AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33581

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33581.t1 MTR_1g103640 90.367 218 16 3 1 217 1 214 8.21e-120 340
MS.gene33581.t1 MTR_1g072110 47.794 136 49 2 68 182 102 236 4.21e-35 125
MS.gene33581.t1 MTR_7g095150 42.604 169 61 6 34 181 48 201 4.57e-32 116
MS.gene33581.t1 MTR_2g102140 38.356 73 42 1 118 187 208 280 2.72e-12 65.1
MS.gene33581.t1 MTR_1g111640 33.600 125 68 5 55 178 89 199 1.29e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33581.t1 AT1G05420 45.299 117 60 2 71 184 107 222 3.42e-24 96.3
MS.gene33581.t1 AT1G05420 45.299 117 60 2 71 184 123 238 3.66e-24 96.7
MS.gene33581.t1 AT2G32100 37.241 145 60 2 69 182 94 238 9.44e-22 90.5
MS.gene33581.t1 AT4G14860 54.545 66 30 0 121 186 111 176 9.71e-18 78.2
MS.gene33581.t1 AT1G79960 36.170 94 52 1 87 180 175 260 4.36e-12 64.7

Find 67 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAGGGTTTACAGAGTATTT+TGG 0.228255 1.3:-71042068 None:intergenic
CTCTTCACACTACCTCTTCT+TGG 0.295616 1.3:-71042041 None:intergenic
CGTAGAAATAGTCTTCTTCT+TGG 0.335486 1.3:-71041884 None:intergenic
CTTGGTCGTGGTGGTGGTGG+TGG 0.362617 1.3:-71041866 None:intergenic
TATCGCCACGGTAGTTTCTC+AGG 0.363292 1.3:+71042346 MS.gene33581:CDS
AGCTGTTTAGAGAATAGTTT+TGG 0.372531 1.3:-71041726 None:intergenic
TGTTAGATGTTACTAATGAT+TGG 0.384737 1.3:+71042141 MS.gene33581:CDS
GAGAAACTACCGTGGCGATA+TGG 0.397249 1.3:-71042343 None:intergenic
TGAGGTTGGGAGAGAATTGT+AGG 0.399313 1.3:-71041777 None:intergenic
AGGAGACTCTGTGATGGAAT+TGG 0.407788 1.3:-71041985 None:intergenic
TGGCGTTGGTTATTGAGCTT+TGG 0.408724 1.3:-71042323 None:intergenic
GTTAGATGTTACTAATGATT+GGG 0.414482 1.3:+71042142 MS.gene33581:CDS
GTGGTAGTGTGTTGTGGATG+AGG 0.449355 1.3:-71041795 None:intergenic
CAAGGTAGAGTGTCGTTAGA+AGG 0.451760 1.3:-71042005 None:intergenic
TAGTGTGTTGTGGATGAGGT+TGG 0.452668 1.3:-71041791 None:intergenic
TGTGATGGAATTGGAGCTGC+CGG 0.453476 1.3:-71041976 None:intergenic
GTGATGGAATTGGAGCTGCC+GGG 0.463677 1.3:-71041975 None:intergenic
GGAGAATGATGAGGAGGAGG+AGG 0.466907 1.3:-71042270 None:intergenic
GGAGGAGAATGATGAGGAGG+AGG 0.466907 1.3:-71042273 None:intergenic
GGGTGAAGGTGGTATTGAAA+TGG 0.466993 1.3:-71041845 None:intergenic
GAACGGAGGAAATCAACATA+AGG 0.476551 1.3:-71042086 None:intergenic
CTTCTTGGTCGTGGTGGTGG+TGG 0.481550 1.3:-71041869 None:intergenic
TGATTTCCTCCGTTCTATGC+AGG 0.483346 1.3:+71042094 MS.gene33581:CDS
GTGGTGGTGGTGGGTGAAGG+TGG 0.483521 1.3:-71041856 None:intergenic
TTGGTCGTGGTGGTGGTGGT+GGG 0.488030 1.3:-71041865 None:intergenic
CTTCTTCTTGGTCGTGGTGG+TGG 0.488768 1.3:-71041872 None:intergenic
AGTGTGTTGTGGATGAGGTT+GGG 0.497151 1.3:-71041790 None:intergenic
AATAGTCTTCTTCTTGGTCG+TGG 0.507672 1.3:-71041878 None:intergenic
TGATGGAATTGGAGCTGCCG+GGG 0.520934 1.3:-71041974 None:intergenic
AAGAAGAGGTAGTGTGAAGA+GGG 0.521773 1.3:+71042043 MS.gene33581:CDS
TGGAAAGTGCAAGGTGATGA+TGG 0.523328 1.3:-71041825 None:intergenic
AGGTTCTTCTTCTCCTCCCC+CGG 0.527466 1.3:+71041957 MS.gene33581:CDS
CACCACGGAGCTTCCACCAC+CGG 0.528976 1.3:+71041908 MS.gene33581:CDS
CGGTAGTTTCTCAGGGAAGT+TGG 0.530160 1.3:+71042354 MS.gene33581:CDS
AACGGAGGAAATCAACATAA+GGG 0.534785 1.3:-71042085 None:intergenic
TTTGGAGAAGATAGCGGTGG+CGG 0.537055 1.3:-71042305 None:intergenic
ACAGAAGAAAAGTCCGGTGG+TGG 0.542301 1.3:-71041921 None:intergenic
TAGCGGTGGCGGAGATGAAG+AGG 0.545559 1.3:-71042294 None:intergenic
GATGAAGTGGTAGTGTGTTG+TGG 0.564172 1.3:-71041801 None:intergenic
GAATCATTTCCTGCATAGAA+CGG 0.567536 1.3:-71042103 None:intergenic
AGAGGAGGAGAATGATGAGG+AGG 0.574190 1.3:-71042276 None:intergenic
AAGATAAAATATCAACAAGA+AGG 0.574451 1.3:-71042247 None:intergenic
CAAGAAGAGGTAGTGTGAAG+AGG 0.577676 1.3:+71042042 MS.gene33581:CDS
CTTGGTATCAACGAGTTGCA+AGG 0.582336 1.3:-71042023 None:intergenic
TGAAGAGGAGGAGAATGATG+AGG 0.591365 1.3:-71042279 None:intergenic
CTTCTGTCTTCGCGTCTCAG+AGG 0.595550 1.3:+71041937 MS.gene33581:CDS
GATGGAATTGGAGCTGCCGG+GGG 0.596484 1.3:-71041973 None:intergenic
CGGTGGCGGAGATGAAGAGG+AGG 0.598051 1.3:-71042291 None:intergenic
CTACCGTGGCGATATGGCGT+TGG 0.601430 1.3:-71042337 None:intergenic
AGTCTTCTTCTTGGTCGTGG+TGG 0.610248 1.3:-71041875 None:intergenic
GAGGTTGGGAGAGAATTGTA+GGG 0.614608 1.3:-71041776 None:intergenic
AGGTGATGATGGTGATGAAG+TGG 0.616233 1.3:-71041814 None:intergenic
GCGAAGACAGAAGAAAAGTC+CGG 0.617433 1.3:-71041927 None:intergenic
ATCGCCACGGTAGTTTCTCA+GGG 0.618065 1.3:+71042347 MS.gene33581:CDS
TTGAGCTTTGGAGAAGATAG+CGG 0.632157 1.3:-71042311 None:intergenic
ATATACTTGTGAGTATGCGT+AGG 0.648661 1.3:-71042206 None:intergenic
GTTAGAAGGAGACTCTGTGA+TGG 0.651959 1.3:-71041991 None:intergenic
AACTCGTTGATACCAAGAAG+AGG 0.656940 1.3:+71042029 MS.gene33581:CDS
AGCTTTGGAGAAGATAGCGG+TGG 0.665519 1.3:-71042308 None:intergenic
ATTTGAGCTTGAAGAAACAG+AGG 0.670569 1.3:-71041752 None:intergenic
GTCCGGTGGTGGAAGCTCCG+TGG 0.684749 1.3:-71041910 None:intergenic
TCATTTCCTGCATAGAACGG+AGG 0.700476 1.3:-71042100 None:intergenic
AGACTATTTCTACGACACCA+CGG 0.705726 1.3:+71041893 MS.gene33581:CDS
TAACCAACGCCATATCGCCA+CGG 0.709212 1.3:+71042334 MS.gene33581:CDS
GTATTGAAATGGAAAGTGCA+AGG 0.712044 1.3:-71041834 None:intergenic
AAGACAGAAGAAAAGTCCGG+TGG 0.739392 1.3:-71041924 None:intergenic
ACTTCCCTGAGAAACTACCG+TGG 0.784562 1.3:-71042351 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTAAAAATATTAAATGTCA+AGG + chr1.3:71042377-71042396 MS.gene33581:CDS 15.0%
!! AAGATAAAATATCAACAAGA+AGG - chr1.3:71042250-71042269 None:intergenic 20.0%
! GTTAGATGTTACTAATGATT+GGG + chr1.3:71042142-71042161 MS.gene33581:CDS 25.0%
! TGTTAGATGTTACTAATGAT+TGG + chr1.3:71042141-71042160 MS.gene33581:CDS 25.0%
! AGCTGTTTAGAGAATAGTTT+TGG - chr1.3:71041729-71041748 None:intergenic 30.0%
!! TAAGGGTTTACAGAGTATTT+TGG - chr1.3:71042071-71042090 None:intergenic 30.0%
AACGGAGGAAATCAACATAA+GGG - chr1.3:71042088-71042107 None:intergenic 35.0%
ATATACTTGTGAGTATGCGT+AGG - chr1.3:71042209-71042228 None:intergenic 35.0%
ATTTGAGCTTGAAGAAACAG+AGG - chr1.3:71041755-71041774 None:intergenic 35.0%
CGTAGAAATAGTCTTCTTCT+TGG - chr1.3:71041887-71041906 None:intergenic 35.0%
GAATCATTTCCTGCATAGAA+CGG - chr1.3:71042106-71042125 None:intergenic 35.0%
! GTATTGAAATGGAAAGTGCA+AGG - chr1.3:71041837-71041856 None:intergenic 35.0%
AACTCGTTGATACCAAGAAG+AGG + chr1.3:71042029-71042048 MS.gene33581:CDS 40.0%
AAGAAGAGGTAGTGTGAAGA+GGG + chr1.3:71042043-71042062 MS.gene33581:CDS 40.0%
AATAGTCTTCTTCTTGGTCG+TGG - chr1.3:71041881-71041900 None:intergenic 40.0%
GAACGGAGGAAATCAACATA+AGG - chr1.3:71042089-71042108 None:intergenic 40.0%
!! AGACTATTTCTACGACACCA+CGG + chr1.3:71041893-71041912 MS.gene33581:CDS 40.0%
!! TTGAGCTTTGGAGAAGATAG+CGG - chr1.3:71042314-71042333 None:intergenic 40.0%
AAGACAGAAGAAAAGTCCGG+TGG - chr1.3:71041927-71041946 None:intergenic 45.0%
AGTGTGTTGTGGATGAGGTT+GGG - chr1.3:71041793-71041812 None:intergenic 45.0%
CAAGAAGAGGTAGTGTGAAG+AGG + chr1.3:71042042-71042061 MS.gene33581:CDS 45.0%
CTCTTCACACTACCTCTTCT+TGG - chr1.3:71042044-71042063 None:intergenic 45.0%
CTTGGTATCAACGAGTTGCA+AGG - chr1.3:71042026-71042045 None:intergenic 45.0%
GAGGTTGGGAGAGAATTGTA+GGG - chr1.3:71041779-71041798 None:intergenic 45.0%
GCGAAGACAGAAGAAAAGTC+CGG - chr1.3:71041930-71041949 None:intergenic 45.0%
GTTAGAAGGAGACTCTGTGA+TGG - chr1.3:71041994-71042013 None:intergenic 45.0%
TAGTGTGTTGTGGATGAGGT+TGG - chr1.3:71041794-71041813 None:intergenic 45.0%
TCATTTCCTGCATAGAACGG+AGG - chr1.3:71042103-71042122 None:intergenic 45.0%
TGAAGAGGAGGAGAATGATG+AGG - chr1.3:71042282-71042301 None:intergenic 45.0%
TGAGGTTGGGAGAGAATTGT+AGG - chr1.3:71041780-71041799 None:intergenic 45.0%
TGATTTCCTCCGTTCTATGC+AGG + chr1.3:71042094-71042113 MS.gene33581:CDS 45.0%
! AGGAGACTCTGTGATGGAAT+TGG - chr1.3:71041988-71042007 None:intergenic 45.0%
! GATGAAGTGGTAGTGTGTTG+TGG - chr1.3:71041804-71041823 None:intergenic 45.0%
! GGGTGAAGGTGGTATTGAAA+TGG - chr1.3:71041848-71041867 None:intergenic 45.0%
! TGGAAAGTGCAAGGTGATGA+TGG - chr1.3:71041828-71041847 None:intergenic 45.0%
!! AGGTGATGATGGTGATGAAG+TGG - chr1.3:71041817-71041836 None:intergenic 45.0%
!! CAAGGTAGAGTGTCGTTAGA+AGG - chr1.3:71042008-71042027 None:intergenic 45.0%
!! TGGCGTTGGTTATTGAGCTT+TGG - chr1.3:71042326-71042345 None:intergenic 45.0%
ACAGAAGAAAAGTCCGGTGG+TGG - chr1.3:71041924-71041943 None:intergenic 50.0%
ACTTCCCTGAGAAACTACCG+TGG - chr1.3:71042354-71042373 None:intergenic 50.0%
AGAGGAGGAGAATGATGAGG+AGG - chr1.3:71042279-71042298 None:intergenic 50.0%
AGTCTTCTTCTTGGTCGTGG+TGG - chr1.3:71041878-71041897 None:intergenic 50.0%
ATCGCCACGGTAGTTTCTCA+GGG + chr1.3:71042347-71042366 MS.gene33581:CDS 50.0%
CGGTAGTTTCTCAGGGAAGT+TGG + chr1.3:71042354-71042373 MS.gene33581:CDS 50.0%
GAGAAACTACCGTGGCGATA+TGG - chr1.3:71042346-71042365 None:intergenic 50.0%
TAACCAACGCCATATCGCCA+CGG + chr1.3:71042334-71042353 MS.gene33581:CDS 50.0%
TATCGCCACGGTAGTTTCTC+AGG + chr1.3:71042346-71042365 MS.gene33581:CDS 50.0%
! GTGGTAGTGTGTTGTGGATG+AGG - chr1.3:71041798-71041817 None:intergenic 50.0%
! TGTGATGGAATTGGAGCTGC+CGG - chr1.3:71041979-71041998 None:intergenic 50.0%
! TTTGGAGAAGATAGCGGTGG+CGG - chr1.3:71042308-71042327 None:intergenic 50.0%
!! AGCTTTGGAGAAGATAGCGG+TGG - chr1.3:71042311-71042330 None:intergenic 50.0%
AGGTTCTTCTTCTCCTCCCC+CGG + chr1.3:71041957-71041976 MS.gene33581:CDS 55.0%
CTTCTGTCTTCGCGTCTCAG+AGG + chr1.3:71041937-71041956 MS.gene33581:CDS 55.0%
CTTCTTCTTGGTCGTGGTGG+TGG - chr1.3:71041875-71041894 None:intergenic 55.0%
GGAGAATGATGAGGAGGAGG+AGG - chr1.3:71042273-71042292 None:intergenic 55.0%
GGAGGAGAATGATGAGGAGG+AGG - chr1.3:71042276-71042295 None:intergenic 55.0%
TGATGGAATTGGAGCTGCCG+GGG - chr1.3:71041977-71041996 None:intergenic 55.0%
! GTGATGGAATTGGAGCTGCC+GGG - chr1.3:71041978-71041997 None:intergenic 55.0%
CTACCGTGGCGATATGGCGT+TGG - chr1.3:71042340-71042359 None:intergenic 60.0%
GATGGAATTGGAGCTGCCGG+GGG - chr1.3:71041976-71041995 None:intergenic 60.0%
!! CTTCTTGGTCGTGGTGGTGG+TGG - chr1.3:71041872-71041891 None:intergenic 60.0%
!! TAGCGGTGGCGGAGATGAAG+AGG - chr1.3:71042297-71042316 None:intergenic 60.0%
!! TTGGTCGTGGTGGTGGTGGT+GGG - chr1.3:71041868-71041887 None:intergenic 60.0%
CACCACGGAGCTTCCACCAC+CGG + chr1.3:71041908-71041927 MS.gene33581:CDS 65.0%
!! CGGTGGCGGAGATGAAGAGG+AGG - chr1.3:71042294-71042313 None:intergenic 65.0%
!! CTTGGTCGTGGTGGTGGTGG+TGG - chr1.3:71041869-71041888 None:intergenic 65.0%
!! GTGGTGGTGGTGGGTGAAGG+TGG - chr1.3:71041859-71041878 None:intergenic 65.0%
!! GTGGTGGTGGTGGTGGGTGA+AGG - chr1.3:71041862-71041881 None:intergenic 65.0%
GGAATTGGAGCTGCCGGGGG+AGG - chr1.3:71041973-71041992 None:intergenic 70.0%
!! GTCCGGTGGTGGAAGCTCCG+TGG - chr1.3:71041913-71041932 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 71041723 71042409 71041723 ID=MS.gene33581
chr1.3 mRNA 71041723 71042409 71041723 ID=MS.gene33581.t1;Parent=MS.gene33581
chr1.3 exon 71041723 71042409 71041723 ID=MS.gene33581.t1.exon1;Parent=MS.gene33581.t1
chr1.3 CDS 71041723 71042409 71041723 ID=cds.MS.gene33581.t1;Parent=MS.gene33581.t1
Gene Sequence

>MS.gene33581

ATGCCAAAACTATTCTCTAAACAGCTACACCTCTGTTTCTTCAAGCTCAAATACCCTACAATTCTCTCCCAACCTCATCCACAACACACTACCACTTCATCACCATCATCACCTTGCACTTTCCATTTCAATACCACCTTCACCCACCACCACCACCACGACCAAGAAGAAGACTATTTCTACGACACCACGGAGCTTCCACCACCGGACTTTTCTTCTGTCTTCGCGTCTCAGAGGTTCTTCTTCTCCTCCCCCGGCAGCTCCAATTCCATCACAGAGTCTCCTTCTAACGACACTCTACCTTGCAACTCGTTGATACCAAGAAGAGGTAGTGTGAAGAGGGTGCCAAAATACTCTGTAAACCCTTATGTTGATTTCCTCCGTTCTATGCAGGAAATGATTCAATCTCAACAACAAGTGTTAGATGTTACTAATGATTGGGATTATCTTCATGAACTTCTCTTATGCTATCTTGCTCTTAATCCTACGCATACTCACAAGTATATTGTTCAAGCTTTCACTCACCTTCTTGTTGATATTTTATCTTCCTCCTCCTCCTCATCATTCTCCTCCTCTTCATCTCCGCCACCGCTATCTTCTCCAAAGCTCAATAACCAACGCCATATCGCCACGGTAGTTTCTCAGGGAAGTTGGTGTAAAAATATTAAATGTCAAGGTTTTAAATAG
Protein sequence

>MS.gene33581.t1

MPKLFSKQLHLCFFKLKYPTILSQPHPQHTTTSSPSSPCTFHFNTTFTHHHHHDQEEDYFYDTTELPPPDFSSVFASQRFFFSSPGSSNSITESPSNDTLPCNSLIPRRGSVKRVPKYSVNPYVDFLRSMQEMIQSQQQVLDVTNDWDYLHELLLCYLALNPTHTHKYIVQAFTHLLVDILSSSSSSSFSSSSSPPPLSSPKLNNQRHIATVVSQGSWCKNIKCQGFK