AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene036151

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036151.t1 MTR_1g070480 92.228 193 15 0 1 193 1 193 1.48e-118 334
MS.gene036151.t1 MTR_7g096220 56.284 183 77 3 11 191 18 199 1.14e-66 203
MS.gene036151.t1 MTR_2g100260 46.575 146 72 2 30 170 35 179 2.91e-37 127
MS.gene036151.t1 MTR_3g012070 81.053 95 17 1 97 191 34 127 1.44e-36 125
MS.gene036151.t1 MTR_1g080760 47.340 188 91 3 10 193 10 193 4.84e-35 122
MS.gene036151.t1 MTR_4g014060 42.553 141 79 1 31 169 59 199 2.95e-34 121
MS.gene036151.t1 MTR_0562s0010 42.553 141 79 1 31 169 59 199 2.95e-34 121
MS.gene036151.t1 MTR_5g083490 39.744 156 92 1 28 181 48 203 4.65e-33 117
MS.gene036151.t1 MTR_6g092690 39.474 152 91 1 18 168 23 174 4.48e-32 115
MS.gene036151.t1 MTR_2g100270 47.977 173 86 1 1 169 1 173 1.06e-31 113
MS.gene036151.t1 MTR_8g016150 39.394 165 92 1 7 163 2 166 1.08e-28 105
MS.gene036151.t1 MTR_1g093090 45.161 93 49 1 21 111 12 104 7.09e-20 82.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036151.t1 AT1G04260 42.614 176 101 0 18 193 7 182 6.52e-45 147
MS.gene036151.t1 AT1G55190 53.147 143 67 0 26 168 31 173 3.47e-44 145
MS.gene036151.t1 AT3G13710 42.515 167 94 1 2 168 9 173 9.26e-41 137
MS.gene036151.t1 AT1G08770 45.198 177 93 2 17 191 33 207 2.22e-38 131
MS.gene036151.t1 AT3G13720 42.353 170 87 2 10 168 4 173 4.60e-36 125
MS.gene036151.t1 AT5G01640 39.735 151 89 1 32 180 55 205 2.12e-32 116
MS.gene036151.t1 AT2G38360 36.601 153 95 1 31 181 54 206 6.54e-32 115
MS.gene036151.t1 AT2G40380 42.105 152 86 1 31 180 46 197 1.37e-30 111
MS.gene036151.t1 AT3G56110 40.940 149 86 1 31 177 44 192 9.98e-28 103
MS.gene036151.t1 AT3G56110 40.940 149 86 1 31 177 44 192 9.98e-28 103
MS.gene036151.t1 AT3G56110 40.940 149 86 1 31 177 44 192 9.98e-28 103
MS.gene036151.t1 AT3G56110 40.940 149 86 1 31 177 44 192 9.98e-28 103
MS.gene036151.t1 AT1G17700 40.278 144 86 0 26 169 31 174 6.87e-27 101
MS.gene036151.t1 AT5G56230 33.516 182 116 2 1 177 1 182 1.32e-26 100
MS.gene036151.t1 AT5G05380 42.282 149 84 1 31 177 47 195 1.89e-26 100
MS.gene036151.t1 AT5G07110 37.671 146 89 1 32 175 45 190 2.21e-26 100
MS.gene036151.t1 AT5G05380 42.282 149 84 1 31 177 90 238 3.81e-26 101
MS.gene036151.t1 AT5G05380 42.282 149 84 1 31 177 98 246 4.41e-26 101
MS.gene036151.t1 AT5G05380 42.282 149 84 1 31 177 114 262 6.74e-26 101
MS.gene036151.t1 AT4G29658 30.286 175 109 2 9 170 3 177 7.20e-17 75.1
MS.gene036151.t1 AT1G55640 30.986 142 97 1 30 170 36 177 1.00e-16 74.7
MS.gene036151.t1 AT4G00005 34.188 117 70 2 55 169 3 114 1.96e-11 58.9

Find 68 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGTTTCGGAGAGGGAGTG+GGG 0.272856 1.3:-50721662 None:intergenic
GATGAAGAAGAGATCTTTGA+TGG 0.279860 1.3:+50722022 MS.gene036151:CDS
GTAAGTTGGAGTAGGATTAA+TGG 0.302615 1.3:-50721534 None:intergenic
GGGTGGTTTCGGAGAGGGAG+TGG 0.353712 1.3:-50721664 None:intergenic
GGTGATTTGCTTTCAGTTGT+TGG 0.353754 1.3:+50722043 MS.gene036151:CDS
AGCTTCAATACCAAGCGAAC+AGG 0.373632 1.3:+50722070 MS.gene036151:CDS
CGGCGCGTGGGGTAGTTAGA+AGG 0.374290 1.3:-50721599 None:intergenic
GATAGAGAAGGCTGAGGAAG+AGG 0.386753 1.3:-50721748 None:intergenic
CGCTTGTCTTCACCGGTGTC+TGG 0.394310 1.3:+50721915 MS.gene036151:CDS
GGTGGTTTCGGAGAGGGAGT+GGG 0.403250 1.3:-50721663 None:intergenic
TCATCGCCGTCTTCGCCGCT+TGG 0.407986 1.3:+50721792 MS.gene036151:CDS
TGGTTTCGGAGAGGGAGTGG+GGG 0.418255 1.3:-50721661 None:intergenic
GAAGAACCAAGCGGCGAAGA+CGG 0.427174 1.3:-50721798 None:intergenic
GAAGGGAGAGAGTTGTAAGT+TGG 0.427544 1.3:-50721548 None:intergenic
GGCTGAGGAAGAGGATGAAG+AGG 0.439094 1.3:-50721739 None:intergenic
CTCATCGGTGCTGCGGTGGT+TGG 0.441084 1.3:+50721959 MS.gene036151:CDS
AGAGAGTTGTAAGTTGGAGT+AGG 0.455001 1.3:-50721542 None:intergenic
AGAGGACGACGGGGCGGTCA+CGG 0.468542 1.3:-50721832 None:intergenic
ACGGAGGGTGGTTTCGGAGA+GGG 0.477533 1.3:-50721669 None:intergenic
ATGAAGACGATGAGGGAGAG+AGG 0.487841 1.3:-50721773 None:intergenic
CGTGGAGAAGTTGAGGTTGA+AGG 0.492708 1.3:-50721566 None:intergenic
TTGGTTTGCATGCGGCGTTT+CGG 0.494153 1.3:+50721978 MS.gene036151:CDS
AGTTGATGCGGAAGTGGTTG+AGG 0.503368 1.3:-50721703 None:intergenic
GAGGGTGATAGAGAAGGCTG+AGG 0.506859 1.3:-50721754 None:intergenic
TCTAGTGTACCCTGTTCGCT+TGG 0.513257 1.3:-50722080 None:intergenic
AGAGTAGGACGAGGAGGAAG+CGG 0.519171 1.3:-50721874 None:intergenic
GAGGAGGAAGCGGTCGTCAA+TGG 0.519538 1.3:-50721864 None:intergenic
TTTGCCATGGGCGGCGCGTG+GGG 0.523136 1.3:-50721610 None:intergenic
GTCGTCGCGCTTGTCTTCAC+CGG 0.523765 1.3:+50721908 MS.gene036151:CDS
GTGAAACGGAAGAGGACGAC+GGG 0.529191 1.3:-50721842 None:intergenic
GGGAGAGAGGGTGATAGAGA+AGG 0.537298 1.3:-50721760 None:intergenic
GTCCTCGTGTCGGTGCTCAT+CGG 0.543693 1.3:+50721944 MS.gene036151:CDS
AAGCGCGACGACGGTGAGGG+CGG 0.549919 1.3:-50721897 None:intergenic
GTGGAGAAGTTGAGGTTGAA+GGG 0.551495 1.3:-50721565 None:intergenic
CGTCAATGGTGAAACGGAAG+AGG 0.553573 1.3:-50721850 None:intergenic
ACTACCCCACGCGCCGCCCA+TGG 0.558256 1.3:+50721606 MS.gene036151:CDS
AGCGGTCGTCAATGGTGAAA+CGG 0.561981 1.3:-50721856 None:intergenic
CGACGGTGAGGGCGGAGAGT+AGG 0.563298 1.3:-50721889 None:intergenic
GGCGGTCACGGAAGAAGAAG+AGG 0.566501 1.3:-50721820 None:intergenic
TGGCGTAGTTGATGCGGAAG+TGG 0.571659 1.3:-50721709 None:intergenic
GAAGAGGATGAAGAGGATGA+TGG 0.590206 1.3:-50721732 None:intergenic
CTGGCTTAACGTCCTCGTGT+CGG 0.592061 1.3:+50721934 MS.gene036151:CDS
TTAGAAGGTGTGGTGGCGCG+TGG 0.595422 1.3:-50721584 None:intergenic
CACCGATGAGCACCGACACG+AGG 0.597222 1.3:-50721946 None:intergenic
GAGGATGAAGAGGATGATGG+TGG 0.601480 1.3:-50721729 None:intergenic
GACAAGCGCGACGACGGTGA+GGG 0.602736 1.3:-50721900 None:intergenic
TACGGAGGGTGGTTTCGGAG+AGG 0.616601 1.3:-50721670 None:intergenic
CGTGGGGTAGTTAGAAGGTG+TGG 0.616638 1.3:-50721594 None:intergenic
GGTGCTCATCGGTGCTGCGG+TGG 0.621215 1.3:+50721955 MS.gene036151:CDS
TGAAGACGATGAGGGAGAGA+GGG 0.624059 1.3:-50721772 None:intergenic
GTCGGTGCTCATCGGTGCTG+CGG 0.626659 1.3:+50721952 MS.gene036151:CDS
GGTGAAGACAAGCGCGACGA+CGG 0.628573 1.3:-50721906 None:intergenic
GGGGTAGTTAGAAGGTGTGG+TGG 0.628633 1.3:-50721591 None:intergenic
TGCGGTGGTTGGTTTGCATG+CGG 0.632195 1.3:+50721970 MS.gene036151:CDS
GATTTGCTTTCAGTTGTTGG+TGG 0.638304 1.3:+50722046 MS.gene036151:CDS
GCTTCAATACCAAGCGAACA+GGG 0.643569 1.3:+50722071 MS.gene036151:CDS
GGGCGGAGAGTAGGACGAGG+AGG 0.649539 1.3:-50721880 None:intergenic
AGACGGCGATGAAGACGATG+AGG 0.651741 1.3:-50721781 None:intergenic
GACGGCGATGAAGACGATGA+GGG 0.660143 1.3:-50721780 None:intergenic
TGAGGGCGGAGAGTAGGACG+AGG 0.661210 1.3:-50721883 None:intergenic
AGACAAGCGCGACGACGGTG+AGG 0.665725 1.3:-50721901 None:intergenic
GGTGGCGCGTGGAGAAGTTG+AGG 0.666671 1.3:-50721573 None:intergenic
TGATGGTGGCGTAGTTGATG+CGG 0.679858 1.3:-50721715 None:intergenic
GAAGAAGAGGAAGAACCAAG+CGG 0.686040 1.3:-50721807 None:intergenic
GGTGAAACGGAAGAGGACGA+CGG 0.689860 1.3:-50721843 None:intergenic
AACGGAAGAGGACGACGGGG+CGG 0.698930 1.3:-50721838 None:intergenic
GAGGACGTTAAGCCAGACAC+CGG 0.725574 1.3:-50721927 None:intergenic
TGAAACGGAAGAGGACGACG+GGG 0.728591 1.3:-50721841 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GATGAAGAAGAGATCTTTGA+TGG + chr1.3:50722022-50722041 MS.gene036151:CDS 35.0%
! GTAAGTTGGAGTAGGATTAA+TGG - chr1.3:50721537-50721556 None:intergenic 35.0%
! TAGTGAAGAAGTTTTGCCAT+GGG - chr1.3:50721625-50721644 None:intergenic 35.0%
! AGAGAGTTGTAAGTTGGAGT+AGG - chr1.3:50721545-50721564 None:intergenic 40.0%
! GATTTGCTTTCAGTTGTTGG+TGG + chr1.3:50722046-50722065 MS.gene036151:CDS 40.0%
! GGTTGAGGTTGCGTTTTATA+CGG - chr1.3:50721691-50721710 None:intergenic 40.0%
! GTAGTGAAGAAGTTTTGCCA+TGG - chr1.3:50721626-50721645 None:intergenic 40.0%
! TTTTATACGGAGGGTGGTTT+CGG - chr1.3:50721678-50721697 None:intergenic 40.0%
!! GGTGATTTGCTTTCAGTTGT+TGG + chr1.3:50722043-50722062 MS.gene036151:CDS 40.0%
AGCTTCAATACCAAGCGAAC+AGG + chr1.3:50722070-50722089 MS.gene036151:CDS 45.0%
GAAGAAGAGGAAGAACCAAG+CGG - chr1.3:50721810-50721829 None:intergenic 45.0%
GAAGAGGATGAAGAGGATGA+TGG - chr1.3:50721735-50721754 None:intergenic 45.0%
GAAGGGAGAGAGTTGTAAGT+TGG - chr1.3:50721551-50721570 None:intergenic 45.0%
GCTTCAATACCAAGCGAACA+GGG + chr1.3:50722071-50722090 MS.gene036151:CDS 45.0%
GTGGAGAAGTTGAGGTTGAA+GGG - chr1.3:50721568-50721587 None:intergenic 45.0%
! GAGGTTGCGTTTTATACGGA+GGG - chr1.3:50721687-50721706 None:intergenic 45.0%
! TGAAGAAGTTTTGCCATGGG+CGG - chr1.3:50721622-50721641 None:intergenic 45.0%
! TGAGGTTGCGTTTTATACGG+AGG - chr1.3:50721688-50721707 None:intergenic 45.0%
AGCGGTCGTCAATGGTGAAA+CGG - chr1.3:50721859-50721878 None:intergenic 50.0%
ATGAAGACGATGAGGGAGAG+AGG - chr1.3:50721776-50721795 None:intergenic 50.0%
CGTCAATGGTGAAACGGAAG+AGG - chr1.3:50721853-50721872 None:intergenic 50.0%
CGTGGAGAAGTTGAGGTTGA+AGG - chr1.3:50721569-50721588 None:intergenic 50.0%
GATAGAGAAGGCTGAGGAAG+AGG - chr1.3:50721751-50721770 None:intergenic 50.0%
TCTAGTGTACCCTGTTCGCT+TGG - chr1.3:50722083-50722102 None:intergenic 50.0%
TGAAGACGATGAGGGAGAGA+GGG - chr1.3:50721775-50721794 None:intergenic 50.0%
! AGTTGATGCGGAAGTGGTTG+AGG - chr1.3:50721706-50721725 None:intergenic 50.0%
! GAGGATGAAGAGGATGATGG+TGG - chr1.3:50721732-50721751 None:intergenic 50.0%
! GTTGCGTTTTATACGGAGGG+TGG - chr1.3:50721684-50721703 None:intergenic 50.0%
!! TGATGGTGGCGTAGTTGATG+CGG - chr1.3:50721718-50721737 None:intergenic 50.0%
!! TTGGTTTGCATGCGGCGTTT+CGG + chr1.3:50721978-50721997 MS.gene036151:CDS 50.0%
AGACGGCGATGAAGACGATG+AGG - chr1.3:50721784-50721803 None:intergenic 55.0%
AGAGTAGGACGAGGAGGAAG+CGG - chr1.3:50721877-50721896 None:intergenic 55.0%
AGTGGGGGAGAGTGAAGGAT+TGG - chr1.3:50721649-50721668 None:intergenic 55.0%
CGTGGGGTAGTTAGAAGGTG+TGG - chr1.3:50721597-50721616 None:intergenic 55.0%
CTGGCTTAACGTCCTCGTGT+CGG + chr1.3:50721934-50721953 MS.gene036151:CDS 55.0%
GAAGAACCAAGCGGCGAAGA+CGG - chr1.3:50721801-50721820 None:intergenic 55.0%
GACGGCGATGAAGACGATGA+GGG - chr1.3:50721783-50721802 None:intergenic 55.0%
GAGGACGTTAAGCCAGACAC+CGG - chr1.3:50721930-50721949 None:intergenic 55.0%
GAGGGTGATAGAGAAGGCTG+AGG - chr1.3:50721757-50721776 None:intergenic 55.0%
GGCTGAGGAAGAGGATGAAG+AGG - chr1.3:50721742-50721761 None:intergenic 55.0%
GGGAGAGAGGGTGATAGAGA+AGG - chr1.3:50721763-50721782 None:intergenic 55.0%
GGTGAAACGGAAGAGGACGA+CGG - chr1.3:50721846-50721865 None:intergenic 55.0%
GTGAAACGGAAGAGGACGAC+GGG - chr1.3:50721845-50721864 None:intergenic 55.0%
GTGGGGGAGAGTGAAGGATT+GGG - chr1.3:50721648-50721667 None:intergenic 55.0%
TGAAACGGAAGAGGACGACG+GGG - chr1.3:50721844-50721863 None:intergenic 55.0%
! GGGGTAGTTAGAAGGTGTGG+TGG - chr1.3:50721594-50721613 None:intergenic 55.0%
! TGGCGTAGTTGATGCGGAAG+TGG - chr1.3:50721712-50721731 None:intergenic 55.0%
!! TGCGGTGGTTGGTTTGCATG+CGG + chr1.3:50721970-50721989 MS.gene036151:CDS 55.0%
ACGGAGGGTGGTTTCGGAGA+GGG - chr1.3:50721672-50721691 None:intergenic 60.0%
CGCTTGTCTTCACCGGTGTC+TGG + chr1.3:50721915-50721934 MS.gene036151:CDS 60.0%
GAGGAGGAAGCGGTCGTCAA+TGG - chr1.3:50721867-50721886 None:intergenic 60.0%
GGCGGTCACGGAAGAAGAAG+AGG - chr1.3:50721823-50721842 None:intergenic 60.0%
GGTGAAGACAAGCGCGACGA+CGG - chr1.3:50721909-50721928 None:intergenic 60.0%
GGTGGTTTCGGAGAGGGAGT+GGG - chr1.3:50721666-50721685 None:intergenic 60.0%
GTCGTCGCGCTTGTCTTCAC+CGG + chr1.3:50721908-50721927 MS.gene036151:CDS 60.0%
GTGGTTTCGGAGAGGGAGTG+GGG - chr1.3:50721665-50721684 None:intergenic 60.0%
TACGGAGGGTGGTTTCGGAG+AGG - chr1.3:50721673-50721692 None:intergenic 60.0%
TGGTTTCGGAGAGGGAGTGG+GGG - chr1.3:50721664-50721683 None:intergenic 60.0%
! GTCCTCGTGTCGGTGCTCAT+CGG + chr1.3:50721944-50721963 MS.gene036151:CDS 60.0%
! TTAGAAGGTGTGGTGGCGCG+TGG - chr1.3:50721587-50721606 None:intergenic 60.0%
AACGGAAGAGGACGACGGGG+CGG - chr1.3:50721841-50721860 None:intergenic 65.0%
AGACAAGCGCGACGACGGTG+AGG - chr1.3:50721904-50721923 None:intergenic 65.0%
CGGCGCGTGGGGTAGTTAGA+AGG - chr1.3:50721602-50721621 None:intergenic 65.0%
GACAAGCGCGACGACGGTGA+GGG - chr1.3:50721903-50721922 None:intergenic 65.0%
GAGGGAGTGGGGGAGAGTGA+AGG - chr1.3:50721654-50721673 None:intergenic 65.0%
GGGTGGTTTCGGAGAGGGAG+TGG - chr1.3:50721667-50721686 None:intergenic 65.0%
GGTGGCGCGTGGAGAAGTTG+AGG - chr1.3:50721576-50721595 None:intergenic 65.0%
TCATCGCCGTCTTCGCCGCT+TGG + chr1.3:50721792-50721811 MS.gene036151:CDS 65.0%
TGAGGGCGGAGAGTAGGACG+AGG - chr1.3:50721886-50721905 None:intergenic 65.0%
! TTTTGCCATGGGCGGCGCGT+GGG - chr1.3:50721614-50721633 None:intergenic 65.0%
!! CACCGATGAGCACCGACACG+AGG - chr1.3:50721949-50721968 None:intergenic 65.0%
!! CTCATCGGTGCTGCGGTGGT+TGG + chr1.3:50721959-50721978 MS.gene036151:CDS 65.0%
!! GTCGGTGCTCATCGGTGCTG+CGG + chr1.3:50721952-50721971 MS.gene036151:CDS 65.0%
AAGCGCGACGACGGTGAGGG+CGG - chr1.3:50721900-50721919 None:intergenic 70.0%
AGAGGACGACGGGGCGGTCA+CGG - chr1.3:50721835-50721854 None:intergenic 70.0%
CGACGGTGAGGGCGGAGAGT+AGG - chr1.3:50721892-50721911 None:intergenic 70.0%
GGGCGGAGAGTAGGACGAGG+AGG - chr1.3:50721883-50721902 None:intergenic 70.0%
TTTGCCATGGGCGGCGCGTG+GGG - chr1.3:50721613-50721632 None:intergenic 70.0%
! GTTTTGCCATGGGCGGCGCG+TGG - chr1.3:50721615-50721634 None:intergenic 70.0%
!! GGTGCTCATCGGTGCTGCGG+TGG + chr1.3:50721955-50721974 MS.gene036151:CDS 70.0%
ACTACCCCACGCGCCGCCCA+TGG + chr1.3:50721606-50721625 MS.gene036151:CDS 75.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 50721527 50722108 50721527 ID=MS.gene036151
chr1.3 mRNA 50721527 50722108 50721527 ID=MS.gene036151.t1;Parent=MS.gene036151
chr1.3 exon 50721527 50722108 50721527 ID=MS.gene036151.t1.exon1;Parent=MS.gene036151.t1
chr1.3 CDS 50721527 50722108 50721527 ID=cds.MS.gene036151.t1;Parent=MS.gene036151.t1
Gene Sequence

>MS.gene036151

ATGTCTTCCATTAATCCTACTCCAACTTACAACTCTCTCCCTTCAACCTCAACTTCTCCACGCGCCACCACACCTTCTAACTACCCCACGCGCCGCCCATGGCAAAACTTCTTCACTACCCAATCCTTCACTCTCCCCCACTCCCTCTCCGAAACCACCCTCCGTATAAAACGCAACCTCAACCACTTCCGCATCAACTACGCCACCATCATCCTCTTCATCCTCTTCCTCAGCCTTCTCTATCACCCTCTCTCCCTCATCGTCTTCATCGCCGTCTTCGCCGCTTGGTTCTTCCTCTTCTTCTTCCGTGACCGCCCCGTCGTCCTCTTCCGTTTCACCATTGACGACCGCTTCCTCCTCGTCCTACTCTCCGCCCTCACCGTCGTCGCGCTTGTCTTCACCGGTGTCTGGCTTAACGTCCTCGTGTCGGTGCTCATCGGTGCTGCGGTGGTTGGTTTGCATGCGGCGTTTCGGAGTATTGATGATTTGTATTTAGATGAAGAAGAGATCTTTGATGGTGATTTGCTTTCAGTTGTTGGTGGTAGCTTCAATACCAAGCGAACAGGGTACACTAGAATGTAG
Protein sequence

>MS.gene036151.t1

MSSINPTPTYNSLPSTSTSPRATTPSNYPTRRPWQNFFTTQSFTLPHSLSETTLRIKRNLNHFRINYATIILFILFLSLLYHPLSLIVFIAVFAAWFFLFFFRDRPVVLFRFTIDDRFLLVLLSALTVVALVFTGVWLNVLVSVLIGAAVVGLHAAFRSIDDLYLDEEEIFDGDLLSVVGGSFNTKRTGYTRM