AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20118

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20118.t1 MTR_2g055210 94.857 175 9 0 1 175 166 340 1.95e-119 341
MS.gene20118.t1 MTR_4g116300 33.862 189 101 5 1 174 70 249 5.22e-23 92.0
MS.gene20118.t1 MTR_4g094680 34.254 181 82 4 1 174 86 236 1.21e-22 90.9
MS.gene20118.t1 MTR_2g036170 35.028 177 86 7 1 174 101 251 2.63e-16 74.3
MS.gene20118.t1 MTR_4g078170 28.571 175 78 4 1 174 80 208 2.63e-14 68.2
MS.gene20118.t1 MTR_5g030130 28.571 175 80 4 1 174 100 230 1.45e-13 66.6
MS.gene20118.t1 MTR_5g007230 40.580 69 40 1 1 68 86 154 8.34e-12 61.6
MS.gene20118.t1 MTR_7g102790 41.176 68 39 1 1 67 75 142 1.68e-11 60.5
MS.gene20118.t1 MTR_1g062160 28.000 175 79 6 1 174 73 201 6.87e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20118.t1 AT3G60670 50.273 183 75 7 1 175 71 245 1.57e-42 142
MS.gene20118.t1 AT2G12646 35.079 191 102 5 1 174 67 252 3.42e-23 92.8
MS.gene20118.t1 AT2G12646 35.079 191 102 5 1 174 70 255 3.65e-23 92.8
MS.gene20118.t1 AT2G12646 35.079 191 102 5 1 174 70 255 3.65e-23 92.8
MS.gene20118.t1 AT1G31040 35.429 175 97 4 1 174 83 242 3.70e-21 87.0
MS.gene20118.t1 AT1G21000 30.682 176 110 6 1 174 78 243 2.89e-13 65.9
MS.gene20118.t1 AT1G21000 30.682 176 110 6 1 174 81 246 3.11e-13 65.9
MS.gene20118.t1 AT1G32700 41.791 67 38 1 1 66 38 104 2.07e-11 59.7
MS.gene20118.t1 AT1G32700 41.791 67 38 1 1 66 77 143 3.48e-11 59.7
MS.gene20118.t1 AT2G27930 39.437 71 33 1 1 61 73 143 7.61e-11 58.5
MS.gene20118.t1 AT2G27930 39.437 71 33 1 1 61 73 143 7.61e-11 58.5
MS.gene20118.t1 AT1G76590 29.545 176 109 7 1 174 83 245 9.59e-11 58.9

Find 49 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACATTTGGTTCACTATC+TGG 0.237092 7.2:+57202725 MS.gene20118:CDS
GTAAGGGTCTTGAAGACTTC+TGG 0.303743 7.2:-57202130 None:intergenic
GAGGAGCATCTCTTTGGAAT+TGG 0.338342 7.2:-57202084 None:intergenic
TTGCTTGAGGAGCATCTCTT+TGG 0.338603 7.2:-57202090 None:intergenic
AACCGAACTTCATCCGGTTC+CGG 0.371774 7.2:+57202845 MS.gene20118:CDS
AGTCACTTGGTGAAAACATT+TGG 0.391874 7.2:+57202713 MS.gene20118:CDS
GAGAGAGAACAGAATTTGTA+AGG 0.394736 7.2:-57202147 None:intergenic
CACCGGAACCGGATGAAGTT+CGG 0.397970 7.2:-57202847 None:intergenic
TCTCGGAGAGTCTGATGAAT+AGG 0.410323 7.2:+57202999 MS.gene20118:CDS
GGTTCAAACCGAACTTCATC+CGG 0.422747 7.2:+57202839 MS.gene20118:CDS
ATGCCACCATTATCTGATTC+TGG 0.428827 7.2:+57202770 MS.gene20118:CDS
GGGGATGTATCCACCGGAAC+CGG 0.447568 7.2:-57202858 None:intergenic
GCCTGCATGCTCGCCGGTGT+CGG 0.449198 7.2:+57202973 MS.gene20118:CDS
CGGTAGTAGCGGTGCAAGCA+AGG 0.456996 7.2:-57202898 None:intergenic
GGATGAAGTTCGGTTTGAAC+CGG 0.475769 7.2:-57202837 None:intergenic
TCTAGTCCAGAATCAGATAA+TGG 0.486066 7.2:-57202776 None:intergenic
CTCGCCGGTGTCGGAAATCT+CGG 0.497072 7.2:+57202982 MS.gene20118:CDS
GATGGTTCGAGAACCGAGTC+AGG 0.499983 7.2:-57202815 None:intergenic
GTTGTCCGAAAGAAAAGAAC+CGG 0.516356 7.2:+57202923 MS.gene20118:CDS
ATTCTGTTCTCTCTCTTGCA+AGG 0.523330 7.2:+57202155 MS.gene20118:CDS
CAATATAACGGGGCCCTATG+TGG 0.529393 7.2:-57203034 None:intergenic
GACTCGGTTCTCGAACCATC+CGG 0.529624 7.2:+57202818 MS.gene20118:CDS
GTCTTGAAGACTTCTGGCAC+AGG 0.531073 7.2:-57202124 None:intergenic
GAGGAAAGGAACGCCACATA+GGG 0.533397 7.2:+57203021 MS.gene20118:CDS
TCCGACACCGGCGAGCATGC+AGG 0.535651 7.2:-57202974 None:intergenic
CTACAGTTCTACAGAACAAA+CGG 0.540640 7.2:+57202033 MS.gene20118:intron
GTGTCGGCCTGCATGCTCGC+CGG 0.542423 7.2:+57202967 MS.gene20118:CDS
CGGTCTAATGACACCTGACT+CGG 0.553504 7.2:+57202802 MS.gene20118:CDS
CGAACTTCATCCGGTTCCGG+TGG 0.558699 7.2:+57202848 MS.gene20118:CDS
ATCAATGGGGATGTATCCAC+CGG 0.561626 7.2:-57202864 None:intergenic
TGCTTGCACCGCTACTACCG+AGG 0.570706 7.2:+57202901 MS.gene20118:CDS
CGGAGAGTCTGATGAATAGG+AGG 0.571731 7.2:+57203002 MS.gene20118:CDS
GGAGGAAAGGAACGCCACAT+AGG 0.574415 7.2:+57203020 MS.gene20118:CDS
GGTAGTAGCGGTGCAAGCAA+GGG 0.580460 7.2:-57202897 None:intergenic
AGTCTGATGAATAGGAGGAA+AGG 0.580615 7.2:+57203007 MS.gene20118:CDS
ATGCAGGCCGACACGGTGGT+CGG 0.595664 7.2:-57202958 None:intergenic
GAAGTTCGGTTTGAACCGGA+TGG 0.598179 7.2:-57202833 None:intergenic
GGTTCTGCAGATATTGCTTG+AGG 0.599864 7.2:-57202103 None:intergenic
AGAATCAGATAATGGTGGCA+TGG 0.607517 7.2:-57202768 None:intergenic
TCTGATTCTGGACTAGATGA+CGG 0.614207 7.2:+57202782 MS.gene20118:CDS
AGAGAGAACAGAATTTGTAA+GGG 0.616060 7.2:-57202146 None:intergenic
AGTAGCGGTGCAAGCAAGGG+CGG 0.618674 7.2:-57202894 None:intergenic
GGCGAGCATGCAGGCCGACA+CGG 0.620248 7.2:-57202965 None:intergenic
CTCTCCGAGATTTCCGACAC+CGG 0.623268 7.2:-57202986 None:intergenic
TCGGACAACCTCGGTAGTAG+CGG 0.624276 7.2:-57202909 None:intergenic
TCACTTTCCGACCACCGTGT+CGG 0.647068 7.2:+57202951 MS.gene20118:CDS
AGTCCAGAATCAGATAATGG+TGG 0.683117 7.2:-57202773 None:intergenic
GAGCATGCAGGCCGACACGG+TGG 0.741450 7.2:-57202962 None:intergenic
TGGTCGGAAAGTGATGACAC+CGG 0.742801 7.2:-57202942 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATATTAAACTATGTATAT+TGG + chr7.2:57201880-57201899 MS.gene20118:intron 10.0%
!!! TTAATTTTTTACAAGAATTT+AGG + chr7.2:57201940-57201959 MS.gene20118:intron 10.0%
!!! AAAAAATATGATGATGAAAA+TGG - chr7.2:57202495-57202514 None:intergenic 15.0%
!!! TTGGAATTTTTAAGTATAAT+TGG + chr7.2:57202274-57202293 MS.gene20118:intron 15.0%
!! ATATTCAATTCGTGTAAAAT+TGG - chr7.2:57202389-57202408 None:intergenic 20.0%
!!! ATGTTGAATTTAGTTTTAGT+TGG + chr7.2:57202437-57202456 MS.gene20118:intron 20.0%
!!! TAATTGTTTGTCTGATTTTA+TGG - chr7.2:57202597-57202616 None:intergenic 20.0%
!!! TACAATGATTTTATCATGTT+TGG + chr7.2:57202255-57202274 MS.gene20118:intron 20.0%
!!! TTCAATTTTTAGTGTATGTT+TGG + chr7.2:57202214-57202233 MS.gene20118:intron 20.0%
! AGATTAAATATGAATGTGAG+AGG - chr7.2:57202190-57202209 None:intergenic 25.0%
!! CTATTCAAGTAAGTGATTTT+TGG + chr7.2:57201827-57201846 MS.gene20118:intron 25.0%
!! TACCACAATTAATTTTGTGT+TGG + chr7.2:57201996-57202015 MS.gene20118:intron 25.0%
AGAGAGAACAGAATTTGTAA+GGG - chr7.2:57202149-57202168 None:intergenic 30.0%
CACCAACACAAAATTAATTG+TGG - chr7.2:57202001-57202020 None:intergenic 30.0%
! AAAACATTTGGTTCACTATC+TGG + chr7.2:57202725-57202744 MS.gene20118:CDS 30.0%
CTACAGTTCTACAGAACAAA+CGG + chr7.2:57202033-57202052 MS.gene20118:intron 35.0%
GAGAGAGAACAGAATTTGTA+AGG - chr7.2:57202150-57202169 None:intergenic 35.0%
TCTAGTCCAGAATCAGATAA+TGG - chr7.2:57202779-57202798 None:intergenic 35.0%
! AGTCACTTGGTGAAAACATT+TGG + chr7.2:57202713-57202732 MS.gene20118:CDS 35.0%
! TTTATGGTTGTGTTTTCCAC+AGG + chr7.2:57202688-57202707 MS.gene20118:intron 35.0%
AGTCTGATGAATAGGAGGAA+AGG + chr7.2:57203007-57203026 MS.gene20118:CDS 40.0%
ATGCCACCATTATCTGATTC+TGG + chr7.2:57202770-57202789 MS.gene20118:CDS 40.0%
ATTCTGTTCTCTCTCTTGCA+AGG + chr7.2:57202155-57202174 MS.gene20118:CDS 40.0%
GTTGTCCGAAAGAAAAGAAC+CGG + chr7.2:57202923-57202942 MS.gene20118:CDS 40.0%
! AGAATCAGATAATGGTGGCA+TGG - chr7.2:57202771-57202790 None:intergenic 40.0%
! AGTCCAGAATCAGATAATGG+TGG - chr7.2:57202776-57202795 None:intergenic 40.0%
! TCTGATTCTGGACTAGATGA+CGG + chr7.2:57202782-57202801 MS.gene20118:CDS 40.0%
! TCTTTTCTTTCGGACAACCT+CGG - chr7.2:57202921-57202940 None:intergenic 40.0%
!!! TGACACCGGTTCTTTTCTTT+CGG - chr7.2:57202931-57202950 None:intergenic 40.0%
ATCAATGGGGATGTATCCAC+CGG - chr7.2:57202867-57202886 None:intergenic 45.0%
GGTTCAAACCGAACTTCATC+CGG + chr7.2:57202839-57202858 MS.gene20118:CDS 45.0%
GGTTCTGCAGATATTGCTTG+AGG - chr7.2:57202106-57202125 None:intergenic 45.0%
GTAAGGGTCTTGAAGACTTC+TGG - chr7.2:57202133-57202152 None:intergenic 45.0%
TCTCGGAGAGTCTGATGAAT+AGG + chr7.2:57202999-57203018 MS.gene20118:CDS 45.0%
! AAGGGCGGTTTTGCAATCAA+TGG - chr7.2:57202882-57202901 None:intergenic 45.0%
! AGGGCGGTTTTGCAATCAAT+GGG - chr7.2:57202881-57202900 None:intergenic 45.0%
! GGATGAAGTTCGGTTTGAAC+CGG - chr7.2:57202840-57202859 None:intergenic 45.0%
! TTTTCCACAGGTGAGTCACT+TGG + chr7.2:57202700-57202719 MS.gene20118:intron 45.0%
!! GAGGAGCATCTCTTTGGAAT+TGG - chr7.2:57202087-57202106 None:intergenic 45.0%
!! TTGCTTGAGGAGCATCTCTT+TGG - chr7.2:57202093-57202112 None:intergenic 45.0%
!!! TTTTTTTTTTTGTTATTTTA+TGG + chr7.2:57202672-57202691 MS.gene20118:intron 5.0%
AACCGAACTTCATCCGGTTC+CGG + chr7.2:57202845-57202864 MS.gene20118:CDS 50.0%
CGGAGAGTCTGATGAATAGG+AGG + chr7.2:57203002-57203021 MS.gene20118:CDS 50.0%
CGGTCTAATGACACCTGACT+CGG + chr7.2:57202802-57202821 MS.gene20118:CDS 50.0%
GAGGAAAGGAACGCCACATA+GGG + chr7.2:57203021-57203040 MS.gene20118:CDS 50.0%
GTCTTGAAGACTTCTGGCAC+AGG - chr7.2:57202127-57202146 None:intergenic 50.0%
TGGTCGGAAAGTGATGACAC+CGG - chr7.2:57202945-57202964 None:intergenic 50.0%
TTCACCAAGTGACTCACCTG+TGG - chr7.2:57202707-57202726 None:intergenic 50.0%
! CAATATAACGGGGCCCTATG+TGG - chr7.2:57203037-57203056 None:intergenic 50.0%
! GAAGTTCGGTTTGAACCGGA+TGG - chr7.2:57202836-57202855 None:intergenic 50.0%
! GGGCGGTTTTGCAATCAATG+GGG - chr7.2:57202880-57202899 None:intergenic 50.0%
CACCGGAACCGGATGAAGTT+CGG - chr7.2:57202850-57202869 None:intergenic 55.0%
CTCTCCGAGATTTCCGACAC+CGG - chr7.2:57202989-57203008 None:intergenic 55.0%
GATGGTTCGAGAACCGAGTC+AGG - chr7.2:57202818-57202837 None:intergenic 55.0%
GGAGGAAAGGAACGCCACAT+AGG + chr7.2:57203020-57203039 MS.gene20118:CDS 55.0%
GGTAGTAGCGGTGCAAGCAA+GGG - chr7.2:57202900-57202919 None:intergenic 55.0%
TCACTTTCCGACCACCGTGT+CGG + chr7.2:57202951-57202970 MS.gene20118:CDS 55.0%
TCGGACAACCTCGGTAGTAG+CGG - chr7.2:57202912-57202931 None:intergenic 55.0%
! GACTCGGTTCTCGAACCATC+CGG + chr7.2:57202818-57202837 MS.gene20118:CDS 55.0%
AGTAGCGGTGCAAGCAAGGG+CGG - chr7.2:57202897-57202916 None:intergenic 60.0%
CGAACTTCATCCGGTTCCGG+TGG + chr7.2:57202848-57202867 MS.gene20118:CDS 60.0%
CGGTAGTAGCGGTGCAAGCA+AGG - chr7.2:57202901-57202920 None:intergenic 60.0%
GGGGATGTATCCACCGGAAC+CGG - chr7.2:57202861-57202880 None:intergenic 60.0%
TGCTTGCACCGCTACTACCG+AGG + chr7.2:57202901-57202920 MS.gene20118:CDS 60.0%
! CTCGCCGGTGTCGGAAATCT+CGG + chr7.2:57202982-57203001 MS.gene20118:CDS 60.0%
ATGCAGGCCGACACGGTGGT+CGG - chr7.2:57202961-57202980 None:intergenic 65.0%
GAGCATGCAGGCCGACACGG+TGG - chr7.2:57202965-57202984 None:intergenic 70.0%
GCCTGCATGCTCGCCGGTGT+CGG + chr7.2:57202973-57202992 MS.gene20118:CDS 70.0%
GGCGAGCATGCAGGCCGACA+CGG - chr7.2:57202968-57202987 None:intergenic 70.0%
TCCGACACCGGCGAGCATGC+AGG - chr7.2:57202977-57202996 None:intergenic 70.0%
! GTGTCGGCCTGCATGCTCGC+CGG + chr7.2:57202967-57202986 MS.gene20118:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 57201793 57203057 57201793 ID=MS.gene20118
chr7.2 mRNA 57201793 57203057 57201793 ID=MS.gene20118.t1;Parent=MS.gene20118
chr7.2 exon 57201793 57201834 57201793 ID=MS.gene20118.t1.exon1;Parent=MS.gene20118.t1
chr7.2 CDS 57201793 57201834 57201793 ID=cds.MS.gene20118.t1;Parent=MS.gene20118.t1
chr7.2 exon 57202039 57202176 57202039 ID=MS.gene20118.t1.exon2;Parent=MS.gene20118.t1
chr7.2 CDS 57202039 57202176 57202039 ID=cds.MS.gene20118.t1;Parent=MS.gene20118.t1
chr7.2 exon 57202710 57203057 57202710 ID=MS.gene20118.t1.exon3;Parent=MS.gene20118.t1
chr7.2 CDS 57202710 57203057 57202710 ID=cds.MS.gene20118.t1;Parent=MS.gene20118.t1
Gene Sequence

>MS.gene20118

ATGGGTGATGCTGCAAAATTAATTGACTGTTCTTCTATTCAAGTAAGTGATTTTTGGTTTTTTGAGTTTATCATTTTTTATTAAAATATATATTAAACTATGTATATTGGTGTAATTTTCTTGTCAATTTTGATTTTAATTCTGAAGTTAATTTTTTACAAGAATTTAGGTTATTTTTTTTGTTGAGTTTATGTGTTTGTTATTACCACAATTAATTTTGTGTTGGTGTGTATGATGATGCTACAGTTCTACAGAACAAACGGTGCAAAAGTGATTTTTATAAATCAAAGACCAATTCCAAAGAGATGCTCCTCAAGCAATATCTGCAGAACCTGTGCCAGAAGTCTTCAAGACCCTTACAAATTCTGTTCTCTCTCTTGCAAGGTTCAGTTTTCCTCTCACATTCATATTTAATCTTCTTTTCAATTTTTAGTGTATGTTTGGTTACATATTTAAAGAAGTTACAATGATTTTATCATGTTTGGAATTTTTAAGTATAATTGGTTTTCTCTTTGAAGTTAATTTTAACTTAAGCTAGAATGTTATAAGTAGTTTTTTGCTTCTACAATTAATTCTTTTGTTTTTATTTTCAACCAATTTTACACGAATTGAATATATACAAACATAAATTATAGTATTATTTTATGTTGAATTTAGTTTTAGTTGGAATCAATTTTATGTAATCATTTTATTCAAAATCCATTTTCATCATCATATTTTTTTTAATCAAACAAACAATTACTTTATTTAATTCTTTTTAATTTTATTTTTATTATTATTCTCATTTTTTCATTTTCATCACCATAAAATCAGACAAACAATTAATTGTTTTAATTCTTTTTATTTATTAAGTTTTTAATTTTATTATTATTCTTTTTTTTTTTTTTTTTGTTATTTTATGGTTGTGTTTTCCACAGGTGAGTCACTTGGTGAAAACATTTGGTTCACTATCTGGTTACTTACTCGAGTGCAACACCATGCCACCATTATCTGATTCTGGACTAGATGACGGTCTAATGACACCTGACTCGGTTCTCGAACCATCCGGTTCAAACCGAACTTCATCCGGTTCCGGTGGATACATCCCCATTGATTGCAAAACCGCCCTTGCTTGCACCGCTACTACCGAGGTTGTCCGAAAGAAAAGAACCGGTGTCATCACTTTCCGACCACCGTGTCGGCCTGCATGCTCGCCGGTGTCGGAAATCTCGGAGAGTCTGATGAATAGGAGGAAAGGAACGCCACATAGGGCCCCGTTATATTGA
Protein sequence

>MS.gene20118.t1

MGDAAKLIDCSSIQFYRTNGAKVIFINQRPIPKRCSSSNICRTCARSLQDPYKFCSLSCKVSHLVKTFGSLSGYLLECNTMPPLSDSGLDDGLMTPDSVLEPSGSNRTSSGSGGYIPIDCKTALACTATTEVVRKKRTGVITFRPPCRPACSPVSEISESLMNRRKGTPHRAPLY