AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81123

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81123.t1 MTR_2g061420 99.231 130 1 0 1 130 1 130 9.12e-89 253
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81123.t1 AT2G44360 80.172 116 23 0 4 119 3 118 2.11e-61 185

Find 32 sgRNAs with CRISPR-Local

Find 113 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTCCAATCTTCTCCTTC+AGG 0.289607 2.3:-32525711 MS.gene81123:intron
GGATAGACTATCAGCAAAAT+TGG 0.325700 2.3:-32523969 MS.gene81123:CDS
AATTGAAACTCTTGGATTAG+AGG 0.328866 2.3:-32524172 MS.gene81123:CDS
CGTTCTAAAATTGAAACTCT+TGG 0.363744 2.3:-32524180 MS.gene81123:CDS
AAGCTGTTTGGTTGACTTTG+AGG 0.404571 2.3:+32524137 None:intergenic
AACCACCTCGTCAAGCTGTT+TGG 0.414993 2.3:+32524125 None:intergenic
AGCTGAAAGAGCTGGGCATC+GGG 0.435359 2.3:+32525734 None:intergenic
TGGAGAGAAGCTGAAAGAGC+TGG 0.456074 2.3:+32525726 None:intergenic
AAGAACCTGAAGGAGAAGAT+TGG 0.461431 2.3:+32525706 None:intergenic
CGCATTCGCATGGCCGAGGA+AGG 0.466052 2.3:-32525761 None:intergenic
AGCTGTTTGGTTGACTTTGA+GGG 0.476036 2.3:+32524138 None:intergenic
GGCATCGGGTTTCCCTTCCT+CGG 0.491168 2.3:+32525748 None:intergenic
CAATCGCATTCGCATGGCCG+AGG 0.498216 2.3:-32525765 None:intergenic
TGTTTGGGTGTTGATGTCTC+CGG 0.512462 2.3:+32523811 None:intergenic
AAGCTGAAAGAGCTGGGCAT+CGG 0.521575 2.3:+32525733 None:intergenic
CTCAAGAGGGACTGCACTTG+AGG 0.526243 2.3:+32523905 None:intergenic
GTTGGAAATAGCAAAGGAGT+TGG 0.526515 2.3:-32523990 MS.gene81123:CDS
GTTTGGGTGTTGATGTCTCC+GGG 0.527968 2.3:+32523812 None:intergenic
TCGGAGTTAGCAGTGATGAC+TGG 0.528868 2.3:+32523860 None:intergenic
TGTAAATTTACGTCTTTCCT+CGG 0.529981 2.3:+32523841 None:intergenic
GGAGAGAAGCTGAAAGAGCT+GGG 0.555323 2.3:+32525727 None:intergenic
CGTAAATTTACAGCATCTCC+CGG 0.567732 2.3:-32523830 MS.gene81123:CDS
TACACAGTTGGAAATAGCAA+AGG 0.568129 2.3:-32523996 MS.gene81123:intron
CACTTGAGGATCAGTAGCCA+TGG 0.594675 2.3:+32523919 None:intergenic
CATCAGCTGTACTACTCAAG+AGG 0.595596 2.3:+32523891 None:intergenic
GCATTCGCATGGCCGAGGAA+GGG 0.624487 2.3:-32525760 None:intergenic
TGAGTAGTACAGCTGATGTG+TGG 0.643244 2.3:-32523886 MS.gene81123:CDS
TTGAGGATCAGTAGCCATGG+TGG 0.646946 2.3:+32523922 None:intergenic
ATCAGCTGTACTACTCAAGA+GGG 0.672370 2.3:+32523892 None:intergenic
GTCAACCAAACAGCTTGACG+AGG 0.675676 2.3:-32524130 MS.gene81123:intron
TGAGATGATATCATCCACCA+TGG 0.693620 2.3:-32523936 MS.gene81123:CDS
AGTCATCACTGCTAACTCCG+AGG 0.719423 2.3:-32523858 MS.gene81123:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACAAAACAAGTAATTAAAA+AGG + chr2.3:32525526-32525545 None:intergenic 15.0%
!! GTTAATATATATAGCAAAAT+TGG + chr2.3:32525279-32525298 None:intergenic 15.0%
!! TACTATTATTAAACAATTAC+AGG + chr2.3:32523999-32524018 None:intergenic 15.0%
!!! AATTATTGGATTTTTAGAAA+TGG + chr2.3:32524435-32524454 None:intergenic 15.0%
!!! TGTTTAATTATGAAAACTTT+TGG - chr2.3:32524607-32524626 MS.gene81123:intron 15.0%
!!! TTGTTTGTAATTTTTCTTAA+GGG + chr2.3:32524185-32524204 None:intergenic 15.0%
!!! TTTCTAAAAATCCAATAATT+TGG - chr2.3:32524435-32524454 MS.gene81123:intron 15.0%
!!! TTTGTTTGTAATTTTTCTTA+AGG + chr2.3:32524186-32524205 None:intergenic 15.0%
!! AAAAACATATTGTTAAGAGA+CGG + chr2.3:32524673-32524692 None:intergenic 20.0%
!! AAAAATAAACAATTCTCCAT+AGG + chr2.3:32524289-32524308 None:intergenic 20.0%
!! AAAATAAACAATTCTCCATA+GGG + chr2.3:32524288-32524307 None:intergenic 20.0%
!! AAATATGAATAAAGACAACA+AGG + chr2.3:32524337-32524356 None:intergenic 20.0%
!! TAAAAAAAGTAGACTAATGA+AGG + chr2.3:32524822-32524841 None:intergenic 20.0%
!!! AAAGTATTAAAATCTTTCAG+GGG + chr2.3:32524155-32524174 None:intergenic 20.0%
!!! CAAAGTATTAAAATCTTTCA+GGG + chr2.3:32524156-32524175 None:intergenic 20.0%
!!! TCAAAGTATTAAAATCTTTC+AGG + chr2.3:32524157-32524176 None:intergenic 20.0%
!!! TGTTTGTAATTTTTCTTAAG+GGG + chr2.3:32524184-32524203 None:intergenic 20.0%
!!! TTAACAATATGTTTTTTACC+AGG - chr2.3:32524677-32524696 MS.gene81123:intron 20.0%
!!! TTTTTTAATTCTTCTTTTGC+TGG - chr2.3:32524304-32524323 MS.gene81123:intron 20.0%
! AACTGATAAAACAATAATCG+TGG - chr2.3:32524030-32524049 MS.gene81123:intron 25.0%
! AATAATCAACAGATAGATCT+TGG + chr2.3:32523899-32523918 None:intergenic 25.0%
! CCTAATACTAGAATCATTTA+CGG + chr2.3:32525178-32525197 None:intergenic 25.0%
! CTGAGAATTTGTATTGTTAA+TGG - chr2.3:32524920-32524939 MS.gene81123:intron 25.0%
! TATCTAATGATAACATCTGT+AGG - chr2.3:32525304-32525323 MS.gene81123:intron 25.0%
! TTAACAATACAAATTCTCAG+TGG + chr2.3:32524920-32524939 None:intergenic 25.0%
! TTGGTAAGAAATTAAACTAC+TGG + chr2.3:32525260-32525279 None:intergenic 25.0%
!!! ACAACAAGGATTTTTAGAAA+TGG + chr2.3:32524379-32524398 None:intergenic 25.0%
!!! GAATATGCGATTTTAAGTTT+TGG - chr2.3:32524247-32524266 MS.gene81123:intron 25.0%
AATGAAGATCATAGACTACT+AGG + chr2.3:32525046-32525065 None:intergenic 30.0%
AGTATTACAACAAAAAGCTG+TGG + chr2.3:32524880-32524899 None:intergenic 30.0%
ATCGTGGAGACTTATTATTA+AGG - chr2.3:32524046-32524065 MS.gene81123:intron 30.0%
CCGTAAATGATTCTAGTATT+AGG - chr2.3:32525175-32525194 MS.gene81123:intron 30.0%
GTTGTAATACTAGTGATCTT+TGG - chr2.3:32524889-32524908 MS.gene81123:intron 30.0%
TGAAATTGAAAAGAACCTGA+AGG + chr2.3:32523849-32523868 None:intergenic 30.0%
TGCAGTATAGTACTTTCTAA+AGG - chr2.3:32524497-32524516 MS.gene81123:intron 30.0%
TGTAAATTTACGTCTTTCCT+CGG + chr2.3:32525704-32525723 None:intergenic 30.0%
TTCTTGTCTTAAAGCCTAAA+AGG - chr2.3:32524972-32524991 MS.gene81123:intron 30.0%
TTTCATGTATTTGCAACAGA+TGG - chr2.3:32524554-32524573 MS.gene81123:intron 30.0%
! AATTGAAACTCTTGGATTAG+AGG - chr2.3:32525370-32525389 MS.gene81123:intron 30.0%
!! CGTTCTAAAATTGAAACTCT+TGG - chr2.3:32525362-32525381 MS.gene81123:intron 30.0%
!! TTTTGATCAGTGAGTTTTGT+TGG + chr2.3:32524087-32524106 None:intergenic 30.0%
!!! ACTTGTTTTGTTTACACAGT+TGG - chr2.3:32525534-32525553 MS.gene81123:intron 30.0%
!!! CTGTGTTTGGTTTTTAACTT+TGG - chr2.3:32524725-32524744 MS.gene81123:intron 30.0%
AAAGGACAAATACAGTTGTC+TGG - chr2.3:32524515-32524534 MS.gene81123:intron 35.0%
AAATCTTTCAGGGGTCAAAT+TGG + chr2.3:32524146-32524165 None:intergenic 35.0%
AATCTTTCAGGGGTCAAATT+GGG + chr2.3:32524145-32524164 None:intergenic 35.0%
AGGATAACCGATAATTAGAC+CGG + chr2.3:32524802-32524821 None:intergenic 35.0%
ATTGCATGTCTCTAATCTGA+TGG - chr2.3:32525477-32525496 MS.gene81123:intron 35.0%
ATTTACGGAATCAGGATCAA+TGG + chr2.3:32525163-32525182 None:intergenic 35.0%
CGATATTTGTTCATCCAGTT+CGG - chr2.3:32524118-32524137 MS.gene81123:intron 35.0%
CTAGAATCATTTACGGAATC+AGG + chr2.3:32525171-32525190 None:intergenic 35.0%
GGATAGACTATCAGCAAAAT+TGG - chr2.3:32525573-32525592 MS.gene81123:intron 35.0%
GTGGAGACTTATTATTAAGG+AGG - chr2.3:32524049-32524068 MS.gene81123:intron 35.0%
TAAACAATTCTCCATAGGGA+AGG + chr2.3:32524284-32524303 None:intergenic 35.0%
TACACAGTTGGAAATAGCAA+AGG - chr2.3:32525546-32525565 MS.gene81123:intron 35.0%
TCACTACACAGCCAAATTAT+TGG + chr2.3:32524449-32524468 None:intergenic 35.0%
TGAGAAGACGAATATAAGTG+TGG + chr2.3:32524846-32524865 None:intergenic 35.0%
! AACAATCAATGTGTTTTCCC+CGG - chr2.3:32524780-32524799 MS.gene81123:intron 35.0%
! AGAGTTTTCTGCATCTGTTT+GGG + chr2.3:32525749-32525768 None:intergenic 35.0%
! GTTCATATACTGATTGCATC+AGG - chr2.3:32523951-32523970 MS.gene81123:CDS 35.0%
! TAGAGTTTTCTGCATCTGTT+TGG + chr2.3:32525750-32525769 None:intergenic 35.0%
! TTTACCAGGCTATTGATTGA+TGG - chr2.3:32524691-32524710 MS.gene81123:intron 35.0%
AAGAACCTGAAGGAGAAGAT+TGG + chr2.3:32523839-32523858 None:intergenic 40.0%
AATCGCATATTCACGCTAGT+TGG + chr2.3:32524239-32524258 None:intergenic 40.0%
ACATGAAAAGTGACATCGCA+AGG + chr2.3:32524542-32524561 None:intergenic 40.0%
ACTATACTGCATGATTGCAC+AGG + chr2.3:32524488-32524507 None:intergenic 40.0%
ATCAGCTGTACTACTCAAGA+GGG + chr2.3:32525653-32525672 None:intergenic 40.0%
CAATCCATCAATCAATAGCC+TGG + chr2.3:32524698-32524717 None:intergenic 40.0%
CATGAAAAGTGACATCGCAA+GGG + chr2.3:32524541-32524560 None:intergenic 40.0%
CGTAAATTTACAGCATCTCC+CGG - chr2.3:32525712-32525731 MS.gene81123:CDS 40.0%
CTATACTGCATGATTGCACA+GGG + chr2.3:32524487-32524506 None:intergenic 40.0%
GATAACCGATAATTAGACCG+GGG + chr2.3:32524800-32524819 None:intergenic 40.0%
GGATAACCGATAATTAGACC+GGG + chr2.3:32524801-32524820 None:intergenic 40.0%
GGATTGATATGAGCTGTGTT+TGG - chr2.3:32524712-32524731 MS.gene81123:intron 40.0%
GTTGGAAATAGCAAAGGAGT+TGG - chr2.3:32525552-32525571 MS.gene81123:intron 40.0%
TGAGATGATATCATCCACCA+TGG - chr2.3:32525606-32525625 MS.gene81123:intron 40.0%
TTATGCATTGTCCTTCCCTA+TGG - chr2.3:32524270-32524289 MS.gene81123:intron 40.0%
! AAGCTGTTTGGTTGACTTTG+AGG + chr2.3:32525408-32525427 None:intergenic 40.0%
! AGCTGTTTGGTTGACTTTGA+GGG + chr2.3:32525407-32525426 None:intergenic 40.0%
! AGGGCTGGATTAATGTTTTC+CGG - chr2.3:32525003-32525022 MS.gene81123:intron 40.0%
! GTTTTCCCCGGTCTAATTAT+CGG - chr2.3:32524792-32524811 MS.gene81123:intron 40.0%
!!! GGCATGTGTTATTTTCAACC+CGG + chr2.3:32525025-32525044 None:intergenic 40.0%
AAGCCTAAAAGGCCTAAGAG+AGG - chr2.3:32524983-32525002 MS.gene81123:intron 45.0%
AGCCTAAAAGGCCTAAGAGA+GGG - chr2.3:32524984-32525003 MS.gene81123:intron 45.0%
CAGGATCAATGGAAACAGAG+TGG + chr2.3:32525152-32525171 None:intergenic 45.0%
CATCAGCTGTACTACTCAAG+AGG + chr2.3:32525654-32525673 None:intergenic 45.0%
CATTAATCCAGCCCTCTCTT+AGG + chr2.3:32524998-32525017 None:intergenic 45.0%
GACTAAGCATGCAGTTTCTC+TGG - chr2.3:32525228-32525247 MS.gene81123:intron 45.0%
GTTAATGGCTCATAGTCTGC+AGG - chr2.3:32524935-32524954 MS.gene81123:intron 45.0%
TCTCTCCAATCTTCTCCTTC+AGG - chr2.3:32523831-32523850 MS.gene81123:CDS 45.0%
TGAGTAGTACAGCTGATGTG+TGG - chr2.3:32525656-32525675 MS.gene81123:intron 45.0%
! GGGCTGGATTAATGTTTTCC+GGG - chr2.3:32525004-32525023 MS.gene81123:intron 45.0%
!! TGTTTGGGTGTTGATGTCTC+CGG + chr2.3:32525734-32525753 None:intergenic 45.0%
!! ATAAATAAATAAATAAATGA+TGG + chr2.3:32523872-32523891 None:intergenic 5.0%
AACCAAACAGCTTGACGAGG+TGG - chr2.3:32525415-32525434 MS.gene81123:intron 50.0%
AACCACCTCGTCAAGCTGTT+TGG + chr2.3:32525420-32525439 None:intergenic 50.0%
AAGCTGAAAGAGCTGGGCAT+CGG + chr2.3:32523812-32523831 None:intergenic 50.0%
AGTCATCACTGCTAACTCCG+AGG - chr2.3:32525684-32525703 MS.gene81123:intron 50.0%
CACTTGAGGATCAGTAGCCA+TGG + chr2.3:32525626-32525645 None:intergenic 50.0%
GCTCATAGTCTGCAGGATAG+TGG - chr2.3:32524942-32524961 MS.gene81123:intron 50.0%
GGAGAGAAGCTGAAAGAGCT+GGG + chr2.3:32523818-32523837 None:intergenic 50.0%
GTCAACCAAACAGCTTGACG+AGG - chr2.3:32525412-32525431 MS.gene81123:intron 50.0%
TAAAAGGCCTAAGAGAGGGC+TGG - chr2.3:32524988-32525007 MS.gene81123:intron 50.0%
TCGGAGTTAGCAGTGATGAC+TGG + chr2.3:32525685-32525704 None:intergenic 50.0%
TGCACAGGGATGAACTGTAG+TGG + chr2.3:32524473-32524492 None:intergenic 50.0%
TGGAGAGAAGCTGAAAGAGC+TGG + chr2.3:32523819-32523838 None:intergenic 50.0%
TTGAGGATCAGTAGCCATGG+TGG + chr2.3:32525623-32525642 None:intergenic 50.0%
! AGCCCTCTCTTAGGCCTTTT+AGG + chr2.3:32524989-32525008 None:intergenic 50.0%
!! GTTTGGGTGTTGATGTCTCC+GGG + chr2.3:32525733-32525752 None:intergenic 50.0%
AGCTGAAAGAGCTGGGCATC+GGG + chr2.3:32523811-32523830 None:intergenic 55.0%
CTCAAGAGGGACTGCACTTG+AGG + chr2.3:32525640-32525659 None:intergenic 55.0%
GGGTCAAATTGGGACCGAAC+TGG + chr2.3:32524135-32524154 None:intergenic 55.0%
! GGCATCGGGTTTCCCTTCCT+CGG + chr2.3:32523797-32523816 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 32523790 32525774 32523790 ID=MS.gene81123
chr2.3 mRNA 32523790 32525774 32523790 ID=MS.gene81123.t1;Parent=MS.gene81123
chr2.3 exon 32525712 32525774 32525712 ID=MS.gene81123.t1.exon1;Parent=MS.gene81123.t1
chr2.3 CDS 32525712 32525774 32525712 ID=cds.MS.gene81123.t1;Parent=MS.gene81123.t1
chr2.3 exon 32524131 32524238 32524131 ID=MS.gene81123.t1.exon2;Parent=MS.gene81123.t1
chr2.3 CDS 32524131 32524238 32524131 ID=cds.MS.gene81123.t1;Parent=MS.gene81123.t1
chr2.3 exon 32523790 32524011 32523790 ID=MS.gene81123.t1.exon3;Parent=MS.gene81123.t1
chr2.3 CDS 32523790 32524011 32523790 ID=cds.MS.gene81123.t1;Parent=MS.gene81123.t1
Gene Sequence

>MS.gene81123

ATGGCCGAGGAAGGGAAACCCGATGCCCAGCTCTTTCAGCTTCTCTCCAATCTTCTCCTTCAGGTTCTTTTCAATTTCACCATCATTTATTTATTTATTTATTTTTCCAAGATCTATCTGTTGATTATTGTGTATCAATTTAATGCGCAAACTTCAGTTTTGTTCATATACTGATTGCATCAGGAGTATTTATGTATGTATGTTTTCCTGTAATTGTTTAATAATAGTAGAATTTGAACAAACTGATAAAACAATAATCGTGGAGACTTATTATTAAGGAGGATGTTGTAAATTCCAACAAAACTCACTGATCAAAACAAGAACAAGACGATATTTGTTCATCCAGTTCGGTCCCAATTTGACCCCTGAAAGATTTTAATACTTTGAATAACCCCTTAAGAAAAATTACAAACAAAAACTTGACTTGTATTGTTGTGAGTTACGAGCCAACTAGCGTGAATATGCGATTTTAAGTTTTGGTTATGCATTGTCCTTCCCTATGGAGAATTGTTTATTTTTTAATTCTTCTTTTGCTGGCACATTCACTTGTTGTCTTTATTCATATTTACTTGAATTTGTGATAGCTCCATTTCTAAAAATCCTTGTTGTCTTTATTCATATTTACTTGAATTTGTGATAGCTCCATTTCTAAAAATCCAATAATTTGGCTGTGTAGTGATCCACTACAGTTCATCCCTGTGCAATCATGCAGTATAGTACTTTCTAAAGGACAAATACAGTTGTCTGGCCCTTGCGATGTCACTTTTCATGTATTTGCAACAGATGGCTGCATGCTTTATCGTGAAGTTGTTGCTAATGTTTAATTATGAAAACTTTTGGACGACACAATAGAGTAAACAAAACAGTAAAGTTTGAATATCCGTCTCTTAACAATATGTTTTTTACCAGGCTATTGATTGATGGATTGATATGAGCTGTGTTTGGTTTTTAACTTTGGAGATGAATGAACAATAAGAGAGTATATCTTGCAACAATCAATGTGTTTTCCCCGGTCTAATTATCGGTTATCCTTCATTAGTCTACTTTTTTTAACCACACTTATATTCGTCTTCTCACATTAAAAAATCCACAGCTTTTTGTTGTAATACTAGTGATCTTTGGATTCTCCACTGAGAATTTGTATTGTTAATGGCTCATAGTCTGCAGGATAGTGGACTGAATTTCTTGTCTTAAAGCCTAAAAGGCCTAAGAGAGGGCTGGATTAATGTTTTCCGGGTTGAAAATAACACATGCCTAGTAGTCTATGATCTTCATTTCACTTAACTATGATTATATAGCTTATCTGCTTTAAATAATTTTTACTTATTTTCACTGTTTATGTAACAGAAAAAGACTTAACCACTCTGTTTCCATTGATCCTGATTCCGTAAATGATTCTAGTATTAGGCATTTAGACTTAGAATGTATACAAAAACAAGACTAAGCATGCAGTTTCTCTGGATTTCACCAGTAGTTTAATTTCTTACCAATTTTGCTATATATATTAACACATATATCTAATGATAACATCTGTAGGTAGAAGCACTGACGAATCAAGAAGAAGTTGAACTGCGTTCTAAAATTGAAACTCTTGGATTAGAGGTCACGAAAGTTCCCTCAAAGTCAACCAAACAGCTTGACGAGGTGGTTTTCACTCTACAGTTTAGCATTACTTGATTAACATTTCATTGCATGTCTCTAATCTGATGGAATGAAATAGCTTTCTATCATTTCCTTTTTAATTACTTGTTTTGTTTACACAGTTGGAAATAGCAAAGGAGTTGGATAGACTATCAGCAAAATTGGATGATGTTGATGAGATGATATCATCCACCATGGCTACTGATCCTCAAGTGCAGTCCCTCTTGAGTAGTACAGCTGATGTGTGGATGCCAGTCATCACTGCTAACTCCGAGGAAAGACGTAAATTTACAGCATCTCCCGGAGACATCAACACCCAAACAGATGCAGAAAACTCTAAATAA
Protein sequence

>MS.gene81123.t1

MAEEGKPDAQLFQLLSNLLLQVEALTNQEEVELRSKIETLGLEVTKVPSKSTKQLDELEIAKELDRLSAKLDDVDEMISSTMATDPQVQSLLSSTADVWMPVITANSEERRKFTASPGDINTQTDAENSK