65327:CDS
GACTGAGAAGAATGCTTCTG+AGG 0.577758 5.2:+15071095 MS.gene65327:intron
ATGAAAACGAAGAAAGCACT+TGG 0.589018 5.2:-15070396 None:intergenic
GTGAATGATGATGATGAGGA+TGG 0.602793 5.2:+15071147 MS.gene65327:CDS
AAGCAACAAGTCCGTTGCTG+TGG 0.608709 5.2:+15070654 MS.gene65327:CDS
GTTATCAGCAGGTTTAGCAT+CGG 0.618036 5.2:-15070198 None:intergenic
TTAGGTCTGAGTTCAGAGAG+AGG 0.622758 5.2:+15070614 MS.gene65327:intron
CAGAAATCTCACCACAGCAA+CGG 0.627421 5.2:-15070665 None:intergenic
ATCGGAAACAGCTTTCGGCA+TGG 0.634546 5.2:-15070180 None:intergenic
TGAAGTGAATGATGATGATG+AGG 0.653732 5.2:+15071143 MS.gene65327:CDS
TAAGCAATCGAAGAAAGCGA+AGG 0.658279 5.2:+15070350 MS.gene65327:CDS
TAAGGCTGATAAGTTGAAGG+AGG 0.688265 5.2:+15070933 MS.gene65327:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTATTATTCTATAATTTTTT+AGG + chr5.2:15071198-15071217 MS.gene65327:intron 10.0%
!! TTCATAAAAATCAAATTCAA+CGG - chr5.2:15070708-15070727 None:intergenic 15.0%
!!! TTTCATTATTTTATGTTTTC+AGG + chr5.2:15071242-15071261 MS.gene65327:intron 15.0%
!!! TTTTTGATTTTTTGTTTGTT+AGG + chr5.2:15070298-15070317 MS.gene65327:intron 15.0%
!!! ATTTTTGTTTTGCGTTTTTT+AGG + chr5.2:15070596-15070615 MS.gene65327:intron 20.0%
!!! TTGTGATTTATGTGTATTTT+AGG + chr5.2:15070891-15070910 MS.gene65327:intron 20.0%
! AGAATCAAATCAAACTTCAA+CGG - chr5.2:15070572-15070591 None:intergenic 25.0%
!! CTAAATCTTAATTAGCGTTT+TGG + chr5.2:15070854-15070873 MS.gene65327:intron 25.0%
!! TCTAACGTGATTTTTGAATT+AGG + chr5.2:15070749-15070768 MS.gene65327:intron 25.0%
!!! CATTATTTTATGTTTTCAGG+AGG + chr5.2:15071245-15071264 MS.gene65327:intron 25.0%
!!! TTGCTGATTTGAACTAATTT+TGG + chr5.2:15071065-15071084 MS.gene65327:intron 25.0%
!!! TTTATGTGTATTTTAGGACA+AGG + chr5.2:15070897-15070916 MS.gene65327:intron 25.0%
CCAAAACTCAATAAACGAAA+AGG - chr5.2:15070522-15070541 None:intergenic 30.0%
! ACGTGATTTTTGAATTAGGT+TGG + chr5.2:15070753-15070772 MS.gene65327:intron 30.0%
! CCTTTTCGTTTATTGAGTTT+TGG + chr5.2:15070519-15070538 MS.gene65327:intron 30.0%
! CGTGATTTTTGAATTAGGTT+GGG + chr5.2:15070754-15070773 MS.gene65327:intron 30.0%
! CTTCGTTTTCATGTAAGATT+CGG + chr5.2:15070407-15070426 MS.gene65327:intron 30.0%
! TTCACTGTTCTGATTTTACT+CGG + chr5.2:15071031-15071050 MS.gene65327:intron 30.0%
!! TATTTTATGTTTTCAGGAGG+AGG + chr5.2:15071248-15071267 MS.gene65327:intron 30.0%
ACAATGCGTGCTTACAATAT+GGG + chr5.2:15070967-15070986 MS.gene65327:CDS 35.0%
ATCATCATTCACTTCAGACT+TGG - chr5.2:15071139-15071158 None:intergenic 35.0%
! GTGCTAAAACTTGTTCGAAT+CGG + chr5.2:15070429-15070448 MS.gene65327:intron 35.0%
! TGAAGTGAATGATGATGATG+AGG + chr5.2:15071143-15071162 MS.gene65327:CDS 35.0%
! TTATCAGCCTTAGCATTGAA+TGG - chr5.2:15070925-15070944 None:intergenic 35.0%
!! ATGAAAACGAAGAAAGCACT+TGG - chr5.2:15070399-15070418 None:intergenic 35.0%
AGAATCACGAATCTCGAAGT+CGG - chr5.2:15070240-15070259 None:intergenic 40.0%
ATGCTAAACCTGCTGATAAC+CGG + chr5.2:15070201-15070220 MS.gene65327:CDS 40.0%
GACAATGCGTGCTTACAATA+TGG + chr5.2:15070966-15070985 MS.gene65327:CDS 40.0%
GTTATCAGCAGGTTTAGCAT+CGG - chr5.2:15070201-15070220 None:intergenic 40.0%
GTTCAGAGAGAGGTTTAAGA+AGG + chr5.2:15070624-15070643 MS.gene65327:CDS 40.0%
TAAGCAATCGAAGAAAGCGA+AGG + chr5.2:15070350-15070369 MS.gene65327:CDS 40.0%
TCGAGATTCGTGATTCTCAT+CGG + chr5.2:15070243-15070262 MS.gene65327:intron 40.0%
! AAGAATGCTTCTGAGGAAGA+AGG + chr5.2:15071102-15071121 MS.gene65327:CDS 40.0%
! GTGAATGATGATGATGAGGA+TGG + chr5.2:15071147-15071166 MS.gene65327:CDS 40.0%
! TAAGGCTGATAAGTTGAAGG+AGG + chr5.2:15070933-15070952 MS.gene65327:CDS 40.0%
! TGCTAAGGCTGATAAGTTGA+AGG + chr5.2:15070930-15070949 MS.gene65327:CDS 40.0%
! TTAGCATCGGAAACAGCTTT+CGG - chr5.2:15070188-15070207 None:intergenic 40.0%
!! AAAACGAAGAAAGCACTTGG+AGG - chr5.2:15070396-15070415 None:intergenic 40.0%
!! TTGAATTAGGTTGGGAAAGC+TGG + chr5.2:15070762-15070781 MS.gene65327:intron 40.0%
!! TTTGTTAGGTTGAAGCGCAA+GGG + chr5.2:15070312-15070331 MS.gene65327:intron 40.0%
AGGATCCTAACAAGCCTAAG+AGG + chr5.2:15070370-15070389 MS.gene65327:CDS 45.0%
AGTCGGAAGAAGAATCTCAC+CGG - chr5.2:15070223-15070242 None:intergenic 45.0%
CAAGGCTCCATTCAATGCTA+AGG + chr5.2:15070915-15070934 MS.gene65327:CDS 45.0%
CAGAAATCTCACCACAGCAA+CGG - chr5.2:15070668-15070687 None:intergenic 45.0%
GACTGAGAAGAATGCTTCTG+AGG + chr5.2:15071095-15071114 MS.gene65327:intron 45.0%
TTAGGTCTGAGTTCAGAGAG+AGG + chr5.2:15070614-15070633 MS.gene65327:intron 45.0%
!! AATTAGGTTGGGAAAGCTGG+TGG + chr5.2:15070765-15070784 MS.gene65327:intron 45.0%
!! ATGTTTTCAGGAGGAGGATG+AGG + chr5.2:15071254-15071273 MS.gene65327:intron 45.0%
!! GTTTGTTAGGTTGAAGCGCA+AGG + chr5.2:15070311-15070330 MS.gene65327:intron 45.0%
AAGCAACAAGTCCGTTGCTG+TGG + chr5.2:15070654-15070673 MS.gene65327:CDS 50.0%
AAGCTCTGTCTGATGCTGTG+AGG + chr5.2:15070799-15070818 MS.gene65327:intron 50.0%
GGAAAGCTGGTGGAAAGGAA+TGG + chr5.2:15070775-15070794 MS.gene65327:CDS 50.0%
! AAAGCACTTGGAGGCCTCTT+AGG - chr5.2:15070387-15070406 None:intergenic 50.0%
! GAATCTCACCGGTTATCAGC+AGG - chr5.2:15070212-15070231 None:intergenic 50.0%
!! ACAGCAACGGACTTGTTGCT+TGG - chr5.2:15070655-15070674 None:intergenic 50.0%
GGTTGGGAAAGCTGGTGGAA+AGG + chr5.2:15070770-15070789 MS.gene65327:intron 55.0%
! GGAGGCCTCTTAGGCTTGTT+AGG - chr5.2:15070378-15070397 None:intergenic 55.0%
! AGGTTGAAGCGCAAGGGCGC+TGG + chr5.2:15070318-15070337 MS.gene65327:intron 65.0%
!! AAGCGCAAGGGCGCTGGTAC+TGG + chr5.2:15070324-15070343 MS.gene65327:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 15070182 15071281 15070182 ID=MS.gene65327
chr5.2 mRNA 15070182 15071281 15070182 ID=MS.gene65327.t1;Parent=MS.gene65327
chr5.2 exon 15070182 15070222 15070182 ID=MS.gene65327.t1.exon1;Parent=MS.gene65327.t1
chr5.2 CDS 15070182 15070222 15070182 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
chr5.2 exon 15070320 15070418 15070320 ID=MS.gene65327.t1.exon2;Parent=MS.gene65327.t1
chr5.2 CDS 15070320 15070418 15070320 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
chr5.2 exon 15070618 15070675 15070618 ID=MS.gene65327.t1.exon3;Parent=MS.gene65327.t1
chr5.2 CDS 15070618 15070675 15070618 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
chr5.2 exon 15070771 15070815 15070771 ID=MS.gene65327.t1.exon4;Parent=MS.gene65327.t1
chr5.2 CDS 15070771 15070815 15070771 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
chr5.2 exon 15070913 15070993 15070913 ID=MS.gene65327.t1.exon5;Parent=MS.gene65327.t1
chr5.2 CDS 15070913 15070993 15070913 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
chr5.2 exon 15071096 15071176 15071096 ID=MS.gene65327.t1.exon6;Parent=MS.gene65327.t1
chr5.2 CDS 15071096 15071176 15071096 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
chr5.2 exon 15071264 15071281 15071264 ID=MS.gene65327.t1.exon7;Parent=MS.gene65327.t1
chr5.2 CDS 15071264 15071281 15071264 ID=cds.MS.gene65327.t1;Parent=MS.gene65327.t1
Gene Sequence

>MS.gene65327

ATGCCGAAAGCTGTTTCCGATGCTAAACCTGCTGATAACCGGTGAGATTCTTCTTCCGACTTCGAGATTCGTGATTCTCATCGGTTAATTTGTTAGATCTGAATTTTTTGTCAACGTTTTTGATTTTTTGTTTGTTAGGTTGAAGCGCAAGGGCGCTGGTACTGGAACTAAGCAATCGAAGAAAGCGAAGGATCCTAACAAGCCTAAGAGGCCTCCAAGTGCTTTCTTCGTTTTCATGTAAGATTCGGTGCTAAAACTTGTTCGAATCGGTGCTAATTGTTCACGAATTTGTTGCAGTGAAGTTTCATTTAATTCTGACGAGTTTTGTTTTTTTTTTCCTTTTCGTTTATTGAGTTTTGGTGAAGTTCGAAACGTTACGAATGTGTTCCGTTGAAGTTTGATTTGATTCTAATGATTTTTGTTTTGCGTTTTTTAGGTCTGAGTTCAGAGAGAGGTTTAAGAAGGAGAATCCAAGCAACAAGTCCGTTGCTGTGGTGAGATTTCTGACACGATCTAGTTTTTACCGTTGAATTTGATTTTTATGAAATTTTGAATGTTATTGAGTTTTCTAACGTGATTTTTGAATTAGGTTGGGAAAGCTGGTGGAAAGGAATGGAAAGCTCTGTCTGATGCTGTGAGGATTTCGCTTCTGTTTAACTGAAGAAAAATAATCTAAATCTTAATTAGCGTTTTGGTTTTAAAATCGTTTTTGTGATTTATGTGTATTTTAGGACAAGGCTCCATTCAATGCTAAGGCTGATAAGTTGAAGGAGGAGTATGAGAAGACAATGCGTGCTTACAATATGGGAATTGTAATTACTTTTATAACTTTTCTGTTACTTTGATTTTTTCACTGTTCTGATTTTACTCGGATTTTTTTTTGTTGCTGATTTGAACTAATTTTGGTGTATTAGACTGAGAAGAATGCTTCTGAGGAAGAAGGATCTGAGAAGTCCAAGTCTGAAGTGAATGATGATGATGAGGATGGTGATGATGTAAGATTTTTCTCATCGTTTGTATTATTCTATAATTTTTTAGGTTTTTATATATTGAAATTTGATTTCATTATTTTATGTTTTCAGGAGGAGGATGAGGAGTAA

Protein sequence

>MS.gene65327.t1

MPKAVSDAKPADNRLKRKGAGTGTKQSKKAKDPNKPKRPPSAFFVFMSEFRERFKKENPSNKSVAVVGKAGGKEWKALSDADKAPFNAKADKLKEEYEKTMRAYNMGITEKNASEEEGSEKSKSEVNDDDEDGDDEEDEE