AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene59140

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59140.t1 MTR_1g030820 93.464 153 10 0 1 153 1 153 1.41e-101 288
MS.gene59140.t1 MTR_1g030810 85.621 153 22 0 1 153 1 153 1.33e-95 273
MS.gene59140.t1 MTR_1g030840 60.000 155 57 2 1 150 1 155 8.20e-63 190
MS.gene59140.t1 MTR_8g045490 40.523 153 88 2 1 152 1 151 3.95e-38 127
MS.gene59140.t1 MTR_8g045400 40.523 153 87 3 1 152 1 150 3.95e-38 127
MS.gene59140.t1 MTR_8g045570 39.869 153 89 2 1 152 1 151 4.23e-38 127
MS.gene59140.t1 MTR_8g045695 39.216 153 89 3 1 152 1 150 2.16e-37 125
MS.gene59140.t1 MTR_8g045560 39.216 153 89 3 1 152 1 150 3.06e-37 125
MS.gene59140.t1 MTR_8g045555 36.601 153 94 2 1 152 1 151 9.83e-37 124
MS.gene59140.t1 MTR_8g045735 38.562 153 90 3 1 152 1 150 1.32e-36 124
MS.gene59140.t1 MTR_8g045520 38.312 154 92 2 1 153 1 152 1.43e-36 123
MS.gene59140.t1 MTR_8g045640 37.908 153 91 3 1 152 1 150 2.64e-35 120
MS.gene59140.t1 MTR_8g045665 37.255 153 92 3 1 152 1 150 3.29e-35 120
MS.gene59140.t1 MTR_8g045300 38.961 154 91 2 1 153 1 152 4.35e-34 117
MS.gene59140.t1 MTR_8g012550 35.897 156 94 4 1 153 1 153 4.06e-28 102
MS.gene59140.t1 MTR_1g031640 37.013 154 87 5 1 152 1 146 8.28e-27 98.6
MS.gene59140.t1 MTR_5g035010 29.412 153 101 5 1 150 3 151 2.02e-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.gene59140.t1 AT1G70890 37.662 154 92 3 2 153 6 157 1.78e-32 113
MS.gene59140.t1 AT1G70830 38.312 154 91 3 2 153 21 172 1.87e-31 111
MS.gene59140.t1 AT5G28010 38.312 154 91 3 2 153 14 165 2.63e-31 110
MS.gene59140.t1 AT5G28010 38.312 154 91 3 2 153 14 165 2.63e-31 110
MS.gene59140.t1 AT1G70830 38.312 154 91 3 2 153 21 172 3.61e-31 111
MS.gene59140.t1 AT1G70840 35.065 154 96 3 2 153 19 170 4.13e-31 110
MS.gene59140.t1 AT1G70830 38.312 154 91 3 2 153 21 172 2.03e-30 110
MS.gene59140.t1 AT1G70830 38.312 154 91 3 2 153 21 172 7.12e-30 111
MS.gene59140.t1 AT1G70830 37.662 154 92 3 2 153 183 334 1.73e-28 107
MS.gene59140.t1 AT1G70830 37.662 154 92 3 2 153 136 287 5.80e-29 107
MS.gene59140.t1 AT1G70830 38.542 96 56 2 59 153 32 125 1.98e-15 71.6
MS.gene59140.t1 AT1G70850 35.526 152 94 3 2 151 8 157 5.29e-28 103
MS.gene59140.t1 AT1G70850 35.526 152 94 3 2 151 8 157 2.69e-27 103
MS.gene59140.t1 AT1G70850 35.664 143 88 3 13 153 175 315 1.56e-25 99.4
MS.gene59140.t1 AT1G70850 35.526 152 94 3 2 151 8 157 2.69e-27 103
MS.gene59140.t1 AT1G70850 35.664 143 88 3 13 153 175 315 1.56e-25 99.4
MS.gene59140.t1 AT5G28000 33.766 154 98 3 2 153 12 163 5.41e-26 97.1
MS.gene59140.t1 AT1G70880 32.468 154 100 3 2 153 7 158 3.50e-25 94.7
MS.gene59140.t1 AT1G23130 27.451 153 108 2 2 153 9 159 6.86e-25 94.0
MS.gene59140.t1 AT1G14930 36.601 153 93 3 1 152 1 150 1.08e-24 93.2
MS.gene59140.t1 AT1G70870 36.842 152 82 4 1 152 1 138 4.56e-24 91.3
MS.gene59140.t1 AT1G35260 30.612 147 97 3 7 151 6 149 6.09e-23 89.0
MS.gene59140.t1 AT1G23120 32.026 153 98 3 1 153 1 147 1.37e-22 87.8
MS.gene59140.t1 AT1G23120 32.026 153 98 3 1 153 51 197 4.15e-22 87.8
MS.gene59140.t1 AT1G14950 31.373 153 101 3 1 152 1 150 4.10e-20 81.6
MS.gene59140.t1 AT4G14060 31.373 153 101 3 1 152 1 150 8.88e-20 80.5
MS.gene59140.t1 AT1G24020 36.420 162 84 6 1 153 1 152 4.52e-19 79.0
MS.gene59140.t1 AT1G24020 36.420 162 84 6 1 153 1 152 4.52e-19 79.0
MS.gene59140.t1 AT2G01520 30.719 153 102 3 1 152 1 150 7.65e-19 78.2
MS.gene59140.t1 AT1G14940 30.921 152 101 3 1 151 1 149 2.78e-18 77.0
MS.gene59140.t1 AT1G35310 29.577 142 96 3 13 153 12 150 2.52e-17 74.3
MS.gene59140.t1 AT1G30990 28.947 152 103 3 1 151 1 148 2.58e-17 74.3
MS.gene59140.t1 AT2G01530 30.719 153 102 3 1 152 1 150 1.26e-16 72.4
MS.gene59140.t1 AT1G14960 29.412 153 104 3 1 152 1 150 1.38e-16 72.4
MS.gene59140.t1 AT3G26460 28.758 153 106 2 1 152 1 151 2.56e-14 66.6
MS.gene59140.t1 AT3G26450 29.221 154 104 4 1 152 1 151 4.30e-14 65.9
MS.gene59140.t1 AT4G23670 30.065 153 103 3 1 152 1 150 4.99e-14 65.5
MS.gene59140.t1 AT4G23680 28.105 153 106 3 1 152 1 150 1.46e-12 61.6

Find 31 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGAGTTACAAGAGTTTAA+AGG 0.313337 1.4:+15616523 MS.gene59140:CDS
TGTACTTCTGTGGAGATATT+AGG 0.320812 1.4:-15615880 None:intergenic
ATGGTGGTGGGATTGTTAAA+TGG 0.324878 1.4:+15616573 MS.gene59140:CDS
GAAGGTGACTGGGAAAATAT+TGG 0.418929 1.4:+15615919 MS.gene59140:CDS
AAGCTAAAGGAGGAAATTAC+AGG 0.424947 1.4:+15616611 MS.gene59140:CDS
GCAAGGTCCAAGTATGAATC+AGG 0.441032 1.4:-15616641 None:intergenic
TGGTGGTGGGATTGTTAAAT+GGG 0.470252 1.4:+15616574 MS.gene59140:CDS
ATACTTGGACCTTGCTGTGA+AGG 0.503938 1.4:+15616649 MS.gene59140:CDS
TGTATCTCCTGATTCATACT+TGG 0.511390 1.4:+15616634 MS.gene59140:CDS
CATGGCTTTAAGTGGGAAAG+TGG 0.512659 1.4:+15615786 None:intergenic
GTAGAGTGCATGAAGGTGAC+TGG 0.523294 1.4:+15615908 MS.gene59140:CDS
AGAAGAGACATGGCTTTAAG+TGG 0.526395 1.4:+15615778 None:intergenic
ATTCATAAAGAACATGGTGG+TGG 0.537340 1.4:+15616560 MS.gene59140:CDS
ATATTGGTTCTATCAAGCAC+TGG 0.538736 1.4:+15615935 MS.gene59140:CDS
AATATCTCCACAGAAGTACA+TGG 0.555564 1.4:+15615883 MS.gene59140:CDS
TTCATAAAGAACATGGTGGT+GGG 0.570285 1.4:+15616561 MS.gene59140:CDS
TATTGATTCTCATCTTCTCA+AGG 0.575373 1.4:+15616682 MS.gene59140:CDS
TATTGGTTCTATCAAGCACT+GGG 0.594586 1.4:+15615936 MS.gene59140:CDS
TAGAGTGCATGAAGGTGACT+GGG 0.605256 1.4:+15615909 MS.gene59140:CDS
CAAGTGATTCATAAAGAACA+TGG 0.605539 1.4:+15616554 MS.gene59140:CDS
GGCTTTAAGTGGGAAAGTGG+AGG 0.606303 1.4:+15615789 MS.gene59140:CDS
ATACGAATATGAGAAGCTAA+AGG 0.610623 1.4:+15616598 MS.gene59140:CDS
TCTACCTCCATGTACTTCTG+TGG 0.617182 1.4:-15615890 None:intergenic
AAGCACTGGGAATTTACAGT+AGG 0.622307 1.4:+15615949 MS.gene59140:CDS
GAAGAGACATGGCTTTAAGT+GGG 0.623024 1.4:+15615779 None:intergenic
CGAATATGAGAAGCTAAAGG+AGG 0.640547 1.4:+15616601 MS.gene59140:CDS
CATGGAGGTAGAGTGCATGA+AGG 0.659264 1.4:+15615901 MS.gene59140:CDS
GAAGTAGAGATTCAAGCACC+TGG 0.664321 1.4:+15615814 MS.gene59140:CDS
ATATTATAGAACTTAGCACC+AGG 0.680852 1.4:-15615832 None:intergenic
GTGATTCATAAAGAACATGG+TGG 0.735641 1.4:+15616557 MS.gene59140:CDS
ATCTCCACAGAAGTACATGG+AGG 0.756442 1.4:+15615886 MS.gene59140:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAAATAAATAAATAGAAAT+TGG - chr1.4:15616365-15616384 None:intergenic 10.0%
!!! TTTTTTAATTTTTTTTACGT+TGG + chr1.4:15616336-15616355 MS.gene59140:intron 10.0%
!! AATTAGAGTTCAATGATATT+AGG - chr1.4:15616388-15616407 None:intergenic 20.0%
!! AGTGTTTATAAATGACAATT+TGG - chr1.4:15616194-15616213 None:intergenic 20.0%
!! ATTAGAGTTCAATGATATTA+GGG - chr1.4:15616387-15616406 None:intergenic 20.0%
!! TAGTAAAACTATGAAACATA+AGG - chr1.4:15615985-15616004 None:intergenic 20.0%
!!! CATTTTCTTATAAAGAAACA+AGG + chr1.4:15616288-15616307 MS.gene59140:intron 20.0%
! GAATTTACAGTAGGTAATTA+AGG + chr1.4:15615958-15615977 MS.gene59140:intron 25.0%
!! ACTATTTTATTGCTCATGAA+AGG + chr1.4:15616001-15616020 MS.gene59140:intron 25.0%
!! ATCACATATAGCATTTTTGA+TGG + chr1.4:15616491-15616510 MS.gene59140:CDS 25.0%
ATACGAATATGAGAAGCTAA+AGG + chr1.4:15616598-15616617 MS.gene59140:CDS 30.0%
ATATTATAGAACTTAGCACC+AGG - chr1.4:15615835-15615854 None:intergenic 30.0%
ATGACAATTTGGACAATACA+AGG - chr1.4:15616183-15616202 None:intergenic 30.0%
CAAGTGATTCATAAAGAACA+TGG + chr1.4:15616554-15616573 MS.gene59140:CDS 30.0%
TGAGAGTTACAAGAGTTTAA+AGG + chr1.4:15616523-15616542 MS.gene59140:CDS 30.0%
! TAACTTCAACAAAAGAGTGT+TGG - chr1.4:15616108-15616127 None:intergenic 30.0%
!! TATTGATTCTCATCTTCTCA+AGG + chr1.4:15616682-15616701 MS.gene59140:CDS 30.0%
!! TTTGTTTTCTTCCTTCTGTA+GGG - chr1.4:15616427-15616446 None:intergenic 30.0%
AAGCTAAAGGAGGAAATTAC+AGG + chr1.4:15616611-15616630 MS.gene59140:CDS 35.0%
ATTCATAAAGAACATGGTGG+TGG + chr1.4:15616560-15616579 MS.gene59140:CDS 35.0%
GTGATTCATAAAGAACATGG+TGG + chr1.4:15616557-15616576 MS.gene59140:CDS 35.0%
TGTACTTCTGTGGAGATATT+AGG - chr1.4:15615883-15615902 None:intergenic 35.0%
TGTATCTCCTGATTCATACT+TGG + chr1.4:15616634-15616653 MS.gene59140:CDS 35.0%
TTCATAAAGAACATGGTGGT+GGG + chr1.4:15616561-15616580 MS.gene59140:CDS 35.0%
! AATATCTCCACAGAAGTACA+TGG + chr1.4:15615883-15615902 MS.gene59140:CDS 35.0%
! AGCATTTTTGATGGAGAAGT+GGG + chr1.4:15616500-15616519 MS.gene59140:CDS 35.0%
! TAGCATTTTTGATGGAGAAG+TGG + chr1.4:15616499-15616518 MS.gene59140:CDS 35.0%
!! ATATTGGTTCTATCAAGCAC+TGG + chr1.4:15615935-15615954 MS.gene59140:CDS 35.0%
!! TATTGGTTCTATCAAGCACT+GGG + chr1.4:15615936-15615955 MS.gene59140:CDS 35.0%
!! TTCAACAAAAGAGTGTTGGA+AGG - chr1.4:15616104-15616123 None:intergenic 35.0%
!!! CTTTGTTTTCTTCCTTCTGT+AGG - chr1.4:15616428-15616447 None:intergenic 35.0%
CGAATATGAGAAGCTAAAGG+AGG + chr1.4:15616601-15616620 MS.gene59140:CDS 40.0%
GAAGGTGACTGGGAAAATAT+TGG + chr1.4:15615919-15615938 MS.gene59140:CDS 40.0%
TACTTGTGAAACCCTACAGA+AGG + chr1.4:15616413-15616432 MS.gene59140:intron 40.0%
!! AACAAAAGAGTGTTGGAAGG+AGG - chr1.4:15616101-15616120 None:intergenic 40.0%
!! AAGCACTGGGAATTTACAGT+AGG + chr1.4:15615949-15615968 MS.gene59140:CDS 40.0%
!! ACAAAAGAGTGTTGGAAGGA+GGG - chr1.4:15616100-15616119 None:intergenic 40.0%
!! ATGGTGGTGGGATTGTTAAA+TGG + chr1.4:15616573-15616592 MS.gene59140:CDS 40.0%
!! TGGTGGTGGGATTGTTAAAT+GGG + chr1.4:15616574-15616593 MS.gene59140:CDS 40.0%
GAAGTAGAGATTCAAGCACC+TGG + chr1.4:15615814-15615833 MS.gene59140:CDS 45.0%
GCAAGGTCCAAGTATGAATC+AGG - chr1.4:15616644-15616663 None:intergenic 45.0%
TAGAGTGCATGAAGGTGACT+GGG + chr1.4:15615909-15615928 MS.gene59140:CDS 45.0%
TCTACCTCCATGTACTTCTG+TGG - chr1.4:15615893-15615912 None:intergenic 45.0%
! ATACTTGGACCTTGCTGTGA+AGG + chr1.4:15616649-15616668 MS.gene59140:CDS 45.0%
! ATCTCCACAGAAGTACATGG+AGG + chr1.4:15615886-15615905 MS.gene59140:CDS 45.0%
! CTTTTGTGACCTTCACAGCA+AGG - chr1.4:15616661-15616680 None:intergenic 45.0%
CATGGAGGTAGAGTGCATGA+AGG + chr1.4:15615901-15615920 MS.gene59140:CDS 50.0%
GTAGAGTGCATGAAGGTGAC+TGG + chr1.4:15615908-15615927 MS.gene59140:CDS 50.0%
!! GGCTTTAAGTGGGAAAGTGG+AGG + chr1.4:15615789-15615808 MS.gene59140:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 15615787 15616709 15615787 ID=MS.gene59140
chr1.4 mRNA 15615787 15616709 15615787 ID=MS.gene59140.t1;Parent=MS.gene59140
chr1.4 exon 15615787 15615970 15615787 ID=MS.gene59140.t1.exon1;Parent=MS.gene59140.t1
chr1.4 CDS 15615787 15615970 15615787 ID=cds.MS.gene59140.t1;Parent=MS.gene59140.t1
chr1.4 exon 15616432 15616709 15616432 ID=MS.gene59140.t1.exon2;Parent=MS.gene59140.t1
chr1.4 CDS 15616432 15616709 15616432 ID=cds.MS.gene59140.t1;Parent=MS.gene59140.t1
Gene Sequence

>MS.gene59140

ATGGCTTTAAGTGGGAAAGTGGAGGCTGAAGTAGAGATTCAAGCACCTGGTGCTAAGTTCTATAATATTTTCAGAAAGCAACTAGAAAATCTTCCTAATATCTCCACAGAAGTACATGGAGGTAGAGTGCATGAAGGTGACTGGGAAAATATTGGTTCTATCAAGCACTGGGAATTTACAGTAGGTAATTAAGGTCCTTATGTTTCATAGTTTTACTATTTTATTGCTCATGAAAGGTAGAGTACATCAATGAACGCACAAAAAAATCAATGAACGCACAAAAAAGAATATATTAAAAAGTATTAATGAACCCTCCTTCCAACACTCTTTTGTTGAAGTTAATAAACTTTACATGATTTGATTATCTGCAAAAATAATTCATTCAAAATTTTACCTTGTATTGTCCAAATTGTCATTTATAAACACTTGTTCAACAATGTTGCACAAAAAAAAAAACTACATTCTTTTTCTTTTTCAACTTTTATTTTAAATATTATTTTTCATTTTCTTATAAAGAAACAAGGTATTTCAAAAATAACATCATTAATTTTTTTTAATTTTTTTTACGTTGGTCTCCAATTTCTATTTATTTATTTTCCCTAATATCATTGAACTCTAATTTTAAATACTTGTGAAACCCTACAGAAGGAAGAAAACAAAGTGCTAAAGCAAAAATTGAGACTATAGATGATGACAATAAGATAATCACATATAGCATTTTTGATGGAGAAGTGGGTGAGAGTTACAAGAGTTTAAAGGCAATATTACAAGTGATTCATAAAGAACATGGTGGTGGGATTGTTAAATGGGCATACGAATATGAGAAGCTAAAGGAGGAAATTACAGGTGTATCTCCTGATTCATACTTGGACCTTGCTGTGAAGGTCACAAAAGATATTGATTCTCATCTTCTCAAGGAATAG
Protein sequence

>MS.gene59140.t1

MALSGKVEAEVEIQAPGAKFYNIFRKQLENLPNISTEVHGGRVHEGDWENIGSIKHWEFTVEGRKQSAKAKIETIDDDNKIITYSIFDGEVGESYKSLKAILQVIHKEHGGGIVKWAYEYEKLKEEITGVSPDSYLDLAVKVTKDIDSHLLKE