AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36016


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36016.t1 MTR_5g024180 89.431 123 13 0 1 123 1 123 2.68e-72 213
MS.gene36016.t1 MTR_8g073345 59.677 124 47 2 1 123 1 122 3.35e-42 137
MS.gene36016.t1 MTR_8g073345 59.677 124 47 2 1 123 1 122 5.29e-42 137
MS.gene36016.t1 MTR_5g024180 88.608 79 9 0 45 123 8 86 3.10e-41 133
MS.gene36016.t1 MTR_3g115580 62.353 85 32 0 21 105 30 114 2.22e-32 112
MS.gene36016.t1 MTR_7g082820 62.025 79 28 2 28 105 4 81 7.73e-26 95.9
MS.gene36016.t1 MTR_7g068280 53.333 105 41 2 9 105 16 120 1.99e-24 92.8
MS.gene36016.t1 MTR_1g115220 46.667 90 46 1 32 121 98 185 1.77e-22 89.0
MS.gene36016.t1 MTR_0405s0060 58.462 65 21 2 51 115 49 107 7.64e-13 63.9
MS.gene36016.t1 MTR_4g094622 36.170 94 53 1 25 118 53 139 1.06e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36016.t1 AT1G20693 59.048 105 39 2 18 122 23 123 1.72e-32 112
MS.gene36016.t1 AT1G20693 59.048 105 39 2 18 122 23 123 2.27e-32 112
MS.gene36016.t1 AT1G20693 59.048 105 39 2 18 122 23 123 2.34e-32 112
MS.gene36016.t1 AT2G17560 46.825 126 60 2 8 131 10 130 4.21e-31 108
MS.gene36016.t1 AT2G17560 48.361 122 56 2 8 127 10 126 4.77e-31 108
MS.gene36016.t1 AT2G17560 48.361 122 56 2 8 127 10 126 4.77e-31 108
MS.gene36016.t1 AT1G20696 58.065 93 38 1 30 122 29 120 1.93e-29 105
MS.gene36016.t1 AT1G20696 63.158 76 28 0 30 105 29 104 1.52e-28 102
MS.gene36016.t1 AT1G20696 63.158 76 28 0 30 105 29 104 1.65e-28 102
MS.gene36016.t1 AT3G51880 50.820 122 45 4 9 122 18 132 6.14e-27 99.4
MS.gene36016.t1 AT3G51880 50.820 122 45 4 9 122 18 132 7.84e-27 99.8
MS.gene36016.t1 AT3G51880 50.820 122 45 4 9 122 18 132 1.20e-26 99.0
MS.gene36016.t1 AT3G51880 50.820 122 45 4 9 122 18 132 1.20e-26 99.0
MS.gene36016.t1 AT3G51880 50.820 122 45 4 9 122 18 132 1.20e-26 99.0
MS.gene36016.t1 AT4G35570 42.017 119 63 2 8 124 10 124 1.94e-26 96.7
MS.gene36016.t1 AT4G35570 42.017 119 63 2 8 124 10 124 1.94e-26 96.7
MS.gene36016.t1 AT1G20696 49.367 79 39 1 44 122 1 78 8.27e-17 71.2
MS.gene36016.t1 AT1G20696 49.367 79 39 1 44 122 1 78 9.18e-17 71.2
MS.gene36016.t1 AT5G23420 41.892 74 42 1 28 101 107 179 4.05e-12 62.0

Find 33 sgRNAs with CRISPR-Local

Find 88 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGCCTCTTAGGCTTGTT+AGG 0.297257 8.1:+51867039 None:intergenic
AAAGCACTTGGAGGCCTCTT+AGG 0.299005 8.1:+51867030 None:intergenic
TTGGCATTGGAAACATCTTT+TGG 0.344133 8.1:+51867132 None:intergenic
CCACCGGTTATCAGCAGGTT+TGG 0.364701 8.1:+51867113 None:intergenic
ACATCAACGGATTTGTTGCT+TGG 0.371043 8.1:+51866961 None:intergenic
CGCTTCCACCGGTTATCAGC+AGG 0.395364 8.1:+51867108 None:intergenic
AATTAGGTTGGGAAAGCTGT+TGG 0.414822 8.1:-51866890 MS.gene36016:intron
GTTCAGAGAGAGGTTTAAGA+AGG 0.439195 8.1:-51866989 MS.gene36016:CDS
TTCTCAGCCTCAGCAATGAA+TGG 0.453631 8.1:+51866734 None:intergenic
ATGCCAAACCTGCTGATAAC+CGG 0.458813 8.1:-51867116 MS.gene36016:CDS
GTTATCAGCAGGTTTGGCAT+TGG 0.481866 8.1:+51867119 None:intergenic
CGGTGGAAGCGCAAGGGCGC+TGG 0.485733 8.1:-51867096 MS.gene36016:CDS
TGCTGAGGCTGAGAAGTTGA+AGG 0.510507 8.1:-51866726 MS.gene36016:CDS
GGAAAGCTGTTGGAAAAGAA+TGG 0.511582 8.1:-51866880 MS.gene36016:CDS
CAGCGCCCTTGCGCTTCCAC+CGG 0.513330 8.1:+51867097 None:intergenic
TTAGACTGAGAAGAATGCTT+CGG 0.528913 8.1:-51866563 MS.gene36016:intron
AGGATCCTAACAAGCCTAAG+AGG 0.536126 8.1:-51867044 MS.gene36016:CDS
TGATAACCGGTGGAAGCGCA+AGG 0.542939 8.1:-51867103 MS.gene36016:CDS
AAGAATGCTTCGGAGGAAGA+AGG 0.546758 8.1:-51866553 MS.gene36016:CDS
ACTCAAATATCACAACTGTC+AGG 0.551606 8.1:+51865834 None:intergenic
CACGAAACTCACCACATCAA+CGG 0.553181 8.1:+51866948 None:intergenic
AAAATGAAGAAAGCACTTGG+AGG 0.557417 8.1:+51867021 None:intergenic
ATGAAAATGAAGAAAGCACT+TGG 0.558949 8.1:+51867018 None:intergenic
GCTGAGGCTGAGAAGTTGAA+GGG 0.598384 8.1:-51866725 MS.gene36016:CDS
TAAGCAATCGAAGAAAGCTA+AGG 0.615519 8.1:-51867064 MS.gene36016:CDS
AAGCAACAAATCCGTTGATG+TGG 0.620212 8.1:-51866959 MS.gene36016:intron
GACTGAGAAGAATGCTTCGG+AGG 0.621876 8.1:-51866560 MS.gene36016:CDS
GATAACCGGTGGAAGCGCAA+GGG 0.629368 8.1:-51867102 MS.gene36016:CDS
TCATGTTTGAGTTCAGAGAG+AGG 0.633938 8.1:-51866999 MS.gene36016:CDS
CTGAGGCTGAGAAGTTGAAG+GGG 0.640929 8.1:-51866724 MS.gene36016:CDS
CCAAACCTGCTGATAACCGG+TGG 0.643014 8.1:-51867113 MS.gene36016:CDS
TAAGTCTCCATTCATTGCTG+AGG 0.645810 8.1:-51866741 MS.gene36016:CDS
TGAGGCTGAGAAGTTGAAGG+GGG 0.725305 8.1:-51866723 MS.gene36016:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACAATAATTTTCATTATTAC+AGG - chr8.1:51866635-51866654 MS.gene36016:intron 15.0%
!! AAGTAACAGAAAAGTTATAA+AGG + chr8.1:51866312-51866331 None:intergenic 20.0%
!! AGAGTTAAATAAAAAGGAAA+AGG + chr8.1:51866945-51866964 None:intergenic 20.0%
!! CAAATGAAAAATAACAATCT+GGG - chr8.1:51866771-51866790 MS.gene36016:intron 20.0%
!! CTTTGTAGAGTTAAATAAAA+AGG + chr8.1:51866951-51866970 None:intergenic 20.0%
!!! AATTATTACTGTTTTTCAGT+AGG - chr8.1:51866552-51866571 MS.gene36016:CDS 20.0%
!!! AGTTGTATTCTTTGATTTTT+AGG - chr8.1:51866999-51867018 MS.gene36016:CDS 20.0%
!!! GTGTTATTCTATGATTTTTA+AGG - chr8.1:51866506-51866525 MS.gene36016:intron 20.0%
!!! GTTGTATTCTTTGATTTTTA+GGG - chr8.1:51867000-51867019 MS.gene36016:CDS 20.0%
!!! TAATTTTCATTATTACAGGT+TGG - chr8.1:51866639-51866658 MS.gene36016:intron 20.0%
!!! TAATTTTCTCAATGAAACAT+AGG + chr8.1:51866140-51866159 None:intergenic 20.0%
!!! TAGTTAAATTCGTATTTTTG+TGG - chr8.1:51866827-51866846 MS.gene36016:intron 20.0%
!!! TTGTATTCTTTGATTTTTAG+GGG - chr8.1:51867001-51867020 MS.gene36016:CDS 20.0%
!!! TTGTGATTTTTGTGTATTTT+AGG - chr8.1:51866199-51866218 MS.gene36016:intron 20.0%
! AATCAAAGAATACAACTTAC+AGG + chr8.1:51866996-51867015 None:intergenic 25.0%
! ATGAAAAGTGGCAAAAATAA+TGG - chr8.1:51866881-51866900 MS.gene36016:CDS 25.0%
! CCAAATGAAAAATAACAATC+TGG - chr8.1:51866770-51866789 MS.gene36016:intron 25.0%
!! GATATAGTTTTTACAGTTGA+AGG - chr8.1:51866043-51866062 MS.gene36016:intron 25.0%
!!! CCAGATTGTTATTTTTCATT+TGG + chr8.1:51866773-51866792 None:intergenic 25.0%
!!! CGTATTTTTGTGGTTTTATT+GGG - chr8.1:51866837-51866856 MS.gene36016:intron 25.0%
!!! TCGTATTTTTGTGGTTTTAT+TGG - chr8.1:51866836-51866855 MS.gene36016:intron 25.0%
AAAGTGGCAAAAATAATGGT+TGG - chr8.1:51866885-51866904 MS.gene36016:CDS 30.0%
AACTGAATGAATGAGATAGA+TGG + chr8.1:51866731-51866750 None:intergenic 30.0%
ACAATGCGTGCAAAAAATAT+GGG - chr8.1:51866275-51866294 MS.gene36016:intron 30.0%
ATCATAATTGACTACAGACT+TGG + chr8.1:51866448-51866467 None:intergenic 30.0%
TTGAATCTGATATGATCAGA+AGG - chr8.1:51867024-51867043 MS.gene36016:CDS 30.0%
! ATTACAGGTTGGAATGTAAT+TGG - chr8.1:51866650-51866669 MS.gene36016:intron 30.0%
! TTACAGGTTGGAATGTAATT+GGG - chr8.1:51866651-51866670 MS.gene36016:intron 30.0%
! TTCACTGTTCTGATTTTACT+TGG - chr8.1:51866339-51866358 MS.gene36016:intron 30.0%
! TTTTGCTGATGAACTCATTT+TGG - chr8.1:51866374-51866393 MS.gene36016:intron 30.0%
!! ATGAAAATGAAGAAAGCACT+TGG + chr8.1:51865949-51865968 None:intergenic 30.0%
!! TATTACTGTTTTTCAGTAGG+AGG - chr8.1:51866555-51866574 MS.gene36016:CDS 30.0%
!!! GTGTTGTTTTGAATGAAAAG+TGG - chr8.1:51866869-51866888 MS.gene36016:CDS 30.0%
!!! TGGTTTTATTGGGTAGATAA+TGG - chr8.1:51866847-51866866 MS.gene36016:intron 30.0%
AAGGCGAAATTGAATTAGGT+TGG - chr8.1:51866062-51866081 MS.gene36016:intron 35.0%
AATAGGTCACAAAACAGCTT+TGG + chr8.1:51866690-51866709 None:intergenic 35.0%
ACTCAAATATCACAACTGTC+AGG + chr8.1:51867133-51867152 None:intergenic 35.0%
AGGCGAAATTGAATTAGGTT+GGG - chr8.1:51866063-51866082 MS.gene36016:intron 35.0%
GACAATGCGTGCAAAAAATA+TGG - chr8.1:51866274-51866293 MS.gene36016:intron 35.0%
GGATGAGGAGTAATTAAAGT+TGG - chr8.1:51866576-51866595 MS.gene36016:intron 35.0%
GTTGAAGGCGAAATTGAATT+AGG - chr8.1:51866058-51866077 MS.gene36016:intron 35.0%
TAAGCAATCGAAGAAAGCTA+AGG - chr8.1:51865900-51865919 MS.gene36016:intron 35.0%
TGAGGAGTAATTAAAGTTGG+TGG - chr8.1:51866579-51866598 MS.gene36016:intron 35.0%
TTAGACTGAGAAGAATGCTT+CGG - chr8.1:51866401-51866420 MS.gene36016:intron 35.0%
! TGTAGTCAATTATGATGACG+AGG - chr8.1:51866452-51866471 MS.gene36016:intron 35.0%
!! AAAATGAAGAAAGCACTTGG+AGG + chr8.1:51865946-51865965 None:intergenic 35.0%
!! GATCAGAAGGTATTGTAGTT+TGG - chr8.1:51867037-51867056 MS.gene36016:CDS 35.0%
!! TTGGCATTGGAAACATCTTT+TGG + chr8.1:51865835-51865854 None:intergenic 35.0%
!!! AGCTTCAAGCTTTTGTTTTG+TGG - chr8.1:51866969-51866988 MS.gene36016:CDS 35.0%
AAGCAACAAATCCGTTGATG+TGG - chr8.1:51866005-51866024 MS.gene36016:intron 40.0%
GGAAAGCTGTTGGAAAAGAA+TGG - chr8.1:51866084-51866103 MS.gene36016:intron 40.0%
GTACCTGGAGAAATGGAAAT+AGG + chr8.1:51866707-51866726 None:intergenic 40.0%
GTTCAGAGAGAGGTTTAAGA+AGG - chr8.1:51865975-51865994 MS.gene36016:intron 40.0%
TAAGTCTCCATTCATTGCTG+AGG - chr8.1:51866223-51866242 MS.gene36016:intron 40.0%
TGACCTATTTCCATTTCTCC+AGG - chr8.1:51866701-51866720 MS.gene36016:CDS 40.0%
! AATGAGATAGATGGAGTACC+TGG + chr8.1:51866722-51866741 None:intergenic 40.0%
! GTCAATTATGATGACGAGGA+TGG - chr8.1:51866456-51866475 MS.gene36016:intron 40.0%
! TCATGTTTGAGTTCAGAGAG+AGG - chr8.1:51865965-51865984 MS.gene36016:intron 40.0%
!! AATTAGGTTGGGAAAGCTGT+TGG - chr8.1:51866074-51866093 MS.gene36016:intron 40.0%
!! ACATCAACGGATTTGTTGCT+TGG + chr8.1:51866006-51866025 None:intergenic 40.0%
!! ATTAAAGTTGGTGGTGCTGA+AGG - chr8.1:51866588-51866607 MS.gene36016:intron 40.0%
!! TGTTTTTCAGTAGGAGGATG+AGG - chr8.1:51866561-51866580 MS.gene36016:CDS 40.0%
AAGAATGCTTCGGAGGAAGA+AGG - chr8.1:51866411-51866430 MS.gene36016:intron 45.0%
AGGATCCTAACAAGCCTAAG+AGG - chr8.1:51865920-51865939 MS.gene36016:intron 45.0%
ATGCCAAACCTGCTGATAAC+CGG - chr8.1:51865848-51865867 MS.gene36016:CDS 45.0%
CACGAAACTCACCACATCAA+CGG + chr8.1:51866019-51866038 None:intergenic 45.0%
GTTATCAGCAGGTTTGGCAT+TGG + chr8.1:51865848-51865867 None:intergenic 45.0%
TAGTTTGGATTGAGCGCACA+GGG - chr8.1:51867052-51867071 MS.gene36016:CDS 45.0%
TTCTCAGCCTCAGCAATGAA+TGG + chr8.1:51866233-51866252 None:intergenic 45.0%
! AGATGGAGTACCTGGAGAAA+TGG + chr8.1:51866714-51866733 None:intergenic 45.0%
! CACAGGGATGCTTTTGATGT+TGG - chr8.1:51867068-51867087 MS.gene36016:CDS 45.0%
CTGAGGCTGAGAAGTTGAAG+GGG - chr8.1:51866240-51866259 MS.gene36016:intron 50.0%
GACTGAGAAGAATGCTTCGG+AGG - chr8.1:51866404-51866423 MS.gene36016:intron 50.0%
GCTGAGGCTGAGAAGTTGAA+GGG - chr8.1:51866239-51866258 MS.gene36016:intron 50.0%
GTAGTTTGGATTGAGCGCAC+AGG - chr8.1:51867051-51867070 MS.gene36016:CDS 50.0%
TGAGGCTGAGAAGTTGAAGG+GGG - chr8.1:51866241-51866260 MS.gene36016:intron 50.0%
TGCTGAGGCTGAGAAGTTGA+AGG - chr8.1:51866238-51866257 MS.gene36016:intron 50.0%
! AAAGCACTTGGAGGCCTCTT+AGG + chr8.1:51865937-51865956 None:intergenic 50.0%
!! AAAGTTGGTGGTGCTGAAGG+AGG - chr8.1:51866591-51866610 MS.gene36016:intron 50.0%
CCAAACCTGCTGATAACCGG+TGG - chr8.1:51865851-51865870 MS.gene36016:CDS 55.0%
! CCACCGGTTATCAGCAGGTT+TGG + chr8.1:51865854-51865873 None:intergenic 55.0%
! GATAACCGGTGGAAGCGCAA+GGG - chr8.1:51865862-51865881 MS.gene36016:CDS 55.0%
! GGAGGCCTCTTAGGCTTGTT+AGG + chr8.1:51865928-51865947 None:intergenic 55.0%
! GGTGCTGAAGGAGGAAGCAT+AGG - chr8.1:51866600-51866619 MS.gene36016:intron 55.0%
! TGATAACCGGTGGAAGCGCA+AGG - chr8.1:51865861-51865880 MS.gene36016:CDS 55.0%
! CGCTTCCACCGGTTATCAGC+AGG + chr8.1:51865859-51865878 None:intergenic 60.0%
CAGCGCCCTTGCGCTTCCAC+CGG + chr8.1:51865870-51865889 None:intergenic 70.0%
! CGGTGGAAGCGCAAGGGCGC+TGG - chr8.1:51865868-51865887 MS.gene36016:CDS 75.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 51865829 51867157 51865829 ID=MS.gene36016
chr8.1 mRNA 51865829 51867157 51865829 ID=MS.gene36016.t1;Parent=MS.gene36016
chr8.1 exon 51866960 51867157 51866960 ID=MS.gene36016.t1.exon1;Parent=MS.gene36016.t1
chr8.1 CDS 51866960 51867157 51866960 ID=cds.MS.gene36016.t1;Parent=MS.gene36016.t1
chr8.1 exon 51866862 51866906 51866862 ID=MS.gene36016.t1.exon2;Parent=MS.gene36016.t1
chr8.1 CDS 51866862 51866906 51866862 ID=cds.MS.gene36016.t1;Parent=MS.gene36016.t1
chr8.1 exon 51866685 51866765 51866685 ID=MS.gene36016.t1.exon3;Parent=MS.gene36016.t1
chr8.1 CDS 51866685 51866765 51866685 ID=cds.MS.gene36016.t1;Parent=MS.gene36016.t1
chr8.1 exon 51866538 51866581 51866538 ID=MS.gene36016.t1.exon4;Parent=MS.gene36016.t1
chr8.1 CDS 51866538 51866581 51866538 ID=cds.MS.gene36016.t1;Parent=MS.gene36016.t1
chr8.1 exon 51865829 51865913 51865829 ID=MS.gene36016.t1.exon5;Parent=MS.gene36016.t1
chr8.1 CDS 51865829 51865913 51865829 ID=cds.MS.gene36016.t1;Parent=MS.gene36016.t1
Gene Sequence

>MS.gene36016

ATGCCAAAAGATGTTTCCAATGCCAAACCTGCTGATAACCGGTGGAAGCGCAAGGGCGCTGGTACTGAAACTAAGCAATCGAAGAAAGCTAAGGATCCTAACAAGCCTAAGAGGCCTCCAAGTGCTTTCTTCATTTTCATGTTTGAGTTCAGAGAGAGGTTTAAGAAGGAGAATCCAAGCAACAAATCCGTTGATGTGGTGAGTTTCGTGAAACGATATAGTTTTTACAGTTGAAGGCGAAATTGAATTAGGTTGGGAAAGCTGTTGGAAAAGAATGGAAAGCTCTCTCTGATGCTGTGAGAATTTCACCTATGTTTCATTGAGAAAATTAATATAAATCTTAATTTGTATTTTGATTTTAAATTCGTTTTTGTGATTTTTGTGTATTTTAGGATAAGTCTCCATTCATTGCTGAGGCTGAGAAGTTGAAGGGGGAGTATGAGAAGACAATGCGTGCAAAAAATATGGGAATTGTAATTACCTTTATAACTTTTCTGTTACTTTGATTTGTTCACTGTTCTGATTTTACTTGGATTTATATTTTTTTTTGCTGATGAACTCATTTTGGTCTATTAGACTGAGAAGAATGCTTCGGAGGAAGAAGGATCTGAGAAGTCCAAGTCTGTAGTCAATTATGATGACGAGGATGGTGATGATGTAAGATTTTATCATTATTTGTGTTATTCTATGATTTTTAAGGTTTTATATATTGATTTTTGACTTAATTATTACTGTTTTTCAGTAGGAGGATGAGGAGTAATTAAAGTTGGTGGTGCTGAAGGAGGAAGCATAGGAGTTACTGCAATACAATAATTTTCATTATTACAGGTTGGAATGTAATTGGGAAACTTCTTAGATCCAAAGCTGTTTTGTGACCTATTTCCATTTCTCCAGGTACTCCATCTATCTCATTCATTCAGTTGTATGATAATTTATTAATTCCAAATGAAAAATAACAATCTGGGTTTGTTTCTATATCATTTAAATTGACATTAAATTAGTTAAATTCGTATTTTTGTGGTTTTATTGGGTAGATAATGGTGTTGTTTTGAATGAAAAGTGGCAAAAATAATGGTTGGCAAGTATGAATCTGATCTTCGATTCAGTTATATACCTTTTCCTTTTTATTTAACTCTACAAAGCTTCAAGCTTTTGTTTTGTGGTCCTGTAAGTTGTATTCTTTGATTTTTAGGGGTTGAATCTGATATGATCAGAAGGTATTGTAGTTTGGATTGAGCGCACAGGGATGCTTTTGATGTTGGACAATGTTCTGCAGTGTATTCACAGAGAGAATTTACTATCCTGACAGTTGTGATATTTGAGTTTTAG

Protein sequence

>MS.gene36016.t1

MPKDVSNAKPADNRWKRKGAGTETKQSKKAKDPNKPKRPPSAFFIFMFEFRERFKKENPSNKSVDVVGKAVGKEWKALSDADKSPFIAEAEKLKGEYEKTMRAKNMGITEKNASEEEGSEKSKDAFDVGQCSAVYSQREFTILTVVIFEF