AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067556


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067556.t1 MTR_4g084110 97.419 155 4 0 1 155 1 155 6.17e-112 314
MS.gene067556.t1 MTR_5g014260 66.418 134 45 0 22 155 33 166 1.59e-66 200
MS.gene067556.t1 MTR_5g014260 69.892 93 28 0 22 114 33 125 1.21e-43 141
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067556.t1 AT2G35120 77.564 156 34 1 1 155 1 156 9.61e-88 253
MS.gene067556.t1 AT1G32470 58.084 167 57 2 1 155 1 166 5.99e-63 191
MS.gene067556.t1 AT2G35370 65.441 136 47 0 20 155 30 165 1.62e-62 189

Find 32 sgRNAs with CRISPR-Local

Find 98 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACATCAACTCTCCTGTTTC+AGG 0.209182 4.1:-24010075 MS.gene067556:CDS
TTCACTGCCGTTCCCACTTC+TGG 0.241034 4.1:+24010144 None:intergenic
AACTCAAGCCCCTATGAAAA+TGG 0.268193 4.1:-24009883 MS.gene067556:CDS
AGATGGCTTGCAGGCAGTTA+TGG 0.326829 4.1:-24011552 MS.gene067556:CDS
TGATCACGCCCAAGATCATT+TGG 0.350191 4.1:-24010190 MS.gene067556:CDS
GTGAAACAAGGAGATGGTTT+TGG 0.366878 4.1:-24010126 MS.gene067556:CDS
ATCTTCTTCTTCACAGAACT+TGG 0.368009 4.1:+24009792 None:intergenic
CAACATCACCCAAATGATCT+TGG 0.387609 4.1:+24010181 None:intergenic
GATGGCTTGCAGGCAGTTAT+GGG 0.405390 4.1:-24011551 MS.gene067556:CDS
GCTCAGCAACTCTCCTGCTT+TGG 0.435121 4.1:-24010028 MS.gene067556:intron
CCTGAGGTATGATGCTGCTC+TGG 0.483257 4.1:+24011525 None:intergenic
GCAATAAAACTCACCAAAGC+AGG 0.490891 4.1:+24010015 None:intergenic
CATGAATGGGTGAAAGTTGA+CGG 0.492157 4.1:-24010237 MS.gene067556:CDS
AACATCACCCAAATGATCTT+GGG 0.497491 4.1:+24010182 None:intergenic
GATCACGCCCAAGATCATTT+GGG 0.506582 4.1:-24010189 MS.gene067556:CDS
AGTATGCTGATTCTCATGAA+TGG 0.523325 4.1:-24010251 MS.gene067556:CDS
CCAGAGCAGCATCATACCTC+AGG 0.533721 4.1:-24011525 MS.gene067556:CDS
CAAGCCCCTATGAAAATGGA+TGG 0.537218 4.1:-24009879 MS.gene067556:CDS
GTATGCTGATTCTCATGAAT+GGG 0.551627 4.1:-24010250 MS.gene067556:CDS
GACGGAAAATCTGCAACCAT+TGG 0.558598 4.1:-24010219 MS.gene067556:CDS
TCGGCAAGACTATCAATGAC+TGG 0.570070 4.1:+24009768 None:intergenic
TTTCACAGAACCTTCTCTAA+CGG 0.580128 4.1:-24011493 MS.gene067556:intron
TGAATGAATACCGTTAGAGA+AGG 0.619094 4.1:+24011483 None:intergenic
TGGTGCAGTTGAAAGTGTGA+AGG 0.619953 4.1:-24010106 MS.gene067556:CDS
TGAATTGCCAGAAGTGGGAA+CGG 0.630383 4.1:-24010151 MS.gene067556:CDS
GGCGTGATCAGTTATGCCAA+TGG 0.630943 4.1:+24010203 None:intergenic
GTGGGAACGGCAGTGAAACA+AGG 0.631106 4.1:-24010138 MS.gene067556:CDS
ACGGCAGTGAAACAAGGAGA+TGG 0.634473 4.1:-24010132 MS.gene067556:CDS
GTATGTTGAATTGCCAGAAG+TGG 0.646780 4.1:-24010157 MS.gene067556:CDS
TGTGAAAGACAGAGATCCTG+AGG 0.655630 4.1:+24011509 None:intergenic
TATGTTGAATTGCCAGAAGT+GGG 0.663199 4.1:-24010156 MS.gene067556:CDS
AAAGTTGAGATGAGTGACAG+TGG 0.702478 4.1:-24009850 MS.gene067556:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAAGTTAATTATGAATA+AGG + chr4.1:24011340-24011359 None:intergenic 10.0%
!! TAATAATAAAATAAAAAGCG+AGG + chr4.1:24009952-24009971 None:intergenic 15.0%
!! TTAAAATTCAATATGCAAAT+TGG + chr4.1:24010832-24010851 None:intergenic 15.0%
!!! AAAATTTATAATTTGTAGGA+TGG - chr4.1:24010786-24010805 MS.gene067556:intron 15.0%
!!! AACCAAAATTTATAATTTGT+AGG - chr4.1:24010782-24010801 MS.gene067556:intron 15.0%
!!! AGATTTTATTGAGATATTAA+CGG + chr4.1:24010634-24010653 None:intergenic 15.0%
!!! ATCCTACAAATTATAAATTT+TGG + chr4.1:24010787-24010806 None:intergenic 15.0%
!!! TTTTAATATCTTGAAAGTTT+TGG - chr4.1:24010846-24010865 MS.gene067556:intron 15.0%
!! AAAAATGTAACAAACAACAT+AGG + chr4.1:24010263-24010282 None:intergenic 20.0%
!! AGATCAAGTTCAAAATAAAT+TGG + chr4.1:24010081-24010100 None:intergenic 20.0%
!! ATATGTAAGTAACATATACT+AGG - chr4.1:24010184-24010203 MS.gene067556:CDS 20.0%
!!! AAATGTTTGAATAGCTTTAT+AGG + chr4.1:24010533-24010552 None:intergenic 20.0%
!!! ATTTTGTTCTAACTATTATC+TGG - chr4.1:24010666-24010685 MS.gene067556:intron 20.0%
! ATGCATATTTCGAAATTAAG+TGG - chr4.1:24010340-24010359 MS.gene067556:intron 25.0%
! CTTACAAATGAACAATGATA+TGG + chr4.1:24010745-24010764 None:intergenic 25.0%
! TAAAACTTAAAGTGAACGAT+GGG - chr4.1:24010714-24010733 MS.gene067556:intron 25.0%
! TAGGAAAACATAAAAACACT+TGG + chr4.1:24011409-24011428 None:intergenic 25.0%
! TATTATCTGGTACATCATAT+TGG - chr4.1:24010679-24010698 MS.gene067556:intron 25.0%
! TCAAGTTCAAAATAAATTGG+AGG + chr4.1:24010078-24010097 None:intergenic 25.0%
! TTAAAACTTAAAGTGAACGA+TGG - chr4.1:24010713-24010732 MS.gene067556:intron 25.0%
!! AATTATCCATCCATTTTCAT+AGG + chr4.1:24011460-24011479 None:intergenic 25.0%
!! AGAATATTCCATTTCCATTT+TGG + chr4.1:24010217-24010236 None:intergenic 25.0%
!! ATTATCCATCCATTTTCATA+GGG + chr4.1:24011459-24011478 None:intergenic 25.0%
!! TAACGGTTTAATTGATTTCA+AGG + chr4.1:24010617-24010636 None:intergenic 25.0%
!!! AAGTTCGTTTTTGCTTTTAA+AGG - chr4.1:24010382-24010401 MS.gene067556:intron 25.0%
!!! GAATAGCTTTATAGGTAAAT+TGG + chr4.1:24010525-24010544 None:intergenic 25.0%
AATAAATTGGAGGTAGGTTA+AGG + chr4.1:24010068-24010087 None:intergenic 30.0%
AATAATCCAAATTACTCTCG+AGG - chr4.1:24010556-24010575 MS.gene067556:intron 30.0%
AATTGAAAGAATAGATCGTC+CGG + chr4.1:24010147-24010166 None:intergenic 30.0%
ATAACTCGGTCAAAAGAAAT+TGG + chr4.1:24010497-24010516 None:intergenic 30.0%
CAATTGAACAAGTAGCATAT+TGG - chr4.1:24010957-24010976 MS.gene067556:intron 30.0%
GCTAAATTCCAAAATGGAAA+TGG - chr4.1:24010206-24010225 MS.gene067556:CDS 30.0%
GTAAATTGGTGCATATAACT+CGG + chr4.1:24010511-24010530 None:intergenic 30.0%
GTTCAAAATAAATTGGAGGT+AGG + chr4.1:24010074-24010093 None:intergenic 30.0%
TACTAGGCTAAATTCCAAAA+TGG - chr4.1:24010200-24010219 MS.gene067556:CDS 30.0%
! ATTGAAACCAACATTTTGCA+AGG - chr4.1:24011007-24011026 MS.gene067556:intron 30.0%
! CAATATGCTACTTGTTCAAT+TGG + chr4.1:24010959-24010978 None:intergenic 30.0%
! TTATCCATCCATTTTCATAG+GGG + chr4.1:24011458-24011477 None:intergenic 30.0%
! TTTTGAACTTGATCTGTATG+TGG - chr4.1:24010086-24010105 MS.gene067556:CDS 30.0%
!! AATTTAGCTTGTTAGCACTT+TGG - chr4.1:24010419-24010438 MS.gene067556:intron 30.0%
!! ATTTAGCTTGTTAGCACTTT+GGG - chr4.1:24010420-24010439 MS.gene067556:intron 30.0%
!! TAACAAACTGTTGGTTTGTT+TGG - chr4.1:24010449-24010468 MS.gene067556:intron 30.0%
!! TTTCCTATTTTTCTTCGTGT+AGG - chr4.1:24011422-24011441 MS.gene067556:intron 30.0%
AACATCACCCAAATGATCTT+GGG + chr4.1:24011151-24011170 None:intergenic 35.0%
AAGATCCAGATTCCAGATAT+TGG + chr4.1:24009926-24009945 None:intergenic 35.0%
ATCTTCTTCTTCACAGAACT+TGG + chr4.1:24011541-24011560 None:intergenic 35.0%
ATGTTTCCTCGAGAGTAATT+TGG + chr4.1:24010565-24010584 None:intergenic 35.0%
CATACAACCTTGCAAAATGT+TGG + chr4.1:24011017-24011036 None:intergenic 35.0%
CATGTTGTTGATCCAATATC+TGG - chr4.1:24009911-24009930 MS.gene067556:intron 35.0%
TATGTTGAATTGCCAGAAGT+GGG - chr4.1:24011174-24011193 MS.gene067556:intron 35.0%
TGAATGAATACCGTTAGAGA+AGG + chr4.1:24009850-24009869 None:intergenic 35.0%
TGACCTACACGAAGAAAAAT+AGG + chr4.1:24011428-24011447 None:intergenic 35.0%
TTTCACAGAACCTTCTCTAA+CGG - chr4.1:24009837-24009856 MS.gene067556:CDS 35.0%
! CGGTTTAATTGATTTCAAGG+AGG + chr4.1:24010614-24010633 None:intergenic 35.0%
! TTGATCCAATATCTGGAATC+TGG - chr4.1:24009918-24009937 MS.gene067556:intron 35.0%
!! AGTATGCTGATTCTCATGAA+TGG - chr4.1:24011079-24011098 MS.gene067556:intron 35.0%
!! GTATGCTGATTCTCATGAAT+GGG - chr4.1:24011080-24011099 MS.gene067556:intron 35.0%
!! TCAATCACTTTTCCTGAAAC+AGG + chr4.1:24011270-24011289 None:intergenic 35.0%
!! TTTAGCTTGTTAGCACTTTG+GGG - chr4.1:24010421-24010440 MS.gene067556:intron 35.0%
AAAGTTGAGATGAGTGACAG+TGG - chr4.1:24011480-24011499 MS.gene067556:intron 40.0%
AACTCAAGCCCCTATGAAAA+TGG - chr4.1:24011447-24011466 MS.gene067556:intron 40.0%
ATTGCCTTCATATACGTTCG+TGG - chr4.1:24009987-24010006 MS.gene067556:intron 40.0%
CAACATCACCCAAATGATCT+TGG + chr4.1:24011152-24011171 None:intergenic 40.0%
CATGAATGGGTGAAAGTTGA+CGG - chr4.1:24011093-24011112 MS.gene067556:intron 40.0%
GAGGTAGGTTAAGGCTATAT+CGG + chr4.1:24010059-24010078 None:intergenic 40.0%
GCAATAAAACTCACCAAAGC+AGG + chr4.1:24011318-24011337 None:intergenic 40.0%
GGGGGAAAATAACAAACTGT+TGG - chr4.1:24010440-24010459 MS.gene067556:intron 40.0%
GTATGTTGAATTGCCAGAAG+TGG - chr4.1:24011173-24011192 MS.gene067556:intron 40.0%
TGAATGGTGTAGTGCACTTT+CGG + chr4.1:24010020-24010039 None:intergenic 40.0%
TTGCCTTCATATACGTTCGT+GGG - chr4.1:24009988-24010007 MS.gene067556:intron 40.0%
! GATCGCCGTATATCAACTTT+TGG - chr4.1:24010119-24010138 MS.gene067556:CDS 40.0%
! GTGAAACAAGGAGATGGTTT+TGG - chr4.1:24011204-24011223 MS.gene067556:intron 40.0%
!! CGGCACCAAAAGTTGATATA+CGG + chr4.1:24010127-24010146 None:intergenic 40.0%
!! CGTATATCAACTTTTGGTGC+CGG - chr4.1:24010125-24010144 MS.gene067556:CDS 40.0%
!! TTAGCTTGTTAGCACTTTGG+GGG - chr4.1:24010422-24010441 MS.gene067556:intron 40.0%
CAAGCCCCTATGAAAATGGA+TGG - chr4.1:24011451-24011470 MS.gene067556:intron 45.0%
CAGATGAGAAGACAGAGACT+CGG + chr4.1:24010879-24010898 None:intergenic 45.0%
CTTCATATACGTTCGTGGGA+AGG - chr4.1:24009992-24010011 MS.gene067556:intron 45.0%
CTTCCCACGAACGTATATGA+AGG + chr4.1:24009994-24010013 None:intergenic 45.0%
GACATCAACTCTCCTGTTTC+AGG - chr4.1:24011255-24011274 MS.gene067556:intron 45.0%
GACGGAAAATCTGCAACCAT+TGG - chr4.1:24011111-24011130 MS.gene067556:intron 45.0%
GATCACGCCCAAGATCATTT+GGG - chr4.1:24011141-24011160 MS.gene067556:intron 45.0%
GTAGGTTAAGGCTATATCGG+TGG + chr4.1:24010056-24010075 None:intergenic 45.0%
TGAATTGCCAGAAGTGGGAA+CGG - chr4.1:24011179-24011198 MS.gene067556:intron 45.0%
TGATCACGCCCAAGATCATT+TGG - chr4.1:24011140-24011159 MS.gene067556:intron 45.0%
TGTGAAAGACAGAGATCCTG+AGG + chr4.1:24009824-24009843 None:intergenic 45.0%
! TGGTGCAGTTGAAAGTGTGA+AGG - chr4.1:24011224-24011243 MS.gene067556:intron 45.0%
ACGGCAGTGAAACAAGGAGA+TGG - chr4.1:24011198-24011217 MS.gene067556:intron 50.0%
GGCGTGATCAGTTATGCCAA+TGG + chr4.1:24011130-24011149 None:intergenic 50.0%
GGTTAAGGCTATATCGGTGG+TGG + chr4.1:24010053-24010072 None:intergenic 50.0%
! TAAGGCTATATCGGTGGTGG+TGG + chr4.1:24010050-24010069 None:intergenic 50.0%
CCAGAGCAGCATCATACCTC+AGG - chr4.1:24009805-24009824 MS.gene067556:CDS 55.0%
CCTGAGGTATGATGCTGCTC+TGG + chr4.1:24009808-24009827 None:intergenic 55.0%
GCTCAGCAACTCTCCTGCTT+TGG - chr4.1:24011302-24011321 MS.gene067556:intron 55.0%
GTGGGAACGGCAGTGAAACA+AGG - chr4.1:24011192-24011211 MS.gene067556:intron 55.0%
TTCACTGCCGTTCCCACTTC+TGG + chr4.1:24011189-24011208 None:intergenic 55.0%
!! TGGTGGTGGTGGTGACTGAA+TGG + chr4.1:24010036-24010055 None:intergenic 55.0%
!! GGCTATATCGGTGGTGGTGG+TGG + chr4.1:24010047-24010066 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 24009780 24011572 24009780 ID=MS.gene067556
chr4.1 mRNA 24009780 24011572 24009780 ID=MS.gene067556.t1;Parent=MS.gene067556
chr4.1 exon 24011494 24011572 24011494 ID=MS.gene067556.t1.exon1;Parent=MS.gene067556.t1
chr4.1 CDS 24011494 24011572 24011494 ID=cds.MS.gene067556.t1;Parent=MS.gene067556.t1
chr4.1 exon 24010029 24010288 24010029 ID=MS.gene067556.t1.exon2;Parent=MS.gene067556.t1
chr4.1 CDS 24010029 24010288 24010029 ID=cds.MS.gene067556.t1;Parent=MS.gene067556.t1
chr4.1 exon 24009780 24009908 24009780 ID=MS.gene067556.t1.exon3;Parent=MS.gene067556.t1
chr4.1 CDS 24009780 24009908 24009780 ID=cds.MS.gene067556.t1;Parent=MS.gene067556.t1
Gene Sequence

>MS.gene067556

ATGGCTTGCAGGCAGTTATGGGCATCCAGAGCAGCATCATACCTCAGGATCTCTGTCTTTCACAGAACCTTCTCTAACGGTATTCATTCATTCTTCTCTCTTTCTTTGATCTGTTAATTTTATTTCATGTGCATGTTGTTGATCCAATATCTGGAATCTGGATCTTGATCCTCGCTTTTTATTTTATTATTATTATTATGTTAATTTATTGCCTTCATATACGTTCGTGGGAAGGATCCGAAAGTGCACTACACCATTCAGTCACCACCACCACCACCGATATAGCCTTAACCTACCTCCAATTTATTTTGAACTTGATCTGTATGTGGTTCGTATTTTGATCGCCGTATATCAACTTTTGGTGCCGGACGATCTATTCTTTCAATTTTGTTTTTTTGTTAACAATATGTAAGTAACATATACTAGGCTAAATTCCAAAATGGAAATGGAATATTCTTTCATCTGAATCGTTATTTTGTACCTATGTTGTTTGTTACATTTTTAATATTTATGCTTTAATACTATCACTTTACAAAGAAAGACATTTTCATTCTTTTTTAATGCATATTTCGAAATTAAGTGGAGAATCACTTTTGAGTGTTAAGTTCGTTTTTGCTTTTAAAGGTGAATTTTTCAACAAATTTAGCTTGTTAGCACTTTGGGGGAAAATAACAAACTGTTGGTTTGTTTGGCTAAAATACATTTTAGACACAGCCAATTTCTTTTGACCGAGTTATATGCACCAATTTACCTATAAAGCTATTCAAACATTTCTTAATAATCCAAATTACTCTCGAGGAAACATTACTCATTGTTTTTCAAAGTCATTTTCCTCCTTGAAATCAATTAAACCGTTAATATCTCAATAAAATCTTTTAGTTGCTTAATTTTGTTCTAACTATTATCTGGTACATCATATTGGAGCTTAATGTGTTAAAACTTAAAGTGAACGATGGGATAATCCATATCATTGTTCATTTGTAAGCATTTTCGAAAAGAATTAACCAAAATTTATAATTTGTAGGATGGAATGAAAACTCAAAATATCTCCAATTTGCATATTGAATTTTAATATCTTGAAAGTTTTGGTGATTTTCCGAGTCTCTGTCTTCTCATCTGCAGACTACATGATAATCATCATCTGCAGACTACTTGATAATCATAAGTGTGAAATATCCAATTGAACAAGTAGCATATTGGAGATGATTTTTTGTTGTTGTTATTGTTATTGAAACCAACATTTTGCAAGGTTGTATGCATAATGAATTCAAATTGTCAATACAGTTCTGAACAATCTGAAGTATGCTGATTCTCATGAATGGGTGAAAGTTGACGGAAAATCTGCAACCATTGGCATAACTGATCACGCCCAAGATCATTTGGGTGATGTTGTGTATGTTGAATTGCCAGAAGTGGGAACGGCAGTGAAACAAGGAGATGGTTTTGGTGCAGTTGAAAGTGTGAAGGCAACTAGTGACATCAACTCTCCTGTTTCAGGAAAAGTGATTGAAGTTAATGAAGAGCTCAGCAACTCTCCTGCTTTGGTGAGTTTTATTGCCTTATTCATAATTAACTTTTATGATAGAATATGTGTGCTGAAGAATCACAACATTCATTTTTTATCTGCCAAGTGTTTTTATGTTTTCCTATTTTTCTTCGTGTAGGTCAACTCAAGCCCCTATGAAAATGGATGGATAATTAAAGTTGAGATGAGTGACAGTGGCGAACTTGACAAATTGATGAATTCAGAAAAGTATACCAAGTTCTGTGAAGAAGAAGATTCCAGTCATTGA

Protein sequence

>MS.gene067556.t1

MACRQLWASRAASYLRISVFHRTFSNVLNNLKYADSHEWVKVDGKSATIGITDHAQDHLGDVVYVELPEVGTAVKQGDGFGAVESVKATSDINSPVSGKVIEVNEELSNSPALVNSSPYENGWIIKVEMSDSGELDKLMNSEKYTKFCEEEDSSH